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@Article{Agalliu2009,
  Title                    = {{{A}ssociations of high-grade prostate cancer with {B}{R}{C}{A}1 and {B}{R}{C}{A}2 founder mutations}},
  Author                   = {Agalliu, I. and Gern, R. and Leanza, S. and Burk, R. D.},
  Journal                  = {Clin. Cancer Res.},
  Year                     = {2009},

  Month                    = {Feb},
  Number                   = {3},
  Pages                    = {1112--1120},
  Volume                   = {15}
}

@Article{Ahmed1974,
  Title                    = {{{D}iscrete cosine transform}},
  Author                   = {Ahmed, N. and Natarajan, T. and Rao, K.R.},
  Journal                  = {Computers, IEEE Transactions on},
  Year                     = {1974},
  Number                   = {1},
  Pages                    = {90-93},
  Volume                   = {C-23},

  ISSN                     = {0018-9340}
}

@InProceedings{mani2003knn,
  Title                    = {kNN approach to unbalanced data distributions: a case study involving information extraction},
  Author                   = {Mani, I. and Zhang, I.},
  Booktitle                = {Proceedings of Workshop on Learning from Imbalanced Datasets},
  Year                     = {2003}
}

@Article{chawla2002smote,
  Title                    = {SMOTE: synthetic minority over-sampling technique},
  Author                   = {Chawla, N. V. and Bowyer, K. W. and Hall, L. O. and Kegelmeyer, W. P.},
  Journal                  = {Journal of artificial intelligence research},
  Year                     = {2002},
  Pages                    = {321--357}
}

@Article{wolpert1992stacked,
  Title                    = {Stacked generalization},
  Author                   = {Wolpert, D. H.},
  Journal                  = {Neural networks},
  Year                     = {1992},
  Number                   = {2},
  Pages                    = {241--259},
  Volume                   = {5},
  Publisher                = {Elsevier}
}

@InProceedings{Aizerman1964,
  Title                    = {{{T}heoretical foundations of the potential function method in pattern recognition learning}},
  Author                   = {Aizerman, M. A. and Braverman, E. A. and Rozonoer, L.},
  Booktitle                = { Automation and Remote Control, },
  Year                     = { 1964 },
  Number                   = { 25 },
  Pages                    = { 821-837 },

  Added-at                 = {2008-05-27T08:15:25.000+0200},
  Biburl                   = {http://www.bibsonomy.org/bibtex/20ace13b80e1f80aba4a27cb2f1b04b5c/mgrani},
  Interhash                = {4848b39ce0f837dc7b429b700526c5b1},
  Intrahash                = {0ace13b80e1f80aba4a27cb2f1b04b5c}
}

@Article{Akin2006,
  Title                    = {{{T}ransition zone prostate cancers: features, detection, localization, and staging at endorectal {M}{R} imaging}},
  Author                   = {Akin, O. and Sala, E. and Moskowitz, C. S. and Kuroiwa, K. and Ishill, N. M. and Pucar, D. and Scardino, P. T. and Hricak, H. },
  Journal                  = {Radiology},
  Year                     = {2006},

  Month                    = {Jun},
  Number                   = {3},
  Pages                    = {784--792},
  Volume                   = {239}
}

@Article{Alexander2010,
  Title                    = {{{A} review and meta-analysis of prospective studies of red and processed meat intake and prostate cancer}},
  Author                   = {Alexander, D. D. and Mink, P. J. and Cushing, C. A. and Sceurman, B. },
  Journal                  = {Nutr J},
  Year                     = {2010},
  Pages                    = {50},
  Volume                   = {9}
}

@Article{Amadasun1989,
  Title                    = {{{T}extural features corresponding to textural properties}},
  Author                   = {Amadasun, M. and King, R.},
  Journal                  = {Systems, Man and Cybernetics, IEEE Transactions on},
  Year                     = {1989},
  Number                   = {5},
  Pages                    = {1264-1274},
  Volume                   = {19},

  ISSN                     = {0018-9472}
}

@Misc{Society2013,
  Title                    = {{{C}ancer Facts and Figures 2013}},

  Author                   = {American Cancer Society, A. C.},
  HowPublished             = {http://www.cancer.org/research/cancerfactsfigures},
  Note                     = {Accessed: 2013-08-01},
  Year                     = {2013},

  Address                  = {Accessed the 06/2013.},
  Citeulike-article-id     = {10552898},
  Citeulike-linkout-0      = {http://www.cancer.org/Research/CancerFactsFigures/index},
  Journal                  = {American Cancer Society},
  Posted-at                = {2012-04-10 17:38:43},
  Priority                 = {2}
}

@Misc{Society2010,
  Title                    = {{{C}ancer Facts and Figures 2010}},

  Author                   = {American Cancer Society, A. C.},
  HowPublished             = {http://www.cancer.org/research/cancerfactsfigures},
  Note                     = {Accessed: 2013-08-01},
  Year                     = {2010},

  Citeulike-article-id     = {10552898},
  Citeulike-linkout-0      = {http://www.cancer.org/Research/CancerFactsFigures/index},
  Journal                  = {American Cancer Society},
  Posted-at                = {2012-04-10 17:38:43},
  Priority                 = {2},
  Url                      = {http://www.cancer.org/research/cancerfactsfigures}
}

@Conference{Ampeliotis2007,
  Title                    = {{{C}omputer aided detection of prostate cancer using fused information from dynamic contrast enhanced and morphological magnetic resonance images}},
  Author                   = {Ampeliotis, D. and Anonakoudi, A. and Berberidis, K. and Psarakis, E. Z.},
  Booktitle                = {IEEE International Conference on Signal Processing and Communications},
  Year                     = {2007},
  Pages                    = {888-891},

  File                     = {:../../../../Computer-Aided Diagnosis/A Computer-Aided System for the Detection of Prostate Cancer using Fused Information from Dynamic Enhanced and Morphological MRI - Ampeliotis 2007.pdf:PDF:}
}

@Conference{Ampeliotis2008,
  Title                    = {{{A} computer-aided system for the detection of prostate cancer based on magnetic resonance image analysis}},
  Author                   = {Ampeliotis, D. and Anonakoudi, A. and Berberidis, K. and Psarakis, E. Z. and Kounoudes, A.},
  Booktitle                = {International Symposium on Communications, Control and Signal Processing},
  Year                     = {2008},

  File                     = {:../../../../Computer-Aided Diagnosis/A Computer-Aided System for the Detection of Prostate Cancer Based on MRI Analysis - Ampeliotis Kanoudes.pdf:PDF:}
}

@Article{Amundadottir2006,
  Title                    = {{{A} common variant associated with prostate cancer in {E}uropean and {A}frican populations}},
  Author                   = {Amundadottir, L. T. and Sulem, P. and Gudmundsson, J. and Helgason, A. and Baker, A. and Agnarsson, B. A. and Sigurdsson, A. and Benediktsdottir, K. R. and Cazier, J. B. and Sainz, J. and Jakobsdottir, M. and Kostic, J. and Magnusdottir, D. N. and Ghosh, S. and Agnarsson, K. and Birgisdottir, B. and Le Roux, L. and Olafsdottir, A. and Blondal, T. and Andresdottir, M. and Gretarsdottir, O. S. and Bergthorsson, J. T. and Gudbjartsson, D. and Gylfason, A. and Thorleifsson, G. and Manolescu, A. and Kristjansson, K. and Geirsson, G. and Isaksson, H. and Douglas, J. and Johansson, J. E. and Balter, K. and Wiklund, F. and Montie, J. E. and Yu, X. and Suarez, B. K. and Ober, C. and Cooney, K. A. and Gronberg, H. and Catalona, W. J. and Einarsson, G. V. and Barkardottir, R. B. and Gulcher, J. R. and Kong, A. and Thorsteinsdottir, U. and Stefansson, K.},
  Journal                  = {Nat. Genet.},
  Year                     = {2006},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {652--658},
  Volume                   = {38}
}

@Article{Andriole2009,
  Title                    = {{{M}ortality results from a randomized Prostate-cancer screening trial}},
  Author                   = {Andriole, Gerald L. and Crawford, E. David and Grubb, Robert L. and Buys, Saundra S. and Chia, David and Church, Timothy R. and Fouad, Mona N. and Gelmann, Edward P. and Kvale, Paul A. and Reding, Douglas J. and Weissfeld, Joel L. and Yokochi, Lance A. and O'Brien, Barbara and Clapp, Jonathan D. and Rathmell, Joshua M. and Riley, Thomas L. and Hayes, Richard B. and Kramer, Barnett S. and Izmirlian, Grant and Miller, Anthony B. and Pinsky, Paul F. and Prorok, Philip C. and Gohagan, John K. and Berg, Christine D.},
  Journal                  = {New England Journal of Medicine},
  Year                     = {2009},
  Number                   = {13},
  Pages                    = {1310-1319},
  Volume                   = {360}
}

@InProceedings{Antic2013,
  Title                    = {{{A} study of {T}2-weighted {M}{R} image texture features and diffusion-weighted {M}{R} image features for computer-aided diagnosis of prostate cancer}},
  Author                   = {Antic, Tatjana and Peng, Yahui and Jiang, Yulei and Giger, Maryellen L. and Eggener, Scott and Oto, Aytekin},
  Booktitle                = {Proc. SPIE 8670, Medical Imaging 2013: Computer-Aided Diagnosis},
  Year                     = {2013},
  Pages                    = {86701H-86701H-6},

  File                     = {:../../../../Computer-Aided Diagnosis/A study of T2-weighted MR image texture features and diffusion-weighted MR image features for computer-aided diagnosis of prostate cancer - Peng 2013.pdf:PDF:}
}

@Article{Artan2010,
  Title                    = {{{P}rostate cancer localization with multispectral {M}{R}{I} using cost-sensitive support vector machines and conditional random fields}},
  Author                   = {Artan, Y. and Haider, M. A. and Langer, D. L. and van der Kwast, T. H. and Evans, A. J. and Yang, Y. and Wernick, M. N. and Trachtenberg, J. and Yetik, I. S.},
  Journal                  = {IEEE Trans Image Process},
  Year                     = {2010},

  Month                    = {Sep},
  Number                   = {9},
  Pages                    = {2444--2455},
  Volume                   = {19},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer localization with multispectral MRI using cost-sensitive support vector machines and conditional random field - Artan 2010.pdf:PDF:}
}

@InProceedings{Artan2009,
  Title                    = {{{P}rostate cancer segmentation with multispectral {M}{R}{I} using cost-sensitive {C}onditional {R}andom {F}ields}},
  Author                   = {Artan, Y. and Langer, D.L. and Haider, M.A. and Van der Kwast, T. H. and Evans, A.J. and Wernick, M.N. and Yetik, I.S.},
  Booktitle                = {Biomedical Imaging: From Nano to Macro, 2009. ISBI '09. IEEE International Symposium on},
  Year                     = {2009},
  Pages                    = {278-281},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer segmentation using multispectral random walks - Artan 2010.pdf:PDF:},
  ISSN                     = {1945-7928}
}

@Article{Awwad2012,
  Title                    = {{{T}he role of choline in prostate cancer}},
  Author                   = {Awwad, H. M. and Geisel, J. and Obeid, R. },
  Journal                  = {Clin. Biochem.},
  Year                     = {2012},

  Month                    = {Dec},
  Number                   = {18},
  Pages                    = {1548--1553},
  Volume                   = {45}
}

@Article{Barentsz2012,
  Title                    = {{{E}{S}{U}{R} prostate {M}{R} guidelines 2012}},
  Author                   = {Barentsz, J. O. and Richenberg, J. and Clements, R. and Choyke, P. and Verma, S. and Villeirs, G. and Rouviere, O. and Logager, V. and Futterer, J. J. },
  Journal                  = {Eur Radiol},
  Year                     = {2012},

  Month                    = {Apr},
  Number                   = {4},
  Pages                    = {746--757},
  Volume                   = {22}
}

@InProceedings{Belkin2001,
  Title                    = {{{L}aplacian eigenmaps and spectral techniques for embedding and clustering}},
  Author                   = {Belkin, M. and Niyogi, P.},
  Booktitle                = {Advances in Neural Information Processing Systems 14},
  Year                     = {2001},
  Pages                    = {585--591},
  Publisher                = {MIT Press}
}

@Article{Belongie2002,
  Title                    = {{{S}hape matching and object recognition using shape contexts}},
  Author                   = {Belongie, S. and Malik, J. and Puzicha, J.},
  Journal                  = {Pattern Analysis and Machine Intelligence, IEEE Transactions on},
  Year                     = {2002},
  Number                   = {4},
  Pages                    = {509-522},
  Volume                   = {24},

  ISSN                     = {0162-8828}
}

@Article{Benassi1998,
  Title                    = {{{I}dentifying the multifractional function of a {G}aussian process}},
  Author                   = {Benassi, A. and Cohen, S. and Istas, J.},
  Journal                  = {Statistics \& Probability Letters },
  Year                     = {1998},
  Number                   = {4},
  Pages                    = {337 - 345},
  Volume                   = {39},

  ISSN                     = {0167-7152}
}

@Book{Bishop2006,
  Title                    = {{{P}attern recognition and machine learning}},
  Author                   = {Bishop, Christopher M.},
  Publisher                = {Springer-Verlag New York, Inc.},
  Year                     = {2006},

  Address                  = {Secaucus, NJ, USA},

  ISBN                     = {0387310738}
}


@Book{murphy2012machine,
  Title                   = {Machine learning: a probabilistic perspective},
  Author                  = {Murphy, K. P.},
  Year                    = {2012},
  Publisher               = {MIT press}
}

@Article{comon1994independent,
  Title                  = {Independent component analysis, a new concept?},
  Author                 = {Comon, P.},
  Journal                = {Signal processing},
  Volume                 = {36},
  Number                 = {3},
  Pages                  = {287--314},
  Year                   = {1994},
  Publisher              = {Elsevier}
}

@Article{zou2006sparse,
  Title                 = {Sparse principal component analysis},
  Author                = {Zou, Hui and Hastie, Trevor and Tibshirani, Robert},
  Journal               = {Journal of computational and graphical statistics},
  Volume                = {15},
  Number                = {2},
  Pages                 = {265--286},
  Year                  = {2006},
  Publisher             = {Taylor \& Francis}
}

@Inproceedings{han2005borderline,
  Title                 = {Borderline-SMOTE: a new over-sampling method in imbalanced data sets learning},
  Author                = {Han, H. and Wang, W. Y. and Mao, B. H.},
  Booktitle             = {International Conference on Intelligent Computing},
  Pages                 = {878--887},
  Year                  = {2005},
  Organization          = {Springer}
}

@Article{smith2014instance,
  Title                 = {An instance level analysis of data complexity},
  Author                = {Smith, M. R. and Martinez, T. and Giraud-Carrier, C.},
  Journal               = {Machine learning},
  Volume                = {95},
  Number                = {2},
  Pages                 = {225--256},
  Year                  = {2014},
  Publisher             = {Springer}
}


@Article{Bookstein1989,
  Title                    = {{{P}rincipal warps: thin-plate splines and the decomposition of deformations}},
  Author                   = {Bookstein, F. L.},
  Journal                  = {Pattern Analysis and Machine Intelligence, IEEE Transactions on},
  Year                     = {1989},
  Number                   = {6},
  Pages                    = {567-585},
  Volume                   = {11},

  ISSN                     = {0162-8828}
}

@InProceedings{Boser1992,
  Title                    = {{{A} training algorithm for optimal margin classifiers}},
  Author                   = {Boser, B. E. and Guyon, I. M. and Vapnik, V. N.},
  Booktitle                = {Proceedings of the Fifth Annual Workshop on Computational Learning Theory},
  Year                     = {1992},

  Address                  = {New York, NY, USA},
  Pages                    = {144--152},
  Publisher                = {ACM},
  Series                   = {COLT '92},

  Acmid                    = {130401},
  ISBN                     = {0-89791-497-X},
  Location                 = {Pittsburgh, Pennsylvania, USA},
  Numpages                 = {9}
}

@Article{Bourdoumis2010,
  Title                    = {{{T}he novel prostate cancer antigen 3 ({P}{C}{A}3) biomarker}},
  Author                   = {Bourdoumis, A. and Papatsoris, A. G. and Chrisofos, M. and Efstathiou, E. and Skolarikos, A. and Deliveliotis, C.},
  Journal                  = {Int Braz J Urol},
  Year                     = {2010},
  Number                   = {6},
  Pages                    = {665--668},
  Volume                   = {36}
}

@Article{Breiman2001,
  Title                    = {{{R}andom forests}},
  Author                   = {Breiman, L.},
  Journal                  = {Machine Learning},
  Year                     = {2001},
  Number                   = {1},
  Pages                    = {5-32},
  Volume                   = {45},

  Bibsource                = {DBLP, http://dblp.uni-trier.de},
  Ee                       = {http://dx.doi.org/10.1023/A:1010933404324}
}

@Article{Breiman1996,
  Title                    = {{{B}agging predictors}},
  Author                   = {Breiman, L.},
  Journal                  = {Machine Learning},
  Year                     = {1996},
  Number                   = {2},
  Pages                    = {123-140},
  Volume                   = {24},

  Bibsource                = {DBLP, http://dblp.uni-trier.de},
  Ee                       = {http://dx.doi.org/10.1007/BF00058655}
}

@Book{Breiman1984,
  Title                    = {{{C}lassification and regression trees}},
  Author                   = {Breiman, L. and Friedman, J. and Olshen, R. and Stone, C.},
  Publisher                = {Wadsworth and Brooks},
  Year                     = {1984},

  Address                  = {Monterey, CA},

  Remarks                  = {cited in \cite{cslu:esca98mm, cslu:icslp98cronk, cstr:unitsel97} for CART, clustering, and decision trees}
}

@InCollection{Brenner2013,
  Title                    = {{{E}{T}{S} fusion genes in prostate cancer}},
  Author                   = {Brenner, J.Chad and Chinnaiyan, ArulM. and Tomlins, ScottA.},
  Booktitle                = {Prostate Cancer},
  Publisher                = {Springer New York},
  Year                     = {2013},
  Editor                   = {Tindall, Donald J.},
  Pages                    = {139-183},
  Series                   = {Protein Reviews},
  Volume                   = {16},

  ISBN                     = {978-1-4614-6827-1},
  Language                 = {English}
}

@Article{Buades2005,
  Title                    = {{{A} review of image denoising algorithms, with a new one}},
  Author                   = {Buades, A. and Coll, B. and Morel, J.M.},
  Journal                  = {Simul},
  Year                     = {2005},
  Pages                    = {490--530},
  Volume                   = {4}
}

@Article{Buckley2004,
  Title                    = {{{P}rostate cancer: evaluation of vascular characteristics with dynamic contrast-enhanced {T}1-weighted {M}{R} imaging--initial experience}},
  Author                   = {Buckley, D. L. and Roberts, C. and Parker, G. J. and Logue, J. P. and Hutchinson, C. E. },
  Journal                  = {Radiology},
  Year                     = {2004},

  Month                    = {Dec},
  Number                   = {3},
  Pages                    = {709--715},
  Volume                   = {233}
}

@Article{Byrd1995,
  Title                    = {{{A} limited memory algorithm for bound constrained optimization}},
  Author                   = {Byrd, Richard H. and Lu, Peihuang and Nocedal, Jorge and Zhu, Ciyou},
  Journal                  = {SIAM J. Sci. Comput.},
  Year                     = {1995},

  Month                    = sep,
  Number                   = {5},
  Pages                    = {1190--1208},
  Volume                   = {16},

  Acmid                    = {210980},
  Address                  = {Philadelphia, PA, USA},
  ISSN                     = {1064-8275},
  Issue_date               = {Sept. 1995},
  Numpages                 = {19},
  Publisher                = {Society for Industrial and Applied Mathematics}
}

@Article{Carmeliet2000,
  Title                    = {{{A}ngiogenesis in cancer and other diseases}},
  Author                   = {Carmeliet, P. and Jain, R. K. },
  Journal                  = {Nature},
  Year                     = {2000},

  Month                    = {Sep},
  Number                   = {6801},
  Pages                    = {249--257},
  Volume                   = {407}
}

@Article{Carrol1987,
  Title                    = {{{T}he abnormal prostate: {M}{R} imaging at 1.5 {T} with histopathologic correlation}},
  Author                   = {Carrol, C. L. and Sommer, F. G. and McNeal, J. E. and Stamey, T. A.},
  Journal                  = {Radiology},
  Year                     = {1987},

  Month                    = {May},
  Number                   = {2},
  Pages                    = {521--525},
  Volume                   = {163}
}

@Article{Castorina2006,
  Title                    = {{{C}lassification scheme for phenomenological universalities in growth problems in physics and other sciences}},
  Author                   = {Castorina, P. and Delsanto, P. P. and Guiot, C.},
  Journal                  = {Phys. Rev. Lett.},
  Year                     = {2006},

  Month                    = {May},
  Pages                    = {188701},
  Volume                   = {96},

  Issue                    = {18},
  Numpages                 = {4},
  Publisher                = {American Physical Society}
}

@Article{Chan1987,
  Title                    = {{{I}mage feature analysis and computer-aided diagnosis in digital radiography. {I}. {A}utomated detection of microcalcifications in mammography}},
  Author                   = {Chan, H. P. and Doi, K. and Galhotra, S. and Vyborny, C. J. and MacMahon, H. and Jokich, P. M. },
  Journal                  = {Med Phys},
  Year                     = {1987},
  Number                   = {4},
  Pages                    = {538--548},
  Volume                   = {14}
}

@Article{Chan2008,
  Title                    = {{{C}omputer-aided diagnosis of lung cancer and pulmonary embolism in computed tomography-a review}},
  Author                   = {Chan, H. P. and Hadjiiski, L. and Zhou, C. and Sahiner, B. },
  Journal                  = {Acad Radiol},
  Year                     = {2008},

  Month                    = {May},
  Number                   = {5},
  Pages                    = {535--555},
  Volume                   = {15},

  File                     = {:../../../..s/For Article/CAD review/Computer-aided diagnosis of lung cancer and pulmonary embolism in computed tomography a review - Chan 2008:PDF:}
}

@Article{Chan1999,
  Title                    = {{{I}mprovement of radiologists' characterization of mammographic masses by using computer-aided diagnosis: an {R}{O}{C} study}},
  Author                   = {Chan, H. P. and Sahiner, B. and Helvie, M. A. and Petrick, N. and Roubidoux, M. A. and Wilson, T. E. and Adler, D. D. and Paramagul, C. and Newman, J. S. and Sanjay-Gopal, S. },
  Journal                  = {Radiology},
  Year                     = {1999},

  Month                    = {Sep},
  Number                   = {3},
  Pages                    = {817--827},
  Volume                   = {212}
}

@Article{Chan2003,
  Title                    = {{{D}etection of prostate cancer by integration of line-scan diffusion, {T}2-mapping and {T}2-weighted magnetic resonance imaging; a multichannel statistical classifier}},
  Author                   = {Chan, I. and Wells, W. and Mulkern, R. V. and Haker, S. and Zhang, J. and Zou, K. H. and Maier, S. E. and Tempany, C. M.},
  Journal                  = {Med Phys},
  Year                     = {2003},

  Month                    = {Sep},
  Number                   = {9},
  Pages                    = {2390--2398},
  Volume                   = {30},

  File                     = {:../../../../Computer-Aided Diagnosis/Detection of prostate cancer by integration of line-scan diffusion, T2-mapping and T2-weighted magnetic resonance imaging a multichannel statistical classifier - Chan 2003:PDF}
}

@Article{Chappelow2011,
  Title                    = {{{E}lastic registration of multimodal prostate {M}{R}{I} and histology via multiattribute combined mutual information}},
  Author                   = {Chappelow, J. and Bloch, B. N. and Rofsky, N. and Genega, E. and Lenkinski, R. and DeWolf, W. and Madabhushi, A.},
  Journal                  = {Med Phys},
  Year                     = {2011},

  Month                    = {Apr},
  Number                   = {4},
  Pages                    = {2005--2018},
  Volume                   = {38}
}

@Article{Chen2002,
  Title                    = {{{A}n efficient algorithm for automatic phase correction of \{NMR\} spectra based on entropy minimization }},
  Author                   = {Li Chen and Zhiqiang Weng and LaiYoong Goh and Marc Garland},
  Journal                  = {Journal of Magnetic Resonance },
  Year                     = {2002},
  Number                   = {1–2},
  Pages                    = {164 - 168},
  Volume                   = {158},

  ISSN                     = {1090-7807}
}


@inproceedings{Chen2008,
  title={Automatic determination of arterial input function for dynamic contrast enhanced MRI in tumor assessment},
  author={Chen, Jeremy and Yao, Jianhua and Thomasson, David},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={594--601},
  year={2008},
  organization={Springer},
  doi={10.1007/978-3-540-85988-8_71}
}


@Article{Cheng2010,
  Title                    = {{{A}utomated breast cancer detection and classification using ultrasound images: {A} survey}},
  Author                   = {Cheng, H. D. and Shan, Juan and Ju, Wen and Guo, Yanhui and Zhang, Ling},
  Journal                  = {Pattern Recogn.},
  Year                     = {2010},

  Month                    = jan,
  Number                   = {1},
  Pages                    = {299--317},
  Volume                   = {43},

  Acmid                    = {1595961},
  Address                  = {New York, NY, USA},
  File                     = {:../../../../For Article/CAD review/Automated breast cancer detection and classification using ultrasound images A survey - Cheng 2010:PDF:},
  ISSN                     = {0031-3203},
  Issue_date               = {January, 2010},
  Numpages                 = {19},
  Publisher                = {Elsevier Science Inc.}
}

@Article{Chilali2014,
  Title                    = {{{A} survey of prostate modeling for image analysis}},
  Author                   = {Chilali, O. and Ouzzane, A. and Diaf, M. and Betrouni, N.},
  Journal                  = {Computers in Biology and Medicine },
  Year                     = {2014},
  Number                   = {0},
  Pages                    = {190 - 202},
  Volume                   = {53}
}

@Article{Choi2007,
  Title                    = {{{F}unctional {M}{R} imaging of prostate cancer}},
  Author                   = {Choi, Y. J. and Kim, J. K. and Kim, N. and Kim, K. W. and Choi, E. K. and Cho, K. S.},
  Journal                  = {Radiographics},
  Year                     = {2007},
  Pages                    = {63--75},
  Volume                   = {27},

  Abstract                 = {T2-weighted magnetic resonance (MR) imaging has been widely used for pretreatment work-up for prostate cancer, but its accuracy for the detection and localization of prostate cancer is unsatisfactory. To improve the utility of MR imaging for diagnostic evaluation, various other techniques may be used. Dynamic contrast material-enhanced MR imaging allows an assessment of parameters that are useful for differentiating cancer from normal tissue. The advantages of this technique include the direct depiction of tumor vascularity and, possibly, obviation of an endorectal coil; however, there also are disadvantages, such as limited visibility of cancer in the transitional zone. Diffusion-weighted imaging demonstrates the restriction of diffusion and the reduction of apparent diffusion coefficient values in cancerous tissue. This technique allows short acquisition time and provides high contrast resolution between cancer and normal tissue, but individual variability in apparent diffusion coefficient values may erode diagnostic performance. The accuracy of MR spectroscopy, which depicts a higher ratio of choline and creatine to citrate in cancerous tissue than in normal tissue, is generally accepted. The technique also allows detection of prostate cancer in the transitional zone. However, it requires a long acquisition time, does not directly depict the periprostatic area, and frequently is affected by artifacts. Thus, a comprehensive evaluation in which both functional and anatomic MR imaging techniques are used with an understanding of their particular advantages and disadvantages may help improve the accuracy of MR for detection and localization of prostate cancer.},
  File                     = {:/home/lemaitre/Documents/Work/Thesis/Literature/Papers/Prostate Cancer/Medecine-Oriented/MRI - MRSI/Review/Functional MR Imaging of Prostate Cancer - Choi 2002.pdf:PDF}
}

@Article{Chou2011,
  Title                    = {{{S}creening for prostate cancer: a review of the evidence for the {U}.{S}. {P}reventive {S}ervices {T}ask {F}orce}},
  Author                   = {Chou, R. and Croswell, J. M. and Dana, T. and Bougatsos, C. and Blazina, I. and Fu, R. and Gleitsmann, K. and Koenig, H. C. and Lam, C. and Maltz, A. and Rugge, J. B. and Lin, K. },
  Journal                  = {Ann. Intern. Med.},
  Year                     = {2011},

  Month                    = {Dec},
  Number                   = {11},
  Pages                    = {762--771},
  Volume                   = {155}
}

@Article{Coakley2000,
  Title                    = {{{R}adiologic anatomy of the prostate gland: a clinical approach}},
  Author                   = {Coakley, F. V. and Hricak, H.},
  Journal                  = {Radiol. Clin. North Am.},
  Year                     = {2000},

  Month                    = {Jan},
  Pages                    = {15--30},
  Volume                   = {38},

  Abstract                 = {Familiarity with normal anatomy is critical to interpretation of imaging of the prostate and peri-prostatic structures. This is especially true for MR imaging, which depicts these structures with exquisite detail due to high spatial resolution, superior contrast resolution, multiplanar capability, and large field of view. Anatomic understanding plays a key role in the assessment and management of prostatic disease, and allows evaluation of anatomic disturbances that may result from prostatic disease or therapy, and which may have functional consequences, particularly for continence and potency.}
}

@Article{Cohen2008,
  Title                    = {{{C}entral zone carcinoma of the prostate gland: a distinct tumor type with poor prognostic features}},
  Author                   = {Cohen, R. J. and Shannon, B. A. and Phillips, M. and Moorin, R. E. and Wheeler, T. M. and Garrett, K. L. },
  Journal                  = {J. Urol.},
  Year                     = {2008},

  Month                    = {May},
  Number                   = {5},
  Pages                    = {1762--1767},
  Volume                   = {179}
}

@Article{Coifman1992,
  Title                    = {{{E}ntropy-based algorithms for best basis selection}},
  Author                   = {Coifman, R.R. and Wickerhauser, M.V.},
  Journal                  = {Information Theory, IEEE Transactions on},
  Year                     = {1992},
  Number                   = {2},
  Pages                    = {713-718},
  Volume                   = {38},

  ISSN                     = {0018-9448}
}

@TechReport{Coleman1993,
  Title                    = {{{A}n interior trust region approach for nonlinear minimization subject to bounds}},
  Author                   = {Coleman, T.F. and Li, Y.},
  Institution              = {Cornell University},
  Year                     = {1993},

  Quality                  = {1}
}

@Article{Cootes1995,
  Title                    = {{{A}ctive shape models\&Mdash;{T}heir training and application}},
  Author                   = {Cootes, T. F. and Taylor, C. J. and Cooper, D. H. and Graham, J.},
  Journal                  = {Comput. Vis. Image Underst.},
  Year                     = {1995},

  Month                    = jan,
  Number                   = {1},
  Pages                    = {38--59},
  Volume                   = {61},

  Acmid                    = {206547},
  Address                  = {New York, NY, USA},
  ISSN                     = {1077-3142},
  Issue_date               = {Jan. 1995},
  Numpages                 = {22},
  Publisher                = {Elsevier Science Inc.}
}

@Article{Cortes1995,
  Title                    = {{{S}upport-{V}ector networks}},
  Author                   = {Cortes, C. and Vapnik, V.},
  Journal                  = {Machine Learning},
  Year                     = {1995},
  Number                   = {3},
  Pages                    = {273-297},
  Volume                   = {20},

  ISSN                     = {0885-6125},
  Language                 = {English},
  Publisher                = {Kluwer Academic Publishers-Plenum Publishers}
}

@Article{Costello2006,
  Title                    = {{{T}he clinical relevance of the metabolism of prostate cancer; zinc and tumor suppression: connecting the dots}},
  Author                   = {Costello, L. C. and Franklin, R. B. },
  Journal                  = {Mol. Cancer},
  Year                     = {2006},
  Pages                    = {17},
  Volume                   = {5}
}

@Article{Cruz2002,
  Title                    = {{{C}haracterization of low-intensity lesions in the peripheral zone of prostate on pre-biopsy endorectal coil {M}{R} imaging}},
  Author                   = {Cruz, M. and Tsuda, K. and Narumi, Y. and Kuroiwa, Y. and Nose, T. and Kojima, Y. and Okuyama, A. and Takahashi, S. and Aozasa, K. and Barentsz, J. O. and Nakamura, H. },
  Journal                  = {Eur Radiol},
  Year                     = {2002},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {357--365},
  Volume                   = {12}
}

@Article{Dachman2010,
  Title                    = {{{E}ffect of computer-aided detection for {C}{T} colonography in a multireader, multicase trial}},
  Author                   = {Dachman, A. H. and Obuchowski, N. A. and Hoffmeister, J. W. and Hinshaw, J. L. and Frew, M. I. and Winter, T. C. and Van Uitert, R. L. and Periaswamy, S. and Summers, R. M. and Hillman, B. J. },
  Journal                  = {Radiology},
  Year                     = {2010},

  Month                    = {Sep},
  Number                   = {3},
  Pages                    = {827--835},
  Volume                   = {256}
}

@InProceedings{Dalal2005,
  Title                    = {{{H}istograms of oriented gradients for human detection}},
  Author                   = {Dalal, N. and Triggs, B.},
  Booktitle                = {Computer Vision and Pattern Recognition, 2005. CVPR 2005. IEEE Computer Society Conference on},
  Year                     = {2005},
  Pages                    = {886-893 vol. 1},
  Volume                   = {1},

  ISSN                     = {1063-6919}
}

@Article{Daugman1985,
  Title                    = {{{U}ncertainty relation for resolution in space, spatial frequency, and orientation optimized by two-dimensional visual cortical filters}},
  Author                   = {Daugman, J. G.},
  Journal                  = {J Opt Soc Am A},
  Year                     = {1985},

  Month                    = {Jul},
  Number                   = {7},
  Pages                    = {1160--1169},
  Volume                   = {2}
}

@Article{Dean2006,
  Title                    = {{{I}mproved cancer detection using computer-aided detection with diagnostic and screening mammography: prospective study of 104 cancers}},
  Author                   = {Dean, J. C. and Ilvento, C. C. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2006},

  Month                    = {Jul},
  Number                   = {1},
  Pages                    = {20--28},
  Volume                   = {187}
}

@Article{Delongchamps2013,
  Title                    = {{{P}rebiopsy magnetic resonance imaging and prostate cancer detection: comparison of random and targeted biopsies}},
  Author                   = {Delongchamps, N. B. and Peyromaure, M. and Schull, A. and Beuvon, F. and Bouazza, N. and Flam, T. and Zerbib, M. and Muradyan, N. and Legman, P. and Cornud, F.},
  Journal                  = {J. Urol.},
  Year                     = {2013},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {493--499},
  Volume                   = {189}
}

@Article{Delpierre2013,
  Title                    = {{{L}ife expectancy estimates as a key factor in over-treatment: the case of prostate cancer}},
  Author                   = {Delpierre, C. and Lamy, S. and Kelly-Irving, M. and Molinie, F. and Velten, M. and Tretarre, B. and Woronoff, A. S. and Buemi, A. and Lapotre-Ledoux, B. and Bara, S. and Guizard, A. V. and Colonna, M. and Grosclaude, P. },
  Journal                  = {Cancer Epidemiol},
  Year                     = {2013},

  Month                    = {Aug},
  Number                   = {4},
  Pages                    = {462--468},
  Volume                   = {37}
}

@Article{Devos2004,
  Title                    = {{{C}lassification of brain tumours using short echo time 1{H} {M}{R} spectra}},
  Author                   = {Devos, A. and Lukas, L. and Suykens, J. A. and Vanhamme, L. and Tate, A. R. and Howe, F. A. and Majos, C. and Moreno-Torres, A. and van der Graaf, M. and Arus, C. and Van Huffel, S. },
  Journal                  = {J. Magn. Reson.},
  Year                     = {2004},

  Month                    = {Sep},
  Number                   = {1},
  Pages                    = {164--175},
  Volume                   = {170}
}

@Patent{Doi1987,
  Title                    = {{{M}ethod and system for enhancement and detection of abnormal anatomic regions in a digital image}},
  Nationality              = {US},
  Number                   = {US4907156 A},
  Year                     = {1990},
  Yearfiled                = {1987},
  Author                   = {Doi, K. and Chan, H. P. and Giger, M.},
  Day                      = {6},
  Dayfiled                 = {30},
  Language                 = {English},
  Month                    = {March},
  Monthfiled               = {June}
}

@Article{Donoho1994,
  Title                    = {{{I}deal spatial adaptation by wavelet shrinkage}},
  Author                   = {Donoho, D. L. and Johnstone, J. M.},
  Journal                  = {Biometrika},
  Year                     = {1994},
  Number                   = {3},
  Pages                    = {425-455},
  Volume                   = {81}
}

@Article{Doo2012,
  Title                    = {{{D}etectability of low and intermediate or high risk prostate cancer with combined {T}2-weighted and diffusion-weighted {M}{R}{I}}},
  Author                   = {Doo, K. W. and Sung, D. J. and Park, B. J. and Kim, M. J. and Cho, S. B. and Oh, Y. W. and Ko, Y. H. and Yang, K. S. },
  Journal                  = {Eur Radiol},
  Year                     = {2012},

  Month                    = {Aug},
  Number                   = {8},
  Pages                    = {1812--1819},
  Volume                   = {22}
}

@Article{Eadie2012,
  Title                    = {{{A} systematic review of computer-assisted diagnosis in diagnostic cancer imaging}},
  Author                   = {Eadie, L. H. and Taylor, P. and Gibson, A. P. },
  Journal                  = {Eur J Radiol},
  Year                     = {2012},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {e70--76},
  Volume                   = {81},

  File                     = {:../../../../For Article/CAD review/A systematic review of computer-assisted diagnosis in diagnostic cancer imaging - Eadie 2012.pdf:PDF:}
}

@Article{Efron1983,
  Title                    = {{{E}stimating the error rate of a prediction rule: {I}mprovement on cross-validation}},
  Author                   = {Efron, B.},
  Journal                  = {Journal of the American Statistical Association},
  Year                     = {1983},
  Number                   = {382},
  Pages                    = {pp. 316-331},
  Volume                   = {78},

  Abstract                 = {We construct a prediction rule on the basis of some data, and then wish to estimate the error rate of this rule in classifying future observations. Cross-validation provides a nearly unbiased estimate, using only the original data. Cross-validation turns out to be related closely to the bootstrap estimate of the error rate. This article has two purposes: to understand better the theoretical basis of the prediction problem, and to investigate some related estimators, which seem to offer considerably improved estimation in small samples.},
  Copyright                = {Copyright © 1983 American Statistical Association},
  ISSN                     = {01621459},
  Jstor_articletype        = {research-article},
  Jstor_formatteddate      = {Jun., 1983},
  Language                 = {English},
  Publisher                = {American Statistical Association}
}

@Article{Efron1979,
  Title                    = {{{B}ootstrap methods: Another look at the jackknife}},
  Author                   = {Efron, B.},
  Journal                  = {The Annals of Statistics},
  Year                     = {1979},

  Month                    = {01},
  Number                   = {1},
  Pages                    = {1--26},
  Volume                   = {7},

  Ajournal                 = {Ann. Statist.},
  Publisher                = {The Institute of Mathematical Statistics}
}

@Article{Elter2009,
  Title                    = {{{C}{A}{D}x of mammographic masses and clustered microcalcifications: a review}},
  Author                   = {Elter, M. and Horsch, A. },
  Journal                  = {Med Phys},
  Year                     = {2009},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {2052--2068},
  Volume                   = {36},

  File                     = {:../../../../For Article/CAD review/CADx of mammographic masses and clustered microcalcifications a review - Elter 2009:PDF:}
}

@Article{Epstein2005,
  Title                    = {{{T}he 2005 {I}nternational {S}ociety of {U}rological {P}athology ({I}{S}{U}{P}) {C}onsensus {C}onference on {G}leason {G}rading of {P}rostatic {C}arcinoma}},
  Author                   = {Epstein, J. I. and Allsbrook, W. C. and Amin, M. B. and Egevad, L. L.},
  Journal                  = {Am. J. Surg. Pathol.},
  Year                     = {2005},

  Month                    = {Sep},
  Number                   = {9},
  Pages                    = {1228--1242},
  Volume                   = {29}
}

@Article{Etzioni2002,
  Title                    = {{{O}verdiagnosis due to prostate-specific antigen screening: lessons from {U}.{S}. prostate cancer incidence trends}},
  Author                   = {Etzioni, R. and Penson, D. F. and Legler, J. M. and di Tommaso, D. and Boer, R. and Gann, P. H. and Feuer, E. J. },
  Journal                  = {J. Natl. Cancer Inst.},
  Year                     = {2002},

  Month                    = {Jul},
  Number                   = {13},
  Pages                    = {981--990},
  Volume                   = {94}
}

@Article{Ferlay2010,
  Title                    = {{{E}stimates of worldwide burden of cancer in 2008: {G}{L}{O}{B}{O}{C}{A}{N} 2008}},
  Author                   = {Ferlay, J. and Shin, H. R. and Bray, F. and Forman, D. and Mathers, C. and Parkin, D. M. },
  Journal                  = {Int. J. Cancer},
  Year                     = {2010},

  Month                    = {Dec},
  Number                   = {12},
  Pages                    = {2893--2917},
  Volume                   = {127},

  File                     = {:../../../../For Article/Estimates of worldwide burden of cancer in 2008 GLOBOCAN 2008 - Ferlay 2008.pdf:PDF:}
}

@Misc{Fodor2002,
  Title                    = {{{A} survey of dimension reduction techniques}},

  Author                   = {Fodor, I.K.},
  Year                     = {2002},

  Publisher                = {Technical Report UCRL-ID-148494, Lawrence Livermore National Laboratory}
}

@Article{Fred2005,
  Title                    = {{{C}ombining multiple clusterings using evidence accumulation}},
  Author                   = {Fred, A.L.N. and Jain, A.K.},
  Journal                  = {Pattern Analysis and Machine Intelligence, IEEE Transactions on},
  Year                     = {2005},
  Number                   = {6},
  Pages                    = {835-850},
  Volume                   = {27},

  ISSN                     = {0162-8828}
}

@Article{Freedman2006,
  Title                    = {{{A}dmixture mapping identifies 8q24 as a prostate cancer risk locus in {A}frican-{A}merican men}},
  Author                   = {Freedman, M. L. and Haiman, C. A. and Patterson, N. and McDonald, G. J. and Tandon, A. and Waliszewska, A. and Penney, K. and Steen, R. G. and Ardlie, K. and John, E. M. and Oakley-Girvan, I. and Whittemore, A. S. and Cooney, K. A. and Ingles, S. A. and Altshuler, D. and Henderson, B. E. and Reich, D. },
  Journal                  = {Proc. Natl. Acad. Sci. U.S.A.},
  Year                     = {2006},

  Month                    = {Sep},
  Number                   = {38},
  Pages                    = {14068--14073},
  Volume                   = {103}
}

@Article{Freund1997,
  Title                    = {{{A} decision-theoretic generalization of on-line learning and an application to boosting}},
  Author                   = {Freund, Y. and Schapire, R.E.},
  Journal                  = {Journal of Computer and System Sciences },
  Year                     = {1997},
  Number                   = {1},
  Pages                    = {119 - 139},
  Volume                   = {55},

  ISSN                     = {0022-0000}
}

@Article{Friedman1989,
  Title                    = {{{R}egularized discriminant analysis}},
  Author                   = {Friedman, J.H.},
  Journal                  = {Journal of the American Statistical Association},
  Year                     = {1989},
  Number                   = {405},
  Pages                    = {pp. 165-175},
  Volume                   = {84},

  Abstract                 = {Linear and quadratic discriminant analysis are considered in the small-sample, high-dimensional setting. Alternatives to the usual maximum likelihood (plug-in) estimates for the covariance matrices are proposed. These alternatives are characterized by two parameters, the values of which are customized to individual situations by jointly minimizing a sample-based estimate of future misclassification risk. Computationally fast implementations are presented, and the efficacy of the approach is examined through simulation studies and application to data. These studies indicate that in many circumstances dramatic gains in classification accuracy can be achieved.},
  Copyright                = {Copyright © 1989 American Statistical Association},
  ISSN                     = {01621459},
  Jstor_articletype        = {research-article},
  Jstor_formatteddate      = {Mar., 1989},
  Language                 = {English},
  Publisher                = {American Statistical Association}
}

@Article{Friedman1998,
  Title                    = {{{A}dditive logistic regression: a statistical view of boosting}},
  Author                   = {Jerome Friedman and Trevor Hastie and Robert Tibshirani},
  Journal                  = {Annals of Statistics},
  Year                     = {1998},
  Pages                    = {2000},
  Volume                   = {28}
}

@Article{Gabor1946,
  Title                    = {{{T}heory of communication. Part 1: The analysis of information}},
  Author                   = {Gabor, D.},
  Journal                  = {Electrical Engineers - Part III: Radio and Communication Engineering, Journal of the Institution of},
  Year                     = {1946},
  Number                   = {26},
  Pages                    = {429-441},
  Volume                   = {93}
}

@Electronic{Geckomedia2011,
  Title                    = {{{N}atom {A}natomy}},
  Author                   = {Geckomedia},
  Language                 = {French},
  Month                    = {06},
  Url                      = {http://www.natomshop.com/},
  Year                     = {2011}
}

@Article{Ghose2012,
  Title                    = {{{A} survey of prostate segmentation methodologies in ultrasound, magnetic resonance and computed tomography images}},
  Author                   = {Ghose, S. and Oliver, A. and Marti, R. and Llado, X. and Vilanova, J. C. and Freixenet, J. and Mitra, J. and Sidibe, D. and Meriaudeau, F. },
  Journal                  = {Comput Methods Programs Biomed},
  Year                     = {2012},

  Month                    = {Oct},
  Number                   = {1},
  Pages                    = {262--287},
  Volume                   = {108}
}

@InProceedings{Giannini2013,
  Title                    = {{{A} prostate {C}{A}{D} system based on multiparametric analysis of {D}{C}{E} {T}1-w, and {D}{W} automatically registered images}},
  Author                   = {Giannini, V. and Vignati, A. and Mazzetti, S. and De Luca, M. and Bracco, C. and Stasi, M. and Russo, F. and Armando, E. and Regge, D.},
  Booktitle                = {Proc. SPIE 8670, Medical Imaging 2013: Computer-Aided Diagnosis},
  Year                     = {2013},
  Pages                    = {86703E-86703E-6},

  File                     = {:../../../../Computer-Aided Diagnosis/A prostate CAD system based on multiparametric analysis of DCE  T1-w, and DW automatically registered images - Giannini 2013.pdf:PDF:},
  Journal                  = {Proc. SPIE 8670, Medical Imaging 2013: Computer-Aided Diagnosis}
}

@article{giannini2015fully,
  title={A fully automatic computer aided diagnosis system for peripheral zone prostate cancer detection using multi-parametric magnetic resonance imaging},
  author={Giannini, Valentina and Mazzetti, Simone and Vignati, Anna and Russo, Filippo and Bollito, Enrico and Porpiglia, Francesco and Stasi, Michele and Regge, Daniele},
  journal={Computerized Medical Imaging and Graphics},
  volume={46},
  pages={219--226},
  year={2015},
  publisher={Elsevier},
  doi={10.1016/j.compmedimag.2015.09.001}
}

@article{sorensen1982newton,
  title={Newton's method with a model trust region modification},
  author={Sorensen, Danny C},
  journal={SIAM Journal on Numerical Analysis},
  volume={19},
  number={2},
  pages={409--426},
  year={1982},
  publisher={SIAM},
  doi={10.1137/0719026}
}

@article{ibanez2005itk,
  title={The ITK software guide},
  author={Ibanez, Luis and Schroeder, William and Ng, Lydia and Cates, Josh},
  year={2005}
}


@misc{lemaitre2016github,
  author       = {Lemaitre, Guillaume},
  title        = {lemaitre-2016-nov: 0.1.1},
  month        = sep,
  year         = 2016,
  doi          = {10.5281/zenodo.61612},
  url          = {http://dx.doi.org/10.5281/zenodo.61612}
}

@misc{lemaitre2016dce,
  author       = {Lemaitre, Guillaume and Mart\'i, Robert and Meriaudeau, Fabrice},
  title        = {{D}{C}{E}-{M}{R}{I} prostate images},
  month        = aug,
  year         = 2016,
  doi          = {10.5281/zenodo.61163},
  url          = {http://dx.doi.org/10.5281/zenodo.61163}
}

@Article{Tucker2013,
  Title                    = {Generative models for functional data using phase and amplitude separation },
  Author                   = {Tucker, J. D. and Wu, W. and Srivastava, A.},
  Journal                  = {Computational Statistics \& Data Analysis },
  Year                     = {2013},
  Pages                    = {50-66},
  Volume                   = {61}
}


@Article{Gibbs2001,
  Title                    = {{{C}omparison of quantitative {T}2 mapping and diffusion-weighted imaging in the normal and pathologic prostate}},
  Author                   = {Gibbs, P. and Tozer, D. J. and Liney, G. P. and Turnbull, L. W. },
  Journal                  = {Magn Reson Med},
  Year                     = {2001},

  Month                    = {Dec},
  Number                   = {6},
  Pages                    = {1054--1058},
  Volume                   = {46}
}

@Article{Giger2008,
  Title                    = {{{A}nniversary paper: {H}istory and status of {C}{A}{D} and quantitative image analysis: the role of {M}edical {P}hysics and {A}{A}{P}{M}}},
  Author                   = {Giger, M. L. and Chan, H. P. and Boone, J.},
  Journal                  = {Med Phys},
  Year                     = {2008},

  Month                    = {Dec},
  Number                   = {12},
  Pages                    = {5799--5820},
  Volume                   = {35},

  File                     = {:../../../../Computer-Aided Diagnosis/Anniversary Paper History and status of CAD and quantitative image analysis The role of Medical Physics and AAPM - Giger et al 2008.pdf:PDF:}
}

@Article{Giger1988,
  Title                    = {{{I}mage feature analysis and computer-aided diagnosis in digital radiography. 3. {A}utomated detection of nodules in peripheral lung fields}},
  Author                   = {Giger, M. L. and Doi, K. and MacMahon, H. },
  Journal                  = {Med Phys},
  Year                     = {1988},
  Number                   = {2},
  Pages                    = {158--166},
  Volume                   = {15}
}

@Article{Giovannucci2007,
  Title                    = {{{R}isk factors for prostate cancer incidence and progression in the health professionals follow-up study}},
  Author                   = {Giovannucci, E. and Liu, Y. and Platz, E. A. and Stampfer, M. J. and Willett, W. C. },
  Journal                  = {Int. J. Cancer},
  Year                     = {2007},

  Month                    = {Oct},
  Number                   = {7},
  Pages                    = {1571--1578},
  Volume                   = {121},

  File                     = {:../../../../For Article/Risk factors for prostate cancer incidence and progression in the health professionals follow-up study - Giovannucci 2007:PDF:}
}

@Article{Giskeodegard2013,
  Title                    = {{{S}permine and citrate as metabolic biomarkers for assessing prostate cancer aggressiveness}},
  Author                   = {Giskeodegard, G. F. and Bertilsson, H. and Selnaes, K. M. and Wright, A. J. and Bathen, T. F. and Viset, T. and Halgunset, J. and Angelsen, A. and Gribbestad, I. S. and Tessem, M. B. },
  Journal                  = {PLoS ONE},
  Year                     = {2013},
  Number                   = {4},
  Pages                    = {e62375},
  Volume                   = {8}
}

@InBook{Gleason1977,
  Title                    = {{{U}rologic pathology: {T}he prostate}},
  Author                   = {Gleason, D. F.},
  Chapter                  = {The Veteran's Administration Cooperative Urologic Research Group: histologic grading and clinical staging of prostatic carcinoma},
  Editor                   = {Tannenbaum, M.},
  Pages                    = {171–198},
  Publisher                = {Lea and Febiger.},
  Year                     = {1977}
}

@Article{Goodman1999,
  Title                    = {{{T}oward evidence-based medical statistics. 1: {T}he {P} value fallacy}},
  Author                   = {Goodman, S. N.},
  Journal                  = {Ann. Intern. Med.},
  Year                     = {1999},

  Month                    = {Jun},
  Number                   = {12},
  Pages                    = {995--1004},
  Volume                   = {130}
}

@Article{Graaf2000,
  Title                    = {{{P}roton {M}{R} spectroscopy of prostatic tissue focused on the detection of spermine, a possible biomarker of malignant behavior in prostate cancer}},
  Author                   = {van der Graaf, M. and Schipper, R. G. and Oosterhof, G. O. and Schalken, J. A. and Verhofstad, A. A. and Heerschap, A. },
  Journal                  = {MAGMA},
  Year                     = {2000},

  Month                    = {Jul},
  Number                   = {3},
  Pages                    = {153--159},
  Volume                   = {10}
}

@InCollection{Gribbestad2005,
  Title                    = {{{A}n introduction to dynamic contrast-enhanced {M}{R}{I} in oncology}},
  Author                   = {Gribbestad, IngridS. and Gjesdal, KjellI. and Nilsen, Gunnar and Lundgren, Steinar and Hjelstuen, MariH.B. and Jackson, Alan},
  Booktitle                = {Dynamic Contrast-Enhanced Magnetic Resonance Imaging in Oncology},
  Publisher                = {Springer Berlin Heidelberg},
  Year                     = {2005},
  Editor                   = {Jackson, Alan and Buckley, DavidL. and Parker, GeoffreyJ.M.},
  Pages                    = {1-22},
  Series                   = {Medical Radiology},

  ISBN                     = {978-3-540-42322-5}
}

@Book{Haacke1999,
  Title                    = {{{M}agnetic resonance imaging: Physical principles and sequence design}},
  Author                   = {Haacke, E.M. and Brown, R.W. and Thompson, M.R. and Venkatesan, R.},
  Publisher                = {Wiley},
  Year                     = {1999},

  ISBN                     = {9780471351283},
  Lccn                     = {99022880}
}

@Article{Haas2007,
  Title                    = {{{N}eedle biopsies on autopsy prostates: sensitivity of cancer detection based on true prevalence}},
  Author                   = {Haas, G. P. and Delongchamps, N. B. and Jones, R. F. and Chandan, V. and Serio, A. M. and Vickers, A. J. and Jumbelic, M. and Threatte, G. and Korets, R. and Lilja, H. and de la Roza, G. },
  Journal                  = {J. Natl. Cancer Inst.},
  Year                     = {2007},

  Month                    = {Oct},
  Number                   = {19},
  Pages                    = {1484--1489},
  Volume                   = {99}
}

@Article{Haider2007,
  Title                    = {{{C}ombined {T}2-weighted and diffusion-weighted {M}{R}{I} for localization of prostate cancer}},
  Author                   = {Haider, M. A. and van der Kwast, T. H. and Tanguay, J. and Evans, A. J. and Hashmi, A. T. and Lockwood, G. and Trachtenberg, J. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2007},

  Month                    = {Aug},
  Number                   = {2},
  Pages                    = {323--328},
  Volume                   = {189}
}

@Article{Hambrock2011,
  Title                    = {{{R}elationship between apparent diffusion coefficients at 3.0-{T} {M}{R} imaging and {G}leason grade in peripheral zone prostate cancer}},
  Author                   = {Hambrock, T. and Somford, D. M. and Huisman, H. J. and van Oort, I. M. and Witjes, J. A. and Hulsbergen-van de Kaa, C. A. and Scheenen, T. and Barentsz, J. O. },
  Journal                  = {Radiology},
  Year                     = {2011},

  Month                    = {May},
  Number                   = {2},
  Pages                    = {453--461},
  Volume                   = {259}
}

@Article{Hambrock2013,
  Title                    = {{{P}rostate cancer: computer-aided diagnosis with multiparametric 3-{T} {M}{R} imaging--effect on observer performance}},
  Author                   = {Hambrock, T. and Vos, P. C. and Hulsbergen-van de Kaa, C. A. and Barentsz, J. O. and Huisman, H. J. },
  Journal                  = {Radiology},
  Year                     = {2013},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {521--530},
  Volume                   = {266},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate Cancer Computer-aided Diagnosis with MultImaging - Effect on Observer Performance - Hambrock Huisman 2012.pdf:PDF:}
}

@Article{Hara2005,
  Title                    = {{{D}ynamic contrast-enhanced magnetic resonance imaging ({D}{C}{E}-{M}{R}{I}) is a useful modality for the precise detection and staging of early prostate cancer}},
  Author                   = {Hara, N. and Okuizumi, M. and Koike, H. and Kawaguchi, M. and Bilim, V. },
  Journal                  = {Prostate},
  Year                     = {2005},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {140--147},
  Volume                   = {62}
}

@Article{Haralick1973,
  Title                    = {{{T}extural features for image classification}},
  Author                   = {Haralick, R.M. and Shanmugam, K. and Dinstein, Its'Hak},
  Journal                  = {Systems, Man and Cybernetics, IEEE Transactions on},
  Year                     = {1973},
  Number                   = {6},
  Pages                    = {610-621},
  Volume                   = {SMC-3},

  ISSN                     = {0018-9472}
}

@Article{Hegde2013,
  Title                    = {{{M}ultiparametric {M}{R}{I} of prostate cancer: an update on state-of-the-art techniques and their performance in detecting and localizing prostate cancer}},
  Author                   = {Hegde, J. V. and Mulkern, R. V. and Panych, L. P. and Fennessy, F. M. and Fedorov, A. and Maier, S. E. and Tempany, C. M. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2013},

  Month                    = {May},
  Number                   = {5},
  Pages                    = {1035--1054},
  Volume                   = {37},

  File                     = {:../../../../For Article/Multiparametric MRI of Prostate Cancer An Update on State-of-the-Art Techniques and Their Performance in Detecting and Localizing Prostate Cancer - Hedge 2013.pdf:PDF:}
}

@Article{Heidenreich2013,
  Title                    = {{{E}arly detection of prostate cancer: {E}uropean {A}ssociation of {U}rology recommendation}},
  Author                   = {Heidenreich, A. and Abrahamsson, P. A. and Artibani, W. and Catto, J. and Montorsi, F. and Van Poppel, H. and Wirth, M. and Mottet, N.},
  Journal                  = {Eur. Urol.},
  Year                     = {2013},

  Month                    = {Sep},
  Number                   = {3},
  Pages                    = {347--354},
  Volume                   = {64}
}

@Article{Hero2002,
  Title                    = {{{A}pplications of entropic spanning graphs}},
  Author                   = {Hero, A.O. and Bing Ma and Michel, O.J.J. and Gorman, J.},
  Journal                  = {Signal Processing Magazine, IEEE},
  Year                     = {2002},
  Number                   = {5},
  Pages                    = {85-95},
  Volume                   = {19},

  ISSN                     = {1053-5888}
}

@Article{Hoeks2011,
  Title                    = {{{P}rostate cancer: multiparametric {M}{R} imaging for detection, localization, and staging}},
  Author                   = {Hoeks, C. M. and Barentsz, J. O. and Hambrock, T. and Yakar, D. and Somford, D. M. and Heijmink, S. W. and Scheenen, T. W. and Vos, P. C. and Huisman, H. and van Oort, I. M. and Witjes, J. A. and Heerschap, A. and Futterer, J. J. },
  Journal                  = {Radiology},
  Year                     = {2011},

  Month                    = {Oct},
  Number                   = {1},
  Pages                    = {46--66},
  Volume                   = {261}
}

@Article{Hoffman2001,
  Title                    = {{{R}acial and ethnic differences in advanced-stage prostate cancer: the {P}rostate {C}ancer {O}utcomes {S}tudy}},
  Author                   = {Hoffman, R. M. and Gilliland, F. D. and Eley, J. W. and Harlan, L. C. and Stephenson, R. A. and Stanford, J. L. and Albertson, P. C. and Hamilton, A. S. and Hunt, W. C. and Potosky, A. L. },
  Journal                  = {J. Natl. Cancer Inst.},
  Year                     = {2001},

  Month                    = {Mar},
  Number                   = {5},
  Pages                    = {388--395},
  Volume                   = {93}
}

@article{hoffmann1995pharmacokinetic,
  title={Pharmacokinetic mapping of the breast: a new method for dynamic MR mammography},
  author={Hoffmann, Ulf and Brix, Gunnar and Knopp, Michael V and He$\beta$, Thomas and Lorenz, Walter J},
  journal={Magnetic resonance in medicine},
  volume={33},
  number={4},
  pages={506--514},
  year={1995},
  publisher={Wiley Online Library},
  doi={10.1002/mrm.1910330408}
}



@Article{Hricak1987,
  Title                    = {{{M}{R} imaging of the prostate gland: normal anatomy}},
  Author                   = {Hricak, H. and Dooms, G. C. and McNeal, J. E. and Mark, A. S. and Marotti, M. and Avallone, A. and Pelzer, M. and Proctor, E. C. and Tanagho, E. A.},
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {1987},

  Month                    = {Jan},
  Pages                    = {51--58},
  Volume                   = {148},

  Abstract                 = {MR images of the male pelvis in 55 subjects were analyzed retrospectively for depiction of the zonal anatomy of the prostate gland as related to different repetition (TR) and echo (TE) times, slice thickness, plane of imaging, chronologic age of the patient, and different magnetic field strengths. With imagers operating at 0.35 and 1.5 T, T2-based tissue-contrast images were needed for the demonstration of the internal anatomy of the prostate gland. The display of zonal anatomy was improved when continuous 0.5-cm slices were used. Evaluating sequential sections, the peripheral, central, and transition zones could be differentiated. The peripheral zone showed higher signal intensity than either the central or transition zone and was discerned in the coronal, sagittal, and transverse planes. The central zone was of low signal intensity and was well displayed in the coronal and sagittal planes. The central zone was seen in 31 of the 32 young men (aged 25-35 years) but in only eight of the 23 older men (aged 40 years and older). The transition zone had intrinsic MR parameters similar to the central zone, and the two could be distinguished from each other only by the knowledge of their respective anatomic location. The low-intensity transition zone blended with the periurethral glands and the preprostatic sphincter. The transition zone was of homogeneous low signal intensity in young men but varied in size and signal intensity in older men. Such a detailed display of the prostate zonal anatomy offers a unique potential for the evaluation of prostatic physiology and disease.}
}

@Article{Hricak1983,
  Title                    = {{{A}natomy and pathology of the male pelvis by magnetic resonance imaging}},
  Author                   = {Hricak, H. and Williams, R. D. and Spring, D. B. and Moon, K. L. and Hedgcock, M. W. and Watson, R. A. and Crooks, L. E. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {1983},

  Month                    = {Dec},
  Number                   = {6},
  Pages                    = {1101--1110},
  Volume                   = {141}
}

@Article{HuchBoni1995,
  Title                    = {{{C}ontrast-enhanced endorectal coil {M}{R}{I} in local staging of prostate carcinoma}},
  Author                   = {Huch Boni, R. A. and Boner, J. A. and Lutolf, U. M. and Trinkler, F. and Pestalozzi, D. M. and Krestin, G. P. },
  Journal                  = {J Comput Assist Tomogr},
  Year                     = {1995},
  Number                   = {2},
  Pages                    = {232--237},
  Volume                   = {19}
}

@Article{Hugosson2010,
  Title                    = {{{M}ortality results from the {G}\"oteborg randomised population-based prostate-cancer screening trial}},
  Author                   = {Hugosson, J. and Carlsson, S. and Aus, G. and Bergdahl, S. and Khatami, A. and Lodding, P. and Pihl, C. G. and Stranne, J. and Holmberg, E. and Lilja, H. },
  Journal                  = {Lancet Oncol.},
  Year                     = {2010},

  Month                    = {Aug},
  Number                   = {8},
  Pages                    = {725--732},
  Volume                   = {11}
}

@InProceedings{Huisman2010,
  Title                    = {{{C}omputer aided detection of prostate cancer using {T}2, {D}{W}{I} and {D}{C}{E} {M}{R}{I}: methods and clinical applications}},
  Author                   = {Huisman, H. and Vos, P.C. and Litjens, G. and Hambrock, T. and Barentsz, J.},
  Booktitle                = {Proceedings of the 2010 international conference on Prostate cancer imaging: computer-aided diagnosis, prognosis, and intervention},
  Year                     = {2010},

  Address                  = {Berlin, Heidelberg},
  Pages                    = {4--14},
  Publisher                = {Springer-Verlag},
  Series                   = {MICCAI'10},

  Acmid                    = {1889236},
  File                     = {:../../../../Computer-Aided Diagnosis/Computer Aided Detection of Prostate Cancer Using T2, DWI and DCE MRI_ Methods and Clinical Applications - Huisman 2010.pdf:PDF:},
  ISBN                     = {3-642-15988-5, 978-3-642-15988-6},
  Location                 = {Beijing, China},
  Numpages                 = {11}
}

@Article{Huisman2001,
  Title                    = {{{A}ccurate estimation of pharmacokinetic contrast-enhanced dynamic {M}{R}{I} parameters of the prostate}},
  Author                   = {Huisman, H. J. and Engelbrecht, M. R. and Barentsz, J. O. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2001},

  Month                    = {Apr},
  Number                   = {4},
  Pages                    = {607--614},
  Volume                   = {13},

  File                     = {:../../../../Features Extraction/Accurate Estimation of Pharmacokinetic Contrast Enhanced Dynamic MRI Parameters of the Prostate - Huisman 2001.pdf:PDF:}
}

@Article{Huisman2003,
  Title                    = {{{D}iffusion-weighted imaging: basic concepts and application in cerebral stroke and head trauma}},
  Author                   = {Huisman, T. A. },
  Journal                  = {Eur Radiol},
  Year                     = {2003},

  Month                    = {Oct},
  Number                   = {10},
  Pages                    = {2283--2297},
  Volume                   = {13}
}

@Article{Itou2011,
  Title                    = {{{C}linical utility of apparent diffusion coefficient ({A}{D}{C}) values in patients with prostate cancer: can {A}{D}{C} values contribute to assess the aggressiveness of prostate cancer?}},
  Author                   = {Itou, Y. and Nakanishi, K. and Narumi, Y. and Nishizawa, Y. and Tsukuma, H. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2011},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {167--172},
  Volume                   = {33}
}

@Article{Jager1997,
  Title                    = {{{D}ynamic {T}urbo{F}{L}{A}{S}{H} subtraction technique for contrast-enhanced {M}{R} imaging of the prostate: correlation with histopathologic results}},
  Author                   = {Jager, G. J. and Ruijter, E. T. and van de Kaa, C. A. and de la Rosette, J. J. and Oosterhof, G. O. and Thornbury, J. R. and Ruijs, S. H. and Barentsz, J. O. },
  Journal                  = {Radiology},
  Year                     = {1997},

  Month                    = {Jun},
  Number                   = {3},
  Pages                    = {645--652},
  Volume                   = {203}
}

@Book{Jolliffe2002,
  Title                    = {{{P}rincipal Component Analysis}},
  Author                   = {Jolliffe, I. T.},
  Publisher                = {Springer},
  Year                     = {2002},
  Edition                  = {Second},
  Month                    = oct,

  Abstract                 = {{Principal component analysis is central to the study of multivariate data. Although one of the earliest multivariate techniques it continues to be the subject of much research, ranging from new model- based approaches to algorithmic ideas from neural networks. It is extremely versatile with applications in many disciplines. The first edition of this book was the first comprehensive text written solely on principal component analysis. The second edition updates and substantially expands the original version, and is once again the definitive text on the subject. It includes core material, current research and a wide range of applications. Its length is nearly double that of the first edition. Researchers in statistics, or in other fields that use principal component analysis, will find that the book gives an authoritative yet accessible account of the subject. It is also a valuable resource for graduate courses in multivariate analysis. The book requires some knowledge of matrix algebra. Ian Jolliffe is Professor of Statistics at the University of Aberdeen. He is author or co-author of over 60 research papers and three other books. His research interests are broad, but aspects of principal component analysis have fascinated him and kept him busy for over 30 years.}},
  Citeulike-article-id     = {1154147},
  Citeulike-linkout-0      = {http://www.amazon.ca/exec/obidos/redirect?tag=citeulike09-20\&path=ASIN/0387954422},
  Citeulike-linkout-1      = {http://www.amazon.de/exec/obidos/redirect?tag=citeulike01-21\&path=ASIN/0387954422},
  Citeulike-linkout-2      = {http://www.amazon.fr/exec/obidos/redirect?tag=citeulike06-21\&path=ASIN/0387954422},
  Citeulike-linkout-3      = {http://www.amazon.jp/exec/obidos/ASIN/0387954422},
  Citeulike-linkout-4      = {http://www.amazon.co.uk/exec/obidos/ASIN/0387954422/citeulike00-21},
  Citeulike-linkout-5      = {http://www.amazon.com/exec/obidos/redirect?tag=citeulike07-20\&path=ASIN/0387954422},
  Citeulike-linkout-6      = {http://www.worldcat.org/isbn/0387954422},
  Citeulike-linkout-7      = {http://books.google.com/books?vid=ISBN0387954422},
  Citeulike-linkout-8      = {http://www.amazon.com/gp/search?keywords=0387954422\&index=books\&linkCode=qs},
  Citeulike-linkout-9      = {http://www.librarything.com/isbn/0387954422},
  Day                      = {01},
  HowPublished             = {Hardcover},
  ISBN                     = {0387954422},
  Posted-at                = {2008-06-13 17:07:42}
}

@InProceedings{Jungke1987,
  Title                    = {{{A} system for the diagnostic use of tissue characterizing parameters in {N}{M}{R}-tomography}},
  Author                   = {Jungke, M. and Von Seelen, W. and Bielke, G. and Meindl, S. and Grigat, M. and Pfannenstiel, P.},
  Booktitle                = {Proc. of Information Processing in Medical Imaging},
  Year                     = {1987},
  Pages                    = {471-481},
  Volume                   = {87}
}

@Article{Kaji1998,
  Title                    = {{{L}ocalizing prostate cancer in the presence of postbiopsy changes on {M}{R} images: role of proton {M}{R} spectroscopic imaging}},
  Author                   = {Kaji, Y. and Kurhanewicz, J. and Hricak, H. and Sokolov, D. L. and Huang, L. R. and Nelson, S. J. and Vigneron, D. B. },
  Journal                  = {Radiology},
  Year                     = {1998},

  Month                    = {Mar},
  Number                   = {3},
  Pages                    = {785--790},
  Volume                   = {206}
}

@InCollection{Kato2001,
  Title                    = {{{A} {M}arkov random field image segmentation model using combined color and texture features}},
  Author                   = {Kato, Z. and Pong, T.C.},
  Booktitle                = {Computer Analysis of Images and Patterns},
  Publisher                = {Springer Berlin Heidelberg},
  Year                     = {2001},
  Editor                   = {Skarbek, Władysław},
  Pages                    = {547-554},
  Series                   = {Lecture Notes in Computer Science},
  Volume                   = {2124},

  ISBN                     = {978-3-540-42513-7},
  Language                 = {English}
}

@Book{Kato2012,
  Title                    = {{Markov Random Fields in Image Segmentation. Collection Foundation and Trends in Signal Processing}},
  Author                   = {Kato, Zoltan and Zerubia, Josiane},
  Publisher                = {Now Editor, World Scientific},
  Year                     = {2012},
  Month                    = Sep,

  Abstract                 = {{Markov Random Fields in Image Segmentation provides an introduction to the fundamentals of Markovian modeling in image segmentation as well as a brief overview of recent advances in the field. Segmentation is formulated within an image labeling framework, where the prob- lem is reduced to assigning labels to pixels. In a probabilistic approach, label dependencies are modeled by Markov random fields (MRF) and an optimal labeling is determined by Bayes- ian estimation, in particular maximum a posteriori (MAP) estimation. The main advantage of MRF models is that prior information can be imposed locally through clique potentials. MRF models usually yield a non-convex energy function. The minimization of this function is crucial in order to find the most likely segmentation according to the MRF model. Classical optimiza- tion algorithms including simulated annealing and deterministic relaxation are treated along with more recent graph cut-based algorithms. The primary goal of this monograph is to demonstrate the basic steps to construct an eas- ily applicable MRF segmentation model and further develop its multi-scale and hierarchical implementations as well as their combination in a multilayer model. Representative exam- ples from remote sensing and biological imaging are analyzed in full detail to illustrate the applicability of these MRF models.}},
  Affiliation              = {Department of Image Processing and Computer Graphics [University of Szeged] , AYIN - INRIA Sophia Antipolis},
  Audience                 = {internationale },
  Hal_id                   = {hal-00737058},
  Language                 = {Anglais},
  Pages                    = {164}
}

@Article{Kelm2007,
  Title                    = {{{A}utomated estimation of tumor probability in prostate magnetic resonance spectroscopic imaging: pattern recognition vs quantification}},
  Author                   = {Kelm, B. M. and Menze, B. H. and Zechmann, C. M. and Baudendistel, K. T. and Hamprecht, F. A. },
  Journal                  = {Magn Reson Med},
  Year                     = {2007},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {150--159},
  Volume                   = {57},

  File                     = {:../../../../Computer-Aided Diagnosis/Automated estimation of tumor probability in prostate mrsi pattern recognition vs quantification - Kelm 2007.pdf:PDF:}
}

@Article{Kety1951,
  Title                    = {{{T}he theory and applications of the exchange of inert gas at the lungs and tissues}},
  Author                   = {Kety, S.S.},
  Journal                  = {Pharmacol. Rev.},
  Year                     = {1951},

  Month                    = {Mar},
  Number                   = {1},
  Pages                    = {1--41},
  Volume                   = {3}
}

@Article{Kim2005,
  Title                    = {{{W}ash-in rate on the basis of dynamic contrast-enhanced {M}{R}{I}: usefulness for prostate cancer detection and localization}},
  Author                   = {Kim, J. K. and Hong, S. S. and Choi, Y. J. and Park, S. H. and Ahn, H. and Kim, C. S. and Cho, K. S. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2005},

  Month                    = {Nov},
  Number                   = {5},
  Pages                    = {639--646},
  Volume                   = {22}
}

@Article{Kirkham2006,
  Title                    = {{{H}ow good is {M}{R}{I} at detecting and characterising cancer within the prostate?}},
  Author                   = {Kirkham, A. P. and Emberton, M. and Allen, C. },
  Journal                  = {Eur. Urol.},
  Year                     = {2006},

  Month                    = {Dec},
  Number                   = {6},
  Pages                    = {1163--1174},
  Volume                   = {50}
}

@Article{Kirsch1971,
  Title                    = {{{C}omputer determination of the constituent structure of biological images }},
  Author                   = {Kirsch, R.A.},
  Journal                  = {Computers and Biomedical Research },
  Year                     = {1971},
  Number                   = {3},
  Pages                    = {315 - 328},
  Volume                   = {4},

  ISSN                     = {0010-4809}
}

@Article{Klein2008,
  Title                    = {{{A}utomatic segmentation of the prostate in 3{D} {M}{R} images by atlas matching using localized mutual information}},
  Author                   = {Klein, S. and van der Heide, U. A. and Lips, I. M. and van Vulpen, M. and Staring, M. and Pluim, J. P. },
  Journal                  = {Med Phys},
  Year                     = {2008},

  Month                    = {Apr},
  Number                   = {4},
  Pages                    = {1407--1417},
  Volume                   = {35},

  File                     = {:../../../../Segmentation/Prostate Segmentation/Automatic segmentation of the prostate in 3d MR images by atlas matching using localized mutual information - Klein 2008.pdf:PDF:}
}

@Article{Koh2007,
  Title                    = {{{D}iffusion-weighted {M}{R}{I} in the body: applications and challenges in oncology}},
  Author                   = {Koh, D. M. and Collins, D. J.},
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2007},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {1622--1635},
  Volume                   = {188}
}

@Article{Korotkov2012,
  Title                    = {{{C}omputerized analysis of pigmented skin lesions: a review}},
  Author                   = {Korotkov, K. and Garcia, R. },
  Journal                  = {Artif Intell Med},
  Year                     = {2012},

  Month                    = {Oct},
  Number                   = {2},
  Pages                    = {69--90},
  Volume                   = {56},

  File                     = {:../../../../For Article/CAD review/Computerized analysis of pigmented skin lesions a review - Korotkov 2012.pdf:PDF:}
}

@Article{Kurhanewicz1996,
  Title                    = {{{T}hree-dimensional {H}-1 {M}{R} spectroscopic imaging of the in situ human prostate with high (0.24-0.7-cm3) spatial resolution}},
  Author                   = {Kurhanewicz, J. and Vigneron, D. B. and Hricak, H. and Narayan, P. and Carroll, P. and Nelson, S. J.},
  Journal                  = {Radiology},
  Year                     = {1996},

  Month                    = {Mar},
  Number                   = {3},
  Pages                    = {795--805},
  Volume                   = {198}
}

@Article{Langer2009,
  Title                    = {{{P}rostate cancer detection with multi-parametric {M}{R}{I}: logistic regression analysis of quantitative {T}2, diffusion-weighted imaging, and dynamic contrast-enhanced {M}{R}{I}}},
  Author                   = {Langer, D. L. and van der Kwast, T. H. and Evans, A. J. and Trachtenberg, J. and Wilson, B. C. and Haider, M. A.},
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2009},

  Month                    = {Aug},
  Number                   = {2},
  Pages                    = {327--334},
  Volume                   = {30},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer detection with multi-parametric MRI Logistic regression analysis of quantitative T2, diffusion-weighted imaging, and dynamic contrast-enhanced MRI - Langer Haider 2009.pdf.pdf:PDF:}
}

@Article{Langerak2010,
  Title                    = {{{L}abel fusion in atlas-based segmentation using a selective and iterative method for performance level estimation ({S}{I}{M}{P}{L}{E})}},
  Author                   = {Langerak, T. R. and van der Heide, U. A. and Kotte, A. N. and Viergever, M. A. and van Vulpen, M. and Pluim, J. P. },
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {2010},

  Month                    = {Dec},
  Number                   = {12},
  Pages                    = {2000--2008},
  Volume                   = {29}
}

@Article{Larsson1996,
  Title                    = {{{M}yocardial perfusion modeling using {M}{R}{I}}},
  Author                   = {Larsson, H. B. and Fritz-Hansen, T. and Rostrup, E. and Sondergaard, L. and Ring, P. and Henriksen, O.},
  Journal                  = {Magn Reson Med},
  Year                     = {1996},

  Month                    = {May},
  Number                   = {5},
  Pages                    = {716--726},
  Volume                   = {35}
}

@Article{Laudadio2002,
  Title                    = {{{I}mproved {L}anczos algorithms for blackbox \{MRS\} data quantitation}},
  Author                   = {T. Laudadio and N. Mastronardi and L. Vanhamme and P. Van Hecke and S. Van Huffel},
  Journal                  = {Journal of Magnetic Resonance },
  Year                     = {2002},
  Number                   = {2},
  Pages                    = {292 - 297},
  Volume                   = {157},

  ISSN                     = {1090-7807}
}

@Article{LeBihan1988,
  Title                    = {{{S}eparation of diffusion and perfusion in intravoxel incoherent motion {M}{R} imaging}},
  Author                   = {Le Bihan, D. and Breton, E. and Lallemand, D. and Aubin, M. L. and Vignaud, J. and Laval-Jeantet, M. },
  Journal                  = {Radiology},
  Year                     = {1988},

  Month                    = {Aug},
  Number                   = {2},
  Pages                    = {497--505},
  Volume                   = {168}
}

@Article{LeBihan1986,
  Title                    = {{{M}{R} imaging of intravoxel incoherent motions: application to diffusion and perfusion in neurologic disorders}},
  Author                   = {Le Bihan, D. and Breton, E. and Lallemand, D. and Grenier, P. and Cabanis, E. and Laval-Jeantet, M. },
  Journal                  = {Radiology},
  Year                     = {1986},

  Month                    = {Nov},
  Number                   = {2},
  Pages                    = {401--407},
  Volume                   = {161}
}

@Article{Leissner1979,
  Title                    = {{{T}he weight of the human prostate}},
  Author                   = {Leissner, K. H. and Tisell, L. E. },
  Journal                  = {Scand. J. Urol. Nephrol.},
  Year                     = {1979},
  Number                   = {2},
  Pages                    = {137--142},
  Volume                   = {13}
}

@MastersThesis{Lemaitre2011,
  Title                    = {{{A}bsolute quantification at 3 {T}}},
  Author                   = {Lema\^itre, G.},
  School                   = {Universit\'e de Bourgogne, Heriot-Watt University, Universitat de Girona},
  Year                     = {2011}
}

@Article{Lemaitre2015,
  Title                    = {Computer-Aided Detection and diagnosis for prostate cancer based on mono and multi-parametric MRI: A review },
  Author                   = {Lemaitre, G. and Marti, R. and Freixenet, J. and Vilanova, J. C. and Walker, P. M. and Meriaudeau, F.},
  Journal                  = {Computers in Biology and Medicine },
  Year                     = {2015},
  Pages                    = {8-31},
  Volume                   = {60},
}

@InProceedings{lemaitre2015boostingx,
  Title                    = {A boosting approach for prostate cancer detection using multi-parametric MRI},
  Author                   = {Lemaitre, G. and Massich, J. and Marti, R. and Freixenet, J. and Vilanova, J. C. and Walker, P. M. and Sidibe, D. and Meriaudeau, F.},
  Booktitle                = {The International Conference on Quality Control by Artificial Vision 2015},
  Year                     = {2015},
  Organization             = {International Society for Optics and Photonics},
  Pages                    = {95340A-95340A}
}

@inproceedings{lemaitre2016normalization,
  title={Normalization of T2W-MRI Prostate Images using Rician a priori},
  author={Lemaitre, Guillaume and Dastjerdi, Mojdeh Rastgo and Massich, Joan and Vilanova, Joan C and Walker, Paul M and Freixenet, Jordi and Meyer-Baese, Anke and M{\'e}riaudeau, Fabrice and Marti, Robert},
  booktitle={SPIE Medical Imaging},
  pages={978529--978529},
  year={2016},
  organization={International Society for Optics and Photonics},
  doi={10.1117/12.2216072}
}


@Article{Leung2001,
  Title                    = {{{R}epresenting and recognizing the visual appearance of materials using three-dimensional textons}},
  Author                   = {Leung, Thomas and Malik, Jitendra},
  Journal                  = {International Journal of Computer Vision},
  Year                     = {2001},
  Number                   = {1},
  Pages                    = {29-44},
  Volume                   = {43},

  ISSN                     = {0920-5691},
  Keywords                 = {3D texture; texture recognition; texture synthesis; natural material recognition},
  Language                 = {English},
  Publisher                = {Kluwer Academic Publishers}
}

@Article{Li2004,
  Title                    = {{{R}adiologists' performance for differentiating benign from malignant lung nodules on high-resolution {C}{T} using computer-estimated likelihood of malignancy}},
  Author                   = {Li, F. and Aoyama, M. and Shiraishi, J. and Abe, H. and Li, Q. and Suzuki, K. and Engelmann, R. and Sone, S. and Macmahon, H. and Doi, K. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2004},

  Month                    = {Nov},
  Number                   = {5},
  Pages                    = {1209--1215},
  Volume                   = {183}
}

@Article{Li2005,
  Title                    = {{{C}omputer-aided detection of peripheral lung cancers missed at {C}{T}: {R}{O}{C} analyses without and with localization}},
  Author                   = {Li, F. and Arimura, H. and Suzuki, K. and Shiraishi, J. and Li, Q. and Abe, H. and Engelmann, R. and Sone, S. and MacMahon, H. and Doi, K. },
  Journal                  = {Radiology},
  Year                     = {2005},

  Month                    = {Nov},
  Number                   = {2},
  Pages                    = {684--690},
  Volume                   = {237}
}

@Article{Li2005a,
  Title                    = {{{C}omputerized texture analysis of mammographic parenchymal patterns of digitized mammograms}},
  Author                   = {Li, H. and Giger, M. L. and Olopade, O. I. and Margolis, A. and Lan, L. and Chinander, M. R.},
  Journal                  = {Acad Radiol},
  Year                     = {2005},

  Month                    = {Jul},
  Number                   = {7},
  Pages                    = {863--873},
  Volume                   = {12}
}

@Article{Li2003,
  Title                    = {{{S}elective enhancement filters for nodules, vessels, and airway walls in two- and three-dimensional {C}{T} scans}},
  Author                   = {Li, Q. and Sone, S. and Doi, K.},
  Journal                  = {Med Phys},
  Year                     = {2003},

  Month                    = {Aug},
  Number                   = {8},
  Pages                    = {2040--2051},
  Volume                   = {30}
}

@Article{Li1996,
  Title                    = {{{R}obustizing robust {M}-estimation using deterministic annealing}},
  Author                   = {Li, S. Z.},
  Journal                  = {Pattern Recognition},
  Year                     = {1996},
  Pages                    = {159--166},
  Volume                   = {29}
}

@Article{Lieber2003,
  Title                    = {{{A}utomated method for subtraction of fluorescence from biological {R}aman spectra}},
  Author                   = {Lieber, C. A. and Mahadevan-Jansen, A.},
  Journal                  = {Appl Spectrosc},
  Year                     = {2003},

  Month                    = {Nov},
  Number                   = {11},
  Pages                    = {1363--1367},
  Volume                   = {57}
}

@Article{Liney1996a,
  Title                    = {{{C}omparison of conventional single echo and multi-echo sequences with a fast spin-echo sequence for quantitative {T}2 mapping: application to the prostate}},
  Author                   = {Liney, G. P. and Knowles, A. J. and Manton, D. J. and Turnbull, L. W. and Blackband, S. J. and Horsman, A. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {1996},
  Number                   = {4},
  Pages                    = {603--607},
  Volume                   = {6}
}

@Article{Liney1996,
  Title                    = {{{P}roton {M}{R} {T}2 maps correlate with the citrate concentration in the prostate}},
  Author                   = {Liney, G. P. and Lowry, M. and Turnbull, L. W. and Manton, D. J. and Knowles, A. J. and Blackband, S. J. and Horsman, A. },
  Journal                  = {NMR Biomed},
  Year                     = {1996},

  Month                    = {Apr},
  Number                   = {2},
  Pages                    = {59--64},
  Volume                   = {9}
}

@Article{Liney1997,
  Title                    = {{{I}n vivo quantification of citrate concentration and water {T}2 relaxation time of the pathologic prostate gland using 1{H} {M}{R}{S} and {M}{R}{I}}},
  Author                   = {Liney, G. P. and Turnbull, L. W. and Lowry, M. and Turnbull, L. S. and Knowles, A. J. and Horsman, A. },
  Journal                  = {Magn Reson Imaging},
  Year                     = {1997},
  Number                   = {10},
  Pages                    = {1177--1186},
  Volume                   = {15}
}

@Article{Litjens2014,
  Title                    = {{{C}omputer-iided detection of prostate cancer in {M}{R}{I}}},
  Author                   = {Litjens, G. and Debats, O. and Barentsz, J. and Karssemeijer, N. and Huisman, H.},
  Journal                  = {Medical Imaging, IEEE Transactions on},
  Year                     = {2014},

  Month                    = {May},
  Number                   = {5},
  Pages                    = {1083-1092},
  Volume                   = {33},

  ISSN                     = {0278-0062},
  Keywords                 = {Biopsy;Design automation;Feature extraction;Image segmentation;Machine learning;Magnetic resonance imaging;Prostate cancer;Computer-aided detection;image analysis;machine learning;magnetic resonance imaging;prostate cancer}
}

@article{meng2010comparison,
  title={Comparison between population average and experimentally measured arterial input function in predicting biopsy results in prostate cancer},
  author={Meng, Ran and Chang, Silvia D and Jones, Edward C and Goldenberg, S Larry and Kozlowski, Piotr},
  journal={Academic radiology},
  volume={17},
  number={4},
  pages={520--525},
  year={2010},
  publisher={Elsevier},
  doi={10.1016/j.acra.2009.11.006}
}


@Article{Litjens2012a,
  Title                    = {{{A} pattern recognition approach to zonal segmentation of the prostate on {M}{R}{I}}},
  Author                   = {Litjens, G. and Debats, O. and van de Ven, W. and Karssemeijer, N. and Huisman, H. },
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2012},
  Number                   = {Pt 2},
  Pages                    = {413--420},
  Volume                   = {15}
}

@Article{Litjens2014a,
  Title                    = {{{E}valuation of prostate segmentation algorithms for {M}{R}{I}: the {P}{R}{O}{M}{I}{S}{E}12 challenge}},
  Author                   = {Litjens, G. and Toth, R. and van de Ven, W. and Hoeks, C. and Kerkstra, S. and van Ginneken, B. and Vincent, G. and Guillard, G. and Birbeck, N. and Zhang, J. and Strand, R. and Malmberg, F. and Ou, Y. and Davatzikos, C. and Kirschner, M. and Jung, F. and Yuan, J. and Qiu, W. and Gao, Q. and Edwards, P. E. and Maan, B. and van der Heijden, F. and Ghose, S. and Mitra, J. and Dowling, J. and Barratt, D. and Huisman, H. and Madabhushi, A. },
  Journal                  = {Med Image Anal},
  Year                     = {2014},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {359--373},
  Volume                   = {18}
}

@InProceedings{Litjens2012,
  Title                    = {{{A}utomated computer-aided detection of prostate cancer in MR images: from a whole-organ to a zone-based approach}},
  Author                   = {Litjens, G. J. S. and Barentsz, J. O. and Karssemeijer, N. and Huisman, H. J.},
  Booktitle                = {Proc. SPIE 8315, Medical Imaging 2012: Computer-Aided Diagnosis},
  Year                     = {2012},
  Pages                    = {83150G-83150G-6},

  File                     = {:../../../../Computer-Aided Diagnosis/Automated computer-aided detection of prostate cancer in MR images_ from a whole-organ to a zone-based approach - Litjens Huisman 2012.pdf:PDF:},
  Journal                  = {Proc. SPIE 8315, Medical Imaging 2012: Computer-Aided Diagnosis}
}

@InProceedings{Litjens2011,
  Title                    = {{{A}utomatic computer aided detection of abnormalities in multi-parametric prostate {M}{R}{I}}},
  Author                   = {Litjens, G. J. S. and Vos, P. C. and Barentsz, J. O. and Karssemeijer, N. and Huisman, H. J.},
  Booktitle                = {Proc. SPIE 7963, Medical Imaging 2011: Computer-Aided Diagnosis},
  Year                     = {2011},
  Pages                    = {79630T-79630T-7},

  File                     = {:../../../../Computer-Aided Diagnosis/Automatic computer aided detection of abnormalities in  multi-parametric prostate MRI - Litjens et al 2011.pdf:PDF:}
}

@InProceedings{Liu2013,
  Title                    = {A prostate cancer computer-aided diagnosis system using multimodal magnetic resonance imaging and targeted biopsy labels},
  Author                   = {Liu, P. and Wang, S. and Turkbey, B. and Grant, K. and Pinto, P.and Choyke, P. and Wood, B. J. and Summers, R. M.},
  Booktitle                = {Proc. SPIE 8670, Medical Imaging 2013: Computer-Aided Diagnosis},
  Year                     = {2013},
  Pages                    = {86701G-86701G-6},

  File                     = {:../../../../Computer-Aided Diagnosis/A prostate cancer computer-aided diagnosis system using multimodal magnetic resonance imaging and targeted biopsy labels - Liu 2013.pdf:PDF:}
}

@Article{Liu2011,
  Title                    = {{{A}ccelerated {T}2 mapping for characterization of prostate cancer}},
  Author                   = {Liu, W. and Turkbey, B. and Senegas, J. and Remmele, S. and Xu, S. and Kruecker, J. and Bernardo, M. and Wood, B. J. and Pinto, P. A. and Choyke, P. L. },
  Journal                  = {Magn Reson Med},
  Year                     = {2011},

  Month                    = {May},
  Number                   = {5},
  Pages                    = {1400--1406},
  Volume                   = {65}
}

@Article{Liu2009,
  Title                    = {{{P}rostate cancer segmentation with simultaneous estimation of {M}arkov random field parameters and class}},
  Author                   = {Liu, X. and Langer, D. L. and Haider, M. A. and Yang, Y. and Wernick, M. N. and Yetik, I. S.},
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {2009},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {906--915},
  Volume                   = {28},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer segmentation with simultaneaous estimation of Markov random field parmaeters and class - Liu et al 2009.pdf:PDF:}
}

@Article{Lopes2011,
  Title                    = {{{P}rostate cancer characterization on {M}{R} images using fractal features}},
  Author                   = {Lopes, R. and Ayache, A. and Makni, N. and Puech, P. and Villers, A. and Mordon, S. and Betrouni, N.},
  Journal                  = {Med Phys},
  Year                     = {2011},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {83--95},
  Volume                   = {38},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer charactrization on MR images using fractal features - Lopes et al 2011.pdf:PDF:}
}

@Article{Lu-Yao2009,
  Title                    = {{{O}utcomes of localized prostate cancer following conservative management}},
  Author                   = {Lu-Yao, G. L. and Albertsen, P. C. and Moore, D. F. and Shih, W. and Lin, Y. and DiPaola, R. S. and Barry, M. J. and Zietman, A. and O'Leary, M. and Walker-Corkery, E. and Yao, S. L.},
  Journal                  = {JAMA},
  Year                     = {2009},

  Month                    = {Sep},
  Number                   = {11},
  Pages                    = {1202--1209},
  Volume                   = {302}
}

@Article{Lv2009,
  Title                    = {{{C}omputerized characterization of prostate cancer by fractal analysis in {M}{R} images}},
  Author                   = {Lv, D. and Guo, X. and Wang, X. and Zhang, J. and Fang, J.},
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2009},

  Month                    = {Jul},
  Number                   = {1},
  Pages                    = {161--168},
  Volume                   = {30},

  File                     = {:../../../../Computer-Aided Diagnosis/Computerized characterization  of prostate cancer by fractal analysis in MR images - Lv 2009.pdf:PDF:}
}

@Article{Ma2009,
  Title                    = {{{A} systematic review of the effect of diet in prostate cancer prevention and treatment}},
  Author                   = {Ma, R. W. and Chapman, K. },
  Journal                  = {J Hum Nutr Diet},
  Year                     = {2009},

  Month                    = {Jun},
  Number                   = {3},
  Pages                    = {187--199},
  Volume                   = {22}
}

@Article{Madabhushi2006,
  Title                    = {{{G}eneralized scale: {T}heory, algorithms, and application to image inhomogeneity correction }},
  Author                   = {Madabhushi, A. and Udupa, J.K. and Souza, A.},
  Journal                  = {Computer Vision and Image Understanding },
  Year                     = {2006},
  Number                   = {2},
  Pages                    = {100 - 121},
  Volume                   = {101},

  ISSN                     = {1077-3142}
}

@Article{Madabhushi2006a,
  Title                    = {{{N}ew methods of {M}{R} image intensity standardization via generalized scale}},
  Author                   = {Madabhushi, A. and Udupa, J. K.},
  Journal                  = {Med Phys},
  Year                     = {2006},

  Month                    = {Sep},
  Number                   = {9},
  Pages                    = {3426--3434},
  Volume                   = {33}
}

@Article{Maintz1998,
  Title                    = {{{A} survey of medical image registration}},
  Author                   = {Maintz, J. B. and Viergever, M. A.},
  Journal                  = {Med Image Anal},
  Year                     = {1998},

  Month                    = {Mar},
  Number                   = {1},
  Pages                    = {1--36},
  Volume                   = {2}
}

@Book{Mallat2008,
  Title                    = {{{A} wavelet tour of signal processing, {T}hird {E}dition: {T}he sparse way}},
  Author                   = {Mallat, S.},
  Publisher                = {Academic Press},
  Year                     = {2008},
  Edition                  = {3rd},

  ISBN                     = {0123743702, 9780123743701}
}

@Article{Manjon2008,
  Title                    = {{{M}{R}{I} denoising using non-local means}},
  Author                   = {Manjon, J. V. and Carbonell-Caballero, J. and Lull, J. J. and Garcia-Marti, G. and Marti-Bonmati, L. and Robles, M. },
  Journal                  = {Med Image Anal},
  Year                     = {2008},

  Month                    = {Aug},
  Number                   = {4},
  Pages                    = {514--523},
  Volume                   = {12}
}

@Article{Matulewicz2013,
  Title                    = {{{A}natomic segmentation improves prostate cancer detection with artificial neural networks analysis of 1H magnetic resonance spectroscopic imaging}},
  Author                   = {Matulewicz, Lukasz and Jansen, Jacobus F.A. and Bokacheva, Louisa and Vargas, Hebert Alberto and Akin, Oguz and Fine, Samson W. and Shukla-Dave, Amita and Eastham, James A. and Hricak, Hedvig and Koutcher, Jason A. and Zakian, Kristen L.},
  Journal                  = {Journal of Magnetic Resonance Imaging},
  Year                     = {2013},
  Pages                    = {n/a--n/a},

  ISSN                     = {1522-2586}
}

@InProceedings{Mazzetti2011,
  Title                    = {{{A} {C}{A}{D} system based on multi-parametric analysis for cancer prostate detection on {D}{C}{E}-{M}{R}{I}}},
  Author                   = {Mazzetti, S. and De Luca, M. and Bracco, C. and Vignati, A. and Giannini, V. and Stasi, M. and Russo, F. and Armando, E. and Agliozzo, S. and Regge, D.},
  Booktitle                = {Proc. SPIE 7963, Medical Imaging 2011: Computer-Aided Diagnosis},
  Year                     = {2011},
  Pages                    = {79633Q-79633Q-7},

  File                     = {:../../../../Computer-Aided Diagnosis/A CAD system based on multi-parametric analysis for cancer prostate detection on DCE-MRI - Mazzetti 2011.pdf:PDF:}
}

@Article{McNeal1981,
  Title                    = {{{T}he zonal anatomy of the prostate}},
  Author                   = {McNeal, J. E.},
  Journal                  = {Prostate},
  Year                     = {1981},
  Pages                    = {35--49},
  Volume                   = {2},

  Abstract                 = {Earlier morphologic studies of the prostate, though often extensive, have never systematically delineated its completed structure. Recent comprehensive analysis of 500 prostates has more precisely defined its anatomic composition, identifying previously undetected features and unsuspected complexities. Using a three-dimensional model, these structures and relationships are demonstrated. Four basic anatomic regions are described. The relationship of each to the urethra provides a central anatomic reference point. 1. The peripheral zone constitutes over 70% of the glandular prostate. It forms a disc of tissue whose ducts radiate laterally from the urethra lateral and distal to the verumontanum. Almost all carcinomas arise here. 2. The central zone constitutes 25% of the glandular prostate. Its ducts arise close to the ejaculatory duct orifices and follow these ducts proximally, branching laterally near the prostate base. Its lateral border fuses with the proximal peripheral zone border, completing in continuity with the peripheral zone, a full disc of secretory tissue oriented in a coronal plane. Marked histologic differences between central and peripheral zones suggest important biologic differences. 3. Preprostatic region. The urethral segment proximal to the verumontanum is kinked anteriorly at a 35-degree angle to the distal segment. No major ducts arise in the proximal segment, but the lateral rows of peripheral zone orifices continue. Duct development is aborted here, producing only a small transition zone and several tinier periurethral ducts. The development of these small ducts is possibly determined and limited by their intimate relationship to a periurethral smooth muscle sphincter that exists only proximal to the verumontanum. These small ducts in a restricted area are the exclusive site of nodular hyperplasia (BPH) origin. 4. The anterior fibromuscular stroma forms the entire anterior surface of the prostate as a thick, nonglandular apron, shielding from view the anterior surface of the three glandular regions. Its inseparable fusion to the glandular prostate has probably delayed recognition of the anatomic features described here.}
}

@Article{McNeal1988,
  Title                    = {{{Z}onal distribution of prostatic adenocarcinoma. {C}orrelation with histologic pattern and direction of spread}},
  Author                   = {McNeal, J. E. and Redwine, E. A. and Freiha, F. S. and Stamey, T. A. },
  Journal                  = {Am. J. Surg. Pathol.},
  Year                     = {1988},

  Month                    = {Dec},
  Number                   = {12},
  Pages                    = {897--906},
  Volume                   = {12}
}

@Article{Metz2006,
  Title                    = {{{R}eceiver operating characteristic analysis: a tool for the quantitative evaluation of observer performance and imaging systems}},
  Author                   = {Metz, C. E. },
  Journal                  = {J Am Coll Radiol},
  Year                     = {2006},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {413--422},
  Volume                   = {3}
}

@Article{Middleton1968,
  Title                    = {{{S}imultaneous optimum detection and estimation of signals in noise}},
  Author                   = {Middleton, D. and Esposito, R.},
  Journal                  = {Information Theory, IEEE Transactions on},
  Year                     = {1968},
  Number                   = {3},
  Pages                    = {434-444},
  Volume                   = {14},

  ISSN                     = {0018-9448}
}

@PhdThesis{Mitra2012,
  Title                    = {{{M}ultimodal image registration applied to magnetic resonance and ultrasound prostatic images}},
  Author                   = {Mitra, J.},
  School                   = {Universitat de Girona and Universit\'e de Bourgogne},
  Year                     = {2012}
}

@PhdThesis{Lemaitre2016thesis,
  Title                    = {{Computer-Aided Diagnosis for Prostate Cancer using Multi-Parametric Magnetic Resonance Imaging}},
  Author                   = {Lemaitre, G.},
  School                   = {Universitat de Girona and Universit\'e de Bourgogne},
  Year                     = {2016}
}

@Article{Mitra2012a,
  Title                    = {{{A} spline-based non-linear diffeomorphism for multimodal prostate registration}},
  Author                   = {Mitra, J. and Kato, Z. and Marti, R. and Oliver, A. and Llado, X. and Sidibe, D. and Ghose, S. and Vilanova, J. C. and Comet, J. and Meriaudeau, F.},
  Journal                  = {Med Image Anal},
  Year                     = {2012},

  Month                    = {Aug},
  Number                   = {6},
  Pages                    = {1259--1279},
  Volume                   = {16}
}

@InProceedings{Mitra2011,
  Title                    = {{{A} comparison of thin-plate splines with automatic correspondences and B-splines with uniform grids for multimodal prostate registration}},
  Author                   = {Mitra, J. and Marti, R. and Oliver, A. and Llado, X. and Vilanova, J.~C. and Meriaudeau, F.},
  Booktitle                = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference Series},
  Year                     = {2011},
  Month                    = mar,
  Series                   = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference Series},
  Volume                   = {7964},

  Adsnote                  = {Provided by the SAO/NASA Astrophysics Data System},
  Adsurl                   = {http://adsabs.harvard.edu/abs/2011SPIE.7964E..95M},
  Eid                      = {79642T}
}

@Article{Mohan2014,
  Title                    = {{{A} survey on the magnetic resonance image denoising methods}},
  Author                   = {Mohan, J. and Krishnaveni, V. and Guo, Y.},
  Journal                  = {Biomedical Signal Processing and Control },
  Year                     = {2014},
  Number                   = {0},
  Pages                    = {56 - 69},
  Volume                   = {9},

  ISSN                     = {1746-8094}
}

@Article{Moore2013,
  Title                    = {{{T}he role of {M}{R}{I} in active surveillance of prostate cancer}},
  Author                   = {Moore, C. M. and Ridout, A. and Emberton, M. },
  Journal                  = {Curr Opin Urol},
  Year                     = {2013},

  Month                    = {May},
  Number                   = {3},
  Pages                    = {261--267},
  Volume                   = {23}
}

@Article{Morgan2011,
  Title                    = {{{E}ngrailed-2 ({E}{N}2): a tumor specific urinary biomarker for the early diagnosis of prostate cancer}},
  Author                   = {Morgan, R. and Boxall, A. and Bhatt, A. and Bailey, M. and Hindley, R. and Langley, S. and Whitaker, H. C. and Neal, D. E. and Ismail, M. and Whitaker, H. and Annels, N. and Michael, A. and Pandha, H.},
  Journal                  = {Clin. Cancer Res.},
  Year                     = {2011},

  Month                    = {Mar},
  Number                   = {5},
  Pages                    = {1090--1098},
  Volume                   = {17}
}

@Article{Nelder1965,
  Title                    = {{{A} simplex method for function minimization}},
  Author                   = {Nelder, J. A. and Mead, R.},
  Journal                  = {The Computer Journal},
  Year                     = {1965},
  Number                   = {4},
  Pages                    = {308-313},
  Volume                   = {7},

  Abstract                 = {A method is described for the minimization of a function of n variables, which depends on the comparison of function values at the (n + 1) vertices of a general simplex, followed by the replacement of the vertex with the highest value by another point. The simplex adapts itself to the local landscape, and contracts on to the final minimum. The method is shown to be effective and computationally compact. A procedure is given for the estimation of the Hessian matrix in the neighbourhood of the minimum, needed in statistical estimation problems.}
}

@Article{Niaf2014,
  Title                    = {Prostate Focal Peripheral Zone Lesions: Characterization at Multiparametric MR Imaging—Influence of a Computer-aided Diagnosis System},
  Author                   = {Niaf, Emilie and Lartizien, Carole and Bratan, Flavie and Roche, Laurent and Rabilloud, Muriel and Mège-Lechevallier, Florence and Rouvière, Olivier},
  Journal                  = {Radiology},
  Year                     = {2014},
  Note                     = {PMID: 24592959},
  Number                   = {0},
  Pages                    = {130448},
  Volume                   = {0}
}

@InProceedings{Niaf2011,
  Title                    = {{{C}omputer-aided diagnosis for prostate cancer detection in the peripheral zone via multisequence {M}{R}{I}}},
  Author                   = {Niaf, E. and Rouvière, O. and Lartizien, C.},
  Booktitle                = {Proc. SPIE 7963, Medical Imaging 2011: Computer-Aided Diagnosis},
  Year                     = {2011},

  File                     = {:../../../../Computer-Aided Diagnosis/Computer-aided diagnosis for prostate cancer detection in the peripheral zone via multisequence MRI - Niaf 2011.pdf:PDF:}
}

@Article{Niaf2012,
  Title                    = {{{C}omputer-aided diagnosis of prostate cancer in the peripheral zone using multiparametric {M}{R}{I}}},
  Author                   = {Niaf, E. and Rouviere, O. and Mege-Lechevallier, F. and Bratan, F. and Lartizien, C.},
  Journal                  = {Phys Med Biol},
  Year                     = {2012},

  Month                    = {Jun},
  Number                   = {12},
  Pages                    = {3833--3851},
  Volume                   = {57},

  File                     = {:../../../../Computer-Aided Diagnosis/Computer-aided diagnosis of prostate cancer in the periheral zone using multiparametric MRI - Niaf 2012.pdf:PDF:}
}

@Article{Niekerk2009,
  Title                    = {{{C}omputerized whole slide quantification shows increased microvascular density in p{T}2 prostate cancer as compared to normal prostate tissue}},
  Author                   = {van Niekerk, C. G. and van der Laak, J. A. and Borger, M. E. and Huisman, H. J. and Witjes, J. A. and Barentsz, J. O. and Hulsbergen-van de Kaa, C. A.},
  Journal                  = {Prostate},
  Year                     = {2009},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {62--69},
  Volume                   = {69}
}

@Article{Niekerk2013,
  Title                    = {{{M}icrovascularity in transition zone prostate tumors resembles normal prostatic tissue}},
  Author                   = {van Niekerk, C. G. and Witjes, J. A. and Barentsz, J. O. and van der Laak, J. A. and Hulsbergen-van de Kaa, C. A. },
  Journal                  = {Prostate},
  Year                     = {2013},

  Month                    = {Apr},
  Number                   = {5},
  Pages                    = {467--475},
  Volume                   = {73}
}

@Article{Noguchi2001,
  Title                    = {{{R}elationship between systematic biopsies and histological features of 222 radical prostatectomy specimens: lack of prediction of tumor significance for men with nonpalpable prostate cancer}},
  Author                   = {Noguchi, M. and Stamey, T. A. and McNeal, J. E. and Yemoto, C. M. },
  Journal                  = {J. Urol.},
  Year                     = {2001},

  Month                    = {Jul},
  Number                   = {1},
  Pages                    = {104--109},
  Volume                   = {166}
}

@Article{Nowak1999,
  Title                    = {{{W}avelet-based {R}ician noise removal for magnetic resonance imaging}},
  Author                   = {Nowak, R.D.},
  Journal                  = {Image Processing, IEEE Transactions on},
  Year                     = {1999},
  Number                   = {10},
  Pages                    = {1408-1419},
  Volume                   = {8},

  ISSN                     = {1057-7149}
}

@Article{Nyul1999,
  Title                    = {{{O}n standardizing the {M}{R} image intensity scale}},
  Author                   = {Nyul, L. G. and Udupa, J. K.},
  Journal                  = {Magn Reson Med},
  Year                     = {1999},

  Month                    = {Dec},
  Number                   = {6},
  Pages                    = {1072--1081},
  Volume                   = {42}
}

@Article{Nyul2000,
  Title                    = {{{N}ew variants of a method of {M}{R}{I} scale standardization}},
  Author                   = {Nyul, L. G. and Udupa, J. K. and Zhang, X. },
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {2000},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {143--150},
  Volume                   = {19}
}

@Article{Ojala1996,
  Title                    = {{{A} comparative study of texture measures with classification based on featured distributions}},
  Author                   = {Ojala, T. and Pietik\"{a}inen, M. and Harwood, D.},
  Journal                  = {Pattern Recognition},
  Year                     = {1996},

  Month                    = jan,
  Number                   = {1},
  Pages                    = {51--59},
  Volume                   = {29},

  Abstract                 = {{This paper evaluates the performance both of some texture measures which have been successfully used in various applications and of some new promising approaches proposed recently. For classification a method based on Kullback discrimination of sample and prototype distributions is used. The classification results for single features with one-dimensional feature value distributions and for pairs of complementary features with two-dimensional distributions are presented}},
  Citeulike-article-id     = {8254898},
  Citeulike-linkout-0      = {http://dx.doi.org/10.1016/0031-3203(95)00067-4},
  ISSN                     = {00313203},
  Posted-at                = {2010-11-16 16:12:31},
  Priority                 = {2}
}

@InBook{Osorio-Garcia2012,
  Title                    = {{{M}agnetic {R}esonance {S}pectroscopy}},
  Author                   = {Osorio-Garcia, M.I. and Croitor Sava, A.R. and Sima, D. M. and Nielsen, F.U. and Himmelreich, U. and Van Huffel, S.},
  Chapter                  = {{{Q}uantification improvements of 1{H} {M}{R}{S} Signals}},
  Editor                   = {Dong-Hyun, K.},
  Pages                    = {1-27},
  Publisher                = {InTech},
  Year                     = {2012},
  Month                    = {March}
}

@Article{Oster2013,
  Title                    = {{{N}atural history of skeletal-related events in patients with breast, lung, or prostate cancer and metastases to bone: a 15-year study in two large {U}{S} health systems}},
  Author                   = {Oster, G. and Lamerato, L. and Glass, A. G. and Richert-Boe, K. E. and Lopez, A. and Chung, K. and Richhariya, A. and Dodge, T. and Wolff, G. G. and Balakumaran, A. and Edelsberg, J.},
  Journal                  = {Support Care Cancer},
  Year                     = {2013},

  Month                    = {Dec},
  Number                   = {12},
  Pages                    = {3279--3286},
  Volume                   = {21}
}

@article{langerak2010label,
  title={Label fusion in atlas-based segmentation using a selective and iterative method for performance level estimation (SIMPLE)},
  author={Langerak, Thomas Robin and van der Heide, Uulke A and Kotte, Alexis NTJ and Viergever, Max A and van Vulpen, Marco and Pluim, Josien PW},
  journal={IEEE Transactions on Medical Imaging},
  volume={29},
  number={12},
  pages={2000--2008},
  year={2010},
  publisher={IEEE}
}

@InProceedings{Ozer2009,
  Title                    = {{{P}rostate cancer localization with multispectral {M}{R}{I} based on Relevance Vector Machines}},
  Author                   = {Ozer, S. and Haider, M.A. and Langer, D. L. and Van der Kwast, T. H. and Evans, A.J. and Wernick, M.N. and Trachtenberg, J. and Yetik, I.S.},
  Booktitle                = {Biomedical Imaging: From Nano to Macro, 2009. ISBI '09. IEEE International Symposium on},
  Year                     = {2009},
  Pages                    = {73-76},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer localization with multispectral MRI based on relevance vector machines - Ozer et al 2009.pdf:PDF:},
  ISSN                     = {1945-7928}
}

@Article{Ozer2010,
  Title                    = {{{S}upervised and unsupervised methods for prostate cancer segmentation with multispectral {M}{R}{I}}},
  Author                   = {Ozer, S. and Langer, D. L. and Liu, X. and Haider, M. A. and van der Kwast, T. H. and Evans, A. J. and Yang, Y. and Wernick, M. N. and Yetik, I. S.},
  Journal                  = {Med Phys},
  Year                     = {2010},

  Month                    = {Apr},
  Number                   = {4},
  Pages                    = {1873--1883},
  Volume                   = {37},

  File                     = {:../../../../Computer-Aided Diagnosis/Supervised and Unsupervised Methods for Prostate Cancer Segmentation with Multispectral MRI - Ozer 2010.pdf:PDF:}
}

@Article{Padhani2011,
  Title                    = {{{I}ntegrating multiparametric prostate {M}{R}{I} into clinical practice}},
  Author                   = {Padhani, A. R. },
  Journal                  = {Cancer Imaging},
  Year                     = {2011},
  Pages                    = {27--37},
  Volume                   = {11 Spec No A}
}

@Article{Padhani2002,
  Title                    = {{{D}ynamic contrast-enhanced {M}{R}{I} in clinical oncology: current status and future directions}},
  Author                   = {Padhani, A. R. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2002},

  Month                    = {Oct},
  Number                   = {4},
  Pages                    = {407--422},
  Volume                   = {16}
}

@PhdThesis{Parfait2010,
  Title                    = {{{C}lassification de spectres et recherche de biomarqueurs en spectroscopie par r\'esonqnce magn\'etique nulcl\'eaire du proton dans les tumeurs prostatiques}},
  Author                   = {Parfait, S.},
  School                   = {Universit\'e de Bourgogne},
  Year                     = {2010}
}

@Article{Parfait2012,
  Title                    = {{{C}lassification of prostate magnetic resonance spectra using {S}upport {V}ector {M}achine }},
  Author                   = {S. Parfait and P.M. Walker and G. Créhange and X. Tizon and J. Mitéran},
  Journal                  = {Biomedical Signal Processing and Control},
  Year                     = {2012},
  Number                   = {5},
  Pages                    = {499 - 508},
  Volume                   = {7},

  File                     = {:../../../../Computer-Aided Diagnosis/Classification of prostate magnetic resonance spectra using support vector machine - Parfait 2011.pdf:PDF:},
  ISSN                     = {1746-8094}
}

@Article{Pearson1901,
  Title                    = {{{O}n lines and planes of closest fit to systems of points in space}},
  Author                   = {Pearson, K.},
  Journal                  = {Philosophical Magazine},
  Year                     = {1901},
  Number                   = {6},
  Pages                    = {559--572},
  Volume                   = {2},

  Citeulike-article-id     = {2013414},
  Posted-at                = {2007-11-29 10:41:36},
  Priority                 = {2}
}

@Article{Peng2005,
  Title                    = {{{F}eature selection based on mutual information criteria of max-dependency, max-relevance, and min-redundancy}},
  Author                   = {Peng, H. and Long, F. and Ding, C.},
  Journal                  = {Pattern Analysis and Machine Intelligence, IEEE Transactions on},
  Year                     = {2005},
  Number                   = {8},
  Pages                    = {1226-1238},
  Volume                   = {27},

  ISSN                     = {0162-8828}
}

@Article{Peng2013,
  Title                    = {{{Q}uantitative analysis of multiparametric prostate {M}{R} images: differentiation between prostate cancer and normal tissue and correlation with {G}leason score--a computer-aided diagnosis development study}},
  Author                   = {Peng, Y. and Jiang, Y. and Yang, C. and Brown, J.B. and Antic, T. and Sethi, I. and Schmid-Tannwald, C. and Giger, M.L. and Eggener, S.E. and Oto, A.},
  Journal                  = {Radiology},
  Year                     = {2013},

  Month                    = {June},
  Number                   = {1},
  Pages                    = {787--796},
  Volume                   = {267},

  File                     = {:../../../../Computer-Aided Diagnosis/Quantitative Analysis of Multiparametric Prostate MR Images Differentiation between Prostate Cancer and Normal Tissue and Correlation with Gleason Score--A Computer-aided Diagnosis Development Study - Peng 2013.pdf:PDF:}
}

@Article{Petrick2008,
  Title                    = {{{C}{T} colonography with computer-aided detection as a second reader: observer performance study}},
  Author                   = {Petrick, N. and Haider, M. and Summers, R. M. and Yeshwant, S. C. and Brown, L. and Iuliano, E. M. and Louie, A. and Choi, J. R. and Pickhardt, P. J. },
  Journal                  = {Radiology},
  Year                     = {2008},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {148--156},
  Volume                   = {246}
}

@Article{Pijnappel1992,
  Title                    = {{{S}{V}{D}-based quantification of magnetic resonance signals }},
  Author                   = {W.W.F Pijnappel and A van den Boogaart and R de Beer and D van Ormondt},
  Journal                  = {Journal of Magnetic Resonance (1969) },
  Year                     = {1992},
  Number                   = {1},
  Pages                    = {122 - 134},
  Volume                   = {97},

  ISSN                     = {0022-2364}
}

@PhdThesis{Pizurica2002,
  Title                    = {{{I}mage denoising using wavelets and spatial context modeling}},
  Author                   = {Aleksandra Pizurica},
  School                   = {Universiteit Gent},
  Year                     = {2002}
}

@Article{Pizurica2003,
  Title                    = {{{A} versatile wavelet domain noise filtration technique for medical imaging}},
  Author                   = {Pizurica, A. and Philips, W. and Lemahieu, I. and Acheroy, M. },
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {2003},

  Month                    = {Mar},
  Number                   = {3},
  Pages                    = {323--331},
  Volume                   = {22}
}

@Article{Pluim2003,
  Title                    = {{{M}utual-information-based registration of medical images: a survey}},
  Author                   = {Pluim, J.P.W. and Maintz, J.B.A. and Viergever, M.A.},
  Journal                  = {IEEE Transcations on Medical Imaging},
  Year                     = {2003},
  Number                   = {8},
  Pages                    = {986--1004},
  Volume                   = {22}
}

@InBook{Prewitt1970,
  Title                    = {{{P}icture processing and psychohistories}},
  Author                   = {Prewitt, J.M.S.},
  Chapter                  = {{{O}bject enhancement and extraction}},
  Editor                   = {Lipkin, B.S and Rosenfeld, A.},
  Publisher                = {Academic Press},
  Year                     = {1970}
}

@Article{Provencher1993,
  Title                    = {{{E}stimation of metabolite concentrations from localized in vivo proton {N}{M}{R} spectra}},
  Author                   = {Provencher, S. W. },
  Journal                  = {Magn Reson Med},
  Year                     = {1993},

  Month                    = {Dec},
  Number                   = {6},
  Pages                    = {672--679},
  Volume                   = {30}
}

@Article{Puech2009,
  Title                    = {{{C}omputer-assisted diagnosis of prostate cancer using {D}{C}{E}-{M}{R}{I} data: design, implementation and preliminary results}},
  Author                   = {Puech, P. and Betrouni, N. and Makni, N. and Dewalle, A. S. and Villers, A. and Lemaitre, L.},
  Journal                  = {Int J Comput Assist Radiol Surg},
  Year                     = {2009},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {1--10},
  Volume                   = {4},

  File                     = {:../../../../Computer-Aided Diagnosis/Computer assisted diagnosis of prostate cancer using DCE-MRI data design, implementation and preliminary results - Puech Lemaitre 2008.pdf:PDF:}
}

@Book{Quinlan1993,
  Title                    = {{{C}{4}.{5}: {P}rograms for machine learning}},
  Author                   = {Quinlan, J.R.},
  Publisher                = {Morgan Kaufmann Publishers Inc.},
  Year                     = {1993},

  Address                  = {San Francisco, CA, USA},

  ISBN                     = {1-55860-238-0}
}

@Article{Quinlan1986,
  Title                    = {{{I}nduction of decision trees}},
  Author                   = {Quinlan, J.R.},
  Journal                  = {Machine Learning},
  Year                     = {1986},
  Number                   = {1},
  Pages                    = {81-106},
  Volume                   = {1},

  ISSN                     = {0885-6125},
  Language                 = {English},
  Publisher                = {Kluwer Academic Publishers}
}

@TechReport{Quinonero-Candela2002,
  Title                    = {{{P}rediction at an Uncertain Input for {G}aussian processes and relevance vector machines application to Multiple-Step ahead time-series forecasting}},
  Author                   = {Quinonero-Candela, J. and Girard, A. and Rasmussen, C.E.},
  Institution              = {DTU Informatics},
  Year                     = {2002}
}

@Article{Quint1991,
  Title                    = {{{C}arcinoma of the prostate: {M}{R} images obtained with body coils do not accurately reflect tumor volume}},
  Author                   = {Quint, L. E. and Van Erp, J. S. and Bland, P. H. and Mandell, S. H. and Del Buono, E. A. and Grossman, H. B. and Glazer, G. M. and Gikas, P. W. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {1991},

  Month                    = {Mar},
  Number                   = {3},
  Pages                    = {511--516},
  Volume                   = {156}
}

@Article{Rangayyan2007,
  Title                    = {{{A} review of computer-aided diagnosis of breast cancer: {T}oward the detection of subtle signs}},
  Author                   = {Rangayyan, R.M. and Ayres, F.J. and Desautels, J.E.L.},
  Journal                  = {Journal of the Franklin Institute },
  Year                     = {2007},
  Number                   = {3–4},
  Pages                    = {312 - 348},
  Volume                   = {344},

  File                     = {:../../../../For Article/CAD review/A review of computer-aided diagnosis of breast cancer Toward the detection of subtle signs - Rangayyan 2007.pdf:PDF:},
  ISSN                     = {0016-0032}
}

@Book{Rasmussen2005,
  Title                    = {{{G}aussian processes for machine learning}},
  Author                   = {Rasmussen, C.E. and Williams, C.K.I.},
  Publisher                = {The MIT Press},
  Year                     = {2005},

  ISBN                     = {026218253X}
}

@Article{Ratiney2005,
  Title                    = {{{T}ime-domain semi-parametric estimation based on a metabolite basis set}},
  Author                   = {Ratiney, H. and Sdika, M. and Coenradie, Y. and Cavassila, S. and van Ormondt, D. and Graveron-Demilly, D. },
  Journal                  = {NMR Biomed},
  Year                     = {2005},

  Month                    = {Feb},
  Number                   = {1},
  Pages                    = {1--13},
  Volume                   = {18}
}

@InProceedings{Rish2001,
  Title                    = {{{A}n empirical study of the naive {B}ayes classifier}},
  Author                   = {Rish, I.},
  Booktitle                = {IJCAI 2001 workshop on empirical methods in artificial intelligence},
  Year                     = {2001},
  Number                   = {22},
  Pages                    = {41--46},
  Volume                   = {3}
}

@Article{Rodriguez2007,
  Title                    = {{{B}ody mass index, weight change, and risk of prostate cancer in the {C}ancer {P}revention {S}tudy {I}{I} {N}utrition {C}ohort}},
  Author                   = {Rodriguez, C. and Freedland, S. J. and Deka, A. and Jacobs, E. J. and McCullough, M. L. and Patel, A. V. and Thun, M. J. and Calle, E. E.},
  Journal                  = {Cancer Epidemiol. Biomarkers Prev.},
  Year                     = {2007},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {63--69},
  Volume                   = {16}
}

@Article{Rosenkrantz2013,
  Title                    = {{{P}rostate cancer: comparison of dynamic contrast-enhanced {M}{R}{I} techniques for localization of peripheral zone tumor}},
  Author                   = {Rosenkrantz, A. B. and Sabach, A. and Babb, J. S. and Matza, B. W. and Taneja, S. S. and Deng, F. M. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2013},

  Month                    = {Sep},
  Number                   = {3},
  Pages                    = {W471--478},
  Volume                   = {201}
}

@Article{Roweis2000,
  Title                    = {{{N}onlinear dimensionality reduction by locally linear embedding}},
  Author                   = {Roweis, S. T. and Saul, L. K.},
  Journal                  = {Science},
  Year                     = {2000},
  Number                   = {5500},
  Pages                    = {2323-2326},
  Volume                   = {290},

  Abstract                 = {Many areas of science depend on exploratory data analysis and visualization. The need to analyze large amounts of multivariate data raises the fundamental problem of dimensionality reduction: how to discover compact representations of high-dimensional data. Here, we introduce locally linear embedding (LLE), an unsupervised learning algorithm that computes low-dimensional, neighborhood-preserving embeddings of high-dimensional inputs. Unlike clustering methods for local dimensionality reduction, LLE maps its inputs into a single global coordinate system of lower dimensionality, and its optimizations do not involve local minima. By exploiting the local symmetries of linear reconstructions, LLE is able to learn the global structure of nonlinear manifolds, such as those generated by images of faces or documents of text.}
}

@Article{Rueckert1999,
  Title                    = {{{N}onrigid registration using free-form deformations: application to breast {M}{R} images}},
  Author                   = {Rueckert, D. and Sonoda, L. I. and Hayes, C. and Hill, D. L. and Leach, M. O. and Hawkes, D. J.},
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {1999},

  Month                    = {Aug},
  Number                   = {8},
  Pages                    = {712--721},
  Volume                   = {18}
}

@InCollection{Rumelhart1988,
  Title                    = {{{L}earning internal representations by error propagation}},
  Author                   = {Rumelhart, D. E. and Hinton, G. E. and Williams, R. J.},
  Booktitle                = {{{N}eurocomputing: foundations of research}},
  Publisher                = {MIT Press},
  Year                     = {1988},

  Address                  = {Cambridge, MA, USA},
  Chapter                  = {Learning Internal Representations by Error Propagation},
  Editor                   = {Anderson, James A. and Rosenfeld, Edward},
  Pages                    = {673--695},

  Acmid                    = {104449},
  ISBN                     = {0-262-01097-6},
  Numpages                 = {23}
}


@Book{elad2010sparse,
  Title                    = {Sparse and redundant representations: from theory to applications in signal and image processing},
  Author                   = {Elad, M.},
  Publisher                = {Springer Publishing Company, Incorporated},
  Year                     = {2010},
  Edition                  = {1st}
}

@Article{elad2006image,
  Title                    = {Image denoising via sparse and redundant representations over learned dictionaries},
  Author                   = {Elad, M. and Aharon, M.},
  Journal                  = {Image Processing, IEEE Transactions on},
  Year                     = {2006},
  Number                   = {12},
  Pages                    = {3736--3745},
  Volume                   = {15},

  Publisher                = {IEEE}
}

@article{sidibe2015discrimination,
  Title                    = {Discrimination of retinal images containing bright lesions using sparse coded features and SVM},
  Author                   = {Sidib{\'e}, D. and Sadek, I. and M{\'e}riaudeau, F.},
  Journal                  = {Computers in biology and medicine},
  Volume                   = {62},
  Pages                    = {175--184},
  Year                     = {2015},
  Publisher                = {Elsevier}
}


@Article{rubinstein2008efficient,
  Title                    = {Efficient implementation of the K-SVD algorithm using batch orthogonal matching pursuit},
  Author                   = {Rubinstein, R. and Zibulevsky, M. and Elad, M.},
  Journal                  = {CS Technion},
  Year                     = {2008},
  Number                   = {8},
  Pages                    = {1--15},
  Volume                   = {40},
}

@Article{mallat1993matching,
  Title                    = {Matching pursuits with time-frequency dictionaries},
  Author                   = {Mallat, S. G. and Zhang, Z.},
  Journal                  = {Signal Processing, IEEE Transactions on},
  Year                     = {1993},
  Number                   = {12},
  Pages                    = {3397--3415},
  Volume                   = {41},
  Publisher                = {IEEE}
}


@InProceedings{pati1993orthogonal,
  Title                    = {Orthogonal matching pursuit: Recursive function approximation with applications to wavelet decomposition},
  Author                   = {Pati, Y. C. and Rezaiifar, R. and Krishnaprasad, P.},
  Booktitle                = {Signals, Systems and Computers, 1993. 1993 Conference Record of The Twenty-Seventh Asilomar Conference on},
  Year                     = {1993},
  Organization             = {IEEE},
  Pages                    = {40--44}
}

@Article{davis1997adaptive,
  Title                    = {Adaptive greedy approximations},
  Author                   = {Davis, G. and Mallat, S. and Avellaneda, M.},
  Journal                  = {Constructive approximation},
  Year                     = {1997},
  Number                   = {1},
  Pages                    = {57--98},
  Volume                   = {13},
  Publisher                = {Springer}
}


@Article{wright2009robust,
  Title                    = {Robust face recognition via sparse representation},
  Author                   = {Wright, J. and Yang, A. Y. and Ganesh, A. and Sastry, S. S and Ma, Y.},
  Journal                  = {Pattern Analysis and Machine Intelligence, IEEE Transactions on},
  Year                     = {2009},
  Number                   = {2},
  Pages                    = {210--227},
  Volume                   = {31},
  Publisher                = {IEEE}
}


@inproceedings{Sivic2003,
  Title                   = {Video Google: a text retrieva approach to object matching in videos},
  Author                  = {Sivic, J. and Zisserman, A.},
  Booktitle               = {IEEE ICCV},
  Pages                   = {1470--1477},
  Year                    = {2003}
}

@inproceedings{rastgo2016classification,
  Title                    = {Classification of melanoma lesions using sparse coded features and random forests},
  Author                   = {Rastgo, M. and Lemaitre, G. and Morel, O. and Massich, J. and Garcia, R. and Meriaudeau, F. and Marzani, F. and Sidib{\'e}, D.},
  Booktitle                = {SPIE Medical Imaging},
  Pages                    = {97850C--97850C},
  Year                     = {2016},
  Organization             = {International Society for Optics and Photonics}
}

@Article{Saeys2007,
  Title                    = {{{A} review of feature selection techniques in bioinformatics}},
  Author                   = {Saeys, Y. and Inza, I. and Larranaga, P.},
  Journal                  = {Bioinformatics},
  Year                     = {2007},
  Number                   = {19},
  Pages                    = {2507-2517},
  Volume                   = {23},

  Abstract                 = {Feature selection techniques have become an apparent need in many bioinformatics applications. In addition to the large pool of techniques that have already been developed in the machine learning and data mining fields, specific applications in bioinformatics have led to a wealth of newly proposed techniques.In this article, we make the interested reader aware of the possibilities of feature selection, providing a basic taxonomy of feature selection techniques, and discussing their use, variety and potential in a number of both common as well as upcoming bioinformatics applications.Contact: yvan.saeys@psb.ugent.beSupplementary information: http://bioinformatics.psb.ugent.be/supplementary_data/yvsae/fsreview}
}

@Article{Scheidler1999a,
  Title                    = {{{P}rostate cancer: localization with three-dimensional proton {M}{R} spectroscopic imaging--clinicopathologic study}},
  Author                   = {Scheidler, J. and Hricak, H. and Vigneron, D. B. and Yu, K. K. and Sokolov, D. L. and Huang, L. R. and Zaloudek, C. J. and Nelson, S. J. and Carroll, P. R. and Kurhanewicz, J. },
  Journal                  = {Radiology},
  Year                     = {1999},

  Month                    = {Nov},
  Number                   = {2},
  Pages                    = {473--480},
  Volume                   = {213}
}

@InProceedings{Scheidler1999,
  Title                    = {{{E}cho-planar diffusion-weighted MR imaging of the prostate}},
  Author                   = {Scheidler, J. and Petsch, R. and Muller-Lisse, U. and Heuck, A.F. and Reiser, M.},
  Booktitle                = {Proceedings of the 7th Annual Meeting of ISMRM Philadelphia},
  Year                     = {1999},
  Pages                    = {1103}
}

@Article{Schlemmer2004,
  Title                    = {{{C}an pre-operative contrast-enhanced dynamic {M}{R} imaging for prostate cancer predict microvessel density in prostatectomy specimens?}},
  Author                   = {Schlemmer, H. P. and Merkle, J. and Grobholz, R. and Jaeger, T. and Michel, M. S. and Werner, A. and Rabe, J. and van Kaick, G. },
  Journal                  = {Eur Radiol},
  Year                     = {2004},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {309--317},
  Volume                   = {14}
}

@Article{Schroeder2012,
  Title                    = {{{P}rostate-cancer mortality at 11 years of follow-up}},
  Author                   = {Schr\"oder, Fritz H. and Hugosson, Jonas and Roobol, Monique J. and Tammela, Teuvo L.J. and Ciatto, Stefano and Nelen, Vera and Kwiatkowski, Maciej and Lujan, Marcos and Lilja, Hans and Zappa, Marco and Denis, Louis J. and Recker, Franz and Páez, Alvaro and M\"a\"att\"anen, Liisa and Bangma, Chris H. and Aus, Gunnar and Carlsson, Sigrid and Villers, Arnauld and Rebillard, Xavier and van der Kwast, Theodorus and Kujala, Paula M. and Blijenberg, Bert G. and Stenman, Ulf-Hakan and Huber, Andreas and Taari, Kimmo and Hakama, Matti and Moss, Sue M. and de Koning, Harry J. and Auvinen, Anssi},
  Journal                  = {New England Journal of Medicine},
  Year                     = {2012},
  Number                   = {11},
  Pages                    = {981-990},
  Volume                   = {366}
}

@Article{Schroder2008,
  Title                    = {{{E}arly detection of prostate cancer in 2007. {P}art 1: {P}{S}{A} and {P}{S}{A} kinetics}},
  Author                   = {Schroder, F. H. and Carter, H. B. and Wolters, T. and van den Bergh, R. C. and Gosselaar, C. and Bangma, C. H. and Roobol, M. J.},
  Journal                  = {Eur. Urol.},
  Year                     = {2008},

  Month                    = {Mar},
  Number                   = {3},
  Pages                    = {468--477},
  Volume                   = {53}
}

@Book{Shapiro2001,
  Title                    = {{{C}omputer vision}},
  Author                   = {Shapiro, L. G. and Stockman, G. C.},
  Publisher                = {Prentice Hall},
  Year                     = {2001},

  Address                  = {Upper Saddle River, NJ},

  ISBN                     = {0-13-030796-3}
}

@Article{Shi2000,
  Title                    = {{{N}ormalized cuts and image segmentation}},
  Author                   = {Shi, J. and Malik, J.},
  Journal                  = {Pattern Analysis and Machine Intelligence, IEEE Transactions on},
  Year                     = {2000},
  Number                   = {8},
  Pages                    = {888-905},
  Volume                   = {22},

  ISSN                     = {0162-8828}
}

@ARTICLE{Srivastava2011,
author={Srivastava, A. and Klassen, E. and Joshi, S.H. and Jermyn, I.H.},
journal={Pattern Analysis and Machine Intelligence, IEEE Transactions on},
title={Shape Analysis of Elastic Curves in Euclidean Spaces},
month={July},
year={2011},
volume={33},
number={7},
pages={1415-1428}
}

@Article{Shimofusa2005,
  Title                    = {{{D}iffusion-weighted imaging of prostate cancer}},
  Author                   = {Shimofusa, R. and Fujimoto, H. and Akamata, H. and Motoori, K. and Yamamoto, S. and Ueda, T. and Ito, H. },
  Journal                  = {J Comput Assist Tomogr},
  Year                     = {2005},
  Number                   = {2},
  Pages                    = {149--153},
  Volume                   = {29}
}

@Article{Siegel2013,
  Title                    = {{{C}ancer statistics, 2013}},
  Author                   = {Siegel, R. and Naishadham, D. and Jemal, A. },
  Journal                  = {CA Cancer J Clin},
  Year                     = {2013},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {11--30},
  Volume                   = {63},

  File                     = {:../../../../For Article/Cancer statistics 2013 - Siegel 2013.pdf:PDF:}
}

@Article{Sled1998,
  Title                    = {{{A} nonparametric method for automatic correction of intensity nonuniformity in {M}{R}{I} data}},
  Author                   = {Sled, J. G. and Zijdenbos, A. P. and Evans, A. C.},
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {1998},

  Month                    = {Feb},
  Number                   = {1},
  Pages                    = {87--97},
  Volume                   = {17}
}

@TechReport{Sobel1970,
  Title                    = {{{C}amera models and machine perception}},
  Author                   = {Sobel, I.},
  Institution              = {DTIC Document},
  Year                     = {1970}
}

@Article{Somford2008,
  Title                    = {{{D}iffusion and perfusion {M}{R} imaging of the prostate}},
  Author                   = {Somford, D. M. and Futterer, J. J. and Hambrock, T. and Barentsz, J. O. },
  Journal                  = {Magn Reson Imaging Clin N Am},
  Year                     = {2008},

  Month                    = {Nov},
  Number                   = {4},
  Pages                    = {685--695},
  Volume                   = {16}
}

@InProceedings{Specht1988,
  Title                    = {{{P}robabilistic neural networks for classification, mapping, or associative memory}},
  Author                   = {Specht, D. F.},
  Booktitle                = {Neural Networks, 1988., IEEE International Conference on},
  Year                     = {1988},
  Pages                    = {525-532 vol.1}
}

@Article{StLawrence1998,
  Title                    = {{{A}n adiabatic approximation to the tissue homogeneity model for water exchange in the brain: {I}. {T}heoretical derivation}},
  Author                   = {St Lawrence, K. S. and Lee, T. Y. },
  Journal                  = {J. Cereb. Blood Flow Metab.},
  Year                     = {1998},

  Month                    = {Dec},
  Number                   = {12},
  Pages                    = {1365--1377},
  Volume                   = {18}
}

@Article{Stamey1998,
  Title                    = {{{H}istological and clinical findings in 896 consecutive prostates treated only with radical retropubic prostatectomy: epidemiologic significance of annual changes}},
  Author                   = {Stamey, T. A. and Donaldson, A. N. and Yemoto, C. E. and McNeal, J. E. and Sozen, S. and Gill, H. },
  Journal                  = {J. Urol.},
  Year                     = {1998},

  Month                    = {Dec},
  Number                   = {6 Pt 2},
  Pages                    = {2412--2417},
  Volume                   = {160}
}

@Article{Staring2009,
  Title                    = {{{R}egistration of cervical {M}{R}{I} using multifeature mutual information}},
  Author                   = {Staring, M. and van der Heide, U. A. and Klein, S. and Viergever, M. A. and Pluim, J. P.},
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {2009},

  Month                    = {Sep},
  Number                   = {9},
  Pages                    = {1412--1421},
  Volume                   = {28}
}

@Article{Steinberg1990,
  Title                    = {{{F}amily history and the risk of prostate cancer}},
  Author                   = {Steinberg, G. D. and Carter, B. S. and Beaty, T. H. and Childs, B. and Walsh, P. C.},
  Journal                  = {Prostate},
  Year                     = {1990},
  Number                   = {4},
  Pages                    = {337--347},
  Volume                   = {17}
}

@Misc{Strum2005,
  Title                    = {{{W}hat every doctor who treats male patients should know}},

  Author                   = {Strum, S.B. and Pogliano, D.},
  HowPublished             = {PCRI Insights vol. 8, no. 2},
  Month                    = {May},
  Year                     = {2005}
}

@article{Bernstein1989,
   author = {Bernstein, M. A. and Thomasson, D. M. and Perman, W. H.},
   title = {Improved detectability in low signal-to-noise ratio magnetic resonance images by means of a phase-corrected real reconstruction},
   journal = {Medical Physics},
   year = {1989},
   volume = {16},
   number = {5},
   pages = {813-817}
}


@article{brix1991pharmacokinetic,
  title={Pharmacokinetic parameters in CNS Gd-DTPA enhanced MR imaging.},
  author={Brix, Gunnar and Semmler, Wolfhard and Port, R{\"u}diger and Schad, Lothar R and Layer, G{\"u}nter and Lorenz, Walter J},
  journal={Journal of computer assisted tomography},
  volume={15},
  number={4},
  pages={621--628},
  year={1991},
  publisher={LWW}
}
@Article{Styner2000,
  Title                    = {{{P}arametric estimate of intensity inhomogeneities applied to {M}{R}{I}}},
  Author                   = {Styner, M. and Brechbuhler, C. and Szckely, G. and Gerig, G.},
  Journal                  = {Medical Imaging, IEEE Transactions on},
  Year                     = {2000},
  Number                   = {3},
  Pages                    = {153-165},
  Volume                   = {19},

  ISSN                     = {0278-0062}
}

@TechReport{Styner1997,
  Title                    = {{{E}valuation of 2{D}/3{D} bias correction with 1+1{E}{S}-optimization}},
  Author                   = {Styner, M. and Gerig, G.},
  Institution              = {ETH Z\"urich},
  Year                     = {1997}
}

@Article{Sung2011,
  Title                    = {{{P}rostate cancer detection on dynamic contrast-enhanced {M}{R}{I}: computer-aided diagnosis versus single perfusion parameter maps}},
  Author                   = {Sung, Y. S. and Kwon, H. J. and Park, B. W. and Cho, G. and Lee, C. K. and Cho, K. S. and Kim, J. K.},
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2011},

  Month                    = {Nov},
  Number                   = {5},
  Pages                    = {1122--1129},
  Volume                   = {197},

  File                     = {:../../../../Computer-Aided Diagnosis/Prostate cancer detection on dynamic contrast enhanced MRI computer-aided diagnosis versus single perfusion parameter maps - Sung 2011.pdf:PDF:}
}

@Article{Suzuki2012,
  Title                    = {{{A} review of computer-aided diagnosis in thoracic and colonic imaging}},
  Author                   = {Suzuki, K. },
  Journal                  = {Quant Imaging Med Surg},
  Year                     = {2012},

  Month                    = {Sep},
  Number                   = {3},
  Pages                    = {163--176},
  Volume                   = {2},

  File                     = {:../../../../For Article/CAD review/A review of computer-aided diagnosis in thoracic and colonic imaging - Suzuki 2012:PDF:}
}

@Article{Swanson2001,
  Title                    = {{{S}ingle-voxel oversampled {J}-resolved spectroscopy of in vivo human prostate tissue}},
  Author                   = {Swanson, M. G. and Vigneron, D. B. and Tran, T. K. and Sailasuta, N. and Hurd, R. E. and Kurhanewicz, J. },
  Journal                  = {Magn Reson Med},
  Year                     = {2001},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {973--980},
  Volume                   = {45}
}

@Article{Taira2010,
  Title                    = {{{P}erformance of transperineal template-guided mapping biopsy in detecting prostate cancer in the initial and repeat biopsy setting}},
  Author                   = {Taira, A. V. and Merrick, G. S. and Galbreath, R. W. and Andreini, H. and Taubenslag, W. and Curtis, R. and Butler, W. M. and Adamovich, E. and Wallner, K. E. },
  Journal                  = {Prostate Cancer Prostatic Dis.},
  Year                     = {2010},

  Month                    = {Mar},
  Number                   = {1},
  Pages                    = {71--77},
  Volume                   = {13}
}

@Article{Tipping2001,
  Title                    = {{{S}parse {B}ayesian learning and the relevance vector machine}},
  Author                   = {Tipping, M.E.},
  Journal                  = {Journal of Machine Learning Research},
  Year                     = {2001},
  Pages                    = {211-244},
  Volume                   = {1},

  Bibsource                = {DBLP, http://dblp.uni-trier.de},
  Ee                       = {http://www.ai.mit.edu/projects/jmlr/papers/volume1/tipping01a/abstract.html}
}

@Article{Tiwari2013,
  Title                    = {{{M}ulti-kernel graph embedding for detection, {G}leason grading of prostate cancer via {M}{R}{I}/{M}{R}{S}}},
  Author                   = {Tiwari, P. and Kurhanewicz, J. and Madabhushi, A.},
  Journal                  = {Med Image Anal},
  Year                     = {2013},

  Month                    = {Feb},
  Number                   = {2},
  Pages                    = {219--235},
  Volume                   = {17},

  File                     = {:../../../../Computer-Aided Diagnosis/Multi-kernel graph embedding for detection, Gleason grading of prostate cancer via MRIMRS - Tiwari et al 2013.pdf:PDF:}
}

@Article{Tiwari2010,
  Title                    = {{{S}emi supervised multi kernel ({S}e{S}{M}i{K}) graph embedding: identifying aggressive prostate cancer via magnetic resonance imaging and spectroscopy}},
  Author                   = {Tiwari, P. and Kurhanewicz, J. and Rosen, M. and Madabhushi, A.},
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2010},
  Number                   = {Pt 3},
  Pages                    = {666--673},
  Volume                   = {13},

  File                     = {:../../../../Computer-Aided Diagnosis/Semi supervised multi kernel (SeSMiK) graph embedding identifying aggressive prostate cancer via Magnetic Resonance Imaging and Spectroscopy - Tiwari 2010.pdf:PDF:}
}

@Article{Tiwari2007,
  Title                    = {{{A} hierarchical unsupervised spectral clustering scheme for detection of prostate cancer from magnetic resonance spectroscopy ({M}{R}{S})}},
  Author                   = {Tiwari, P. and Madabhushi, A. and Rosen, M.},
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2007},
  Number                   = {Pt 2},
  Pages                    = {278--286},
  Volume                   = {10},

  File                     = {:../../../../Computer-Aided Diagnosis/A hierarchical unsupervised spectral clustering scheme for detection of prostate cancer from MRSI- Tiwari Madabhushi 2007.pdf:PDF:}
}

@Article{Tiwari2009,
  Title                    = {{{A} hierarchical spectral clustering and nonlinear dimensionality reduction scheme for detection of prostate cancer from magnetic resonance spectroscopy ({M}{R}{S})}},
  Author                   = {Tiwari, P. and Rosen, M. and Madabhushi, A.},
  Journal                  = {Med Phys},
  Year                     = {2009},

  Month                    = {Sep},
  Number                   = {9},
  Pages                    = {3927--3939},
  Volume                   = {36},

  File                     = {:../../../../Computer-Aided Diagnosis/A hierarchical spectral clustering and nonlinear dimensionality reduction scheme for detection of prostate cancer from magnetic resonance spectroscopy (MRS) - Tiwari - 2009.pdf:PDF:}
}

@Article{Tiwari2008,
  Title                    = {{{C}onsensus-locally linear embedding ({C}-{L}{L}{E}): application to prostate cancer detection on magnetic resonance spectroscopy}},
  Author                   = {Tiwari, P. and Rosen, M. and Madabhushi, A.},
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2008},
  Number                   = {Pt 2},
  Pages                    = {330--338},
  Volume                   = {11},

  File                     = {:../../../../Computer-Aided Diagnosis/Consensus-locally linear embedding (C-LLE) application to prostate cancer detection on magnetic resonance spectroscopy - Tiwari 2008.pdf:PDF:}
}

@Article{Tiwari2009a,
  Title                    = {{{S}pectral embedding based probabilistic boosting tree ({S}c{E}{P}{T}re): classifying high dimensional heterogeneous biomedical data}},
  Author                   = {Tiwari, P. and Rosen, M. and Reed, G. and Kurhanewicz, J. and Madabhushi, A.},
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2009},
  Number                   = {Pt 2},
  Pages                    = {844--851},
  Volume                   = {12},

  File                     = {:../../../../Computer-Aided Diagnosis/Spectral embedding based probabilistic boosting tree (ScEPTre) classifying high dimensional heterogenous biomedical data - Tiwari 2009.pdf:PDF:}
}

@Article{Tiwari2012,
  Title                    = {{{M}ultimodal wavelet embedding representation for data combination ({M}a{W}{E}{R}i{C}): integrating magnetic resonance imaging and spectroscopy for prostate cancer detection}},
  Author                   = {Tiwari, P. and Viswanath, S. and Kurhanewicz, J. and Sridhar, A. and Madabhushi, A.},
  Journal                  = {NMR Biomed},
  Year                     = {2012},

  Month                    = {Apr},
  Number                   = {4},
  Pages                    = {607--619},
  Volume                   = {25},

  File                     = {:../../../../Computer-Aided Diagnosis/Multimodal wavelet embedding representation for data combination (MaWERiC) integrating magnetic resonance imaging and spectroscopy for prostate cancer detection - Tiwari 2012.pdf.pdf:PDF:}
}

@InCollection{Tofts2010,
  Title                    = {{{T}1-weighted {D}{C}{E} imaging concepts: modelling, acquisition and analysis}},
  Author                   = {Tofts, P.S.},
  Booktitle                = {Magneton Flash},
  Publisher                = {Siemens},
  Year                     = {2010}
}

@article{tofts1995quantitative,
  title={Quantitative Analysis of Dynamic Gd-DTPA Enhancement in Breast Tumors Using a Permeability Model},
  author={Tofts, Paul S and Berkowitz, Bruce and Schnall, Mitchell D},
  journal={Magnetic Resonance in Medicine},
  volume={33},
  number={4},
  pages={564--568},
  year={1995},
  publisher={Wiley Online Library},
  doi={10.1002/mrm.1910330416}
}


@Article{Tofts1997,
  Title                    = {{{M}odeling tracer kinetics in dynamic {G}d-{D}{T}{P}{A} {M}{R} imaging}},
  Author                   = {Tofts, P. S. },
  Journal                  = {J Magn Reson Imaging},
  Year                     = {1997},
  Number                   = {1},
  Pages                    = {91--101},
  Volume                   = {7}
}

@Conference{Toth2009,
  Title                    = {{{A} boosted ensemble scheme for accurate landmark detection for active shape models}},
  Author                   = {Toth, R. and Doyle, S. and Pungavkar, S. and Kalyanpur, A. and Madabhushi, A.},
  Booktitle                = {SPIE Medical Imaging},
  Year                     = {2009},

  Address                  = {Orlando, FL},
  Volume                   = {7260}
}

@Article{Toth2008,
  Title                    = {{{M}ulti-attribute non-initializing texture reconstruction based active shape model ({M}{A}{N}{T}{R}{A})}},
  Author                   = {Toth, R. and Chappelow, J. and Rosen, M. and Pungavkar, S. and Kalyanpur, A. and Madabhushi, A. },
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2008},
  Number                   = {Pt 1},
  Pages                    = {653--661},
  Volume                   = {11}
}

@article{heilmann2006determination,
  title={Determination of pharmacokinetic parameters in DCE MRI: consequence of nonlinearity between contrast agent concentration and signal intensity},
  author={Heilmann, Melanie and Kiessling, Fabian and Enderlin, Marta and Schad, Lothar R},
  journal={Investigative radiology},
  volume={41},
  number={6},
  pages={536--543},
  year={2006},
  publisher={LWW},
  doi={10.1097/01.rli.0000209607.99200.53}
}

@article{gliozzi2011phenomenological,
  title={Phenomenological universalities: a novel tool for the analysis of dynamic contrast enhancement in magnetic resonance imaging},
  author={Gliozzi, AS and Mazzetti, S and Delsanto, Pier Paolo and Regge, D and Stasi, M},
  journal={Physics in medicine and biology},
  volume={56},
  number={3},
  pages={573},
  year={2011},
  publisher={IOP Publishing}
}

@article{huisman2001accurate,
  title={Accurate estimation of pharmacokinetic contrast-enhanced dynamic MRI parameters of the prostate},
  author={Huisman, Henkjan J and Engelbrecht, Marc R and Barentsz, Jelle O},
  journal={Journal of Magnetic Resonance Imaging},
  volume={13},
  number={4},
  pages={607--614},
  year={2001},
  publisher={Wiley Online Library},
  doi={10.1002/jmri.1085}
}


@InProceedings{Tu2005,
  Title                    = {{{P}robabilistic boosting-tree: learning discriminative models for classification, recognition, and clustering}},
  Author                   = {Tu, Z.},
  Booktitle                = {Computer Vision, 2005. ICCV 2005. Tenth IEEE International Conference on},
  Year                     = {2005},
  Pages                    = {1589-1596 Vol. 2},
  Volume                   = {2},

  ISSN                     = {1550-5499}
}

@Article{Turkbey2012,
  Title                    = {{{M}ultiparametric {M}{R}{I} and prostate cancer diagnosis and risk stratification}},
  Author                   = {Turkbey, B. and Choyke, P. L. },
  Journal                  = {Curr Opin Urol},
  Year                     = {2012},

  Month                    = {Jul},
  Number                   = {4},
  Pages                    = {310--315},
  Volume                   = {22}
}

@Article{Vanhamme1997,
  Title                    = {{{I}mproved method for accurate and efficient quantification of MRS data with use of prior knowledge}},
  Author                   = {Vanhamme, L. and van den Boogaart, A. and Van Huffel, S.},
  Journal                  = {J. Magn. Reson.},
  Year                     = {1997},
  Pages                    = {35-45},
  Volume                   = {129},

  Quality                  = {1}
}

@Article{Vapnik1963,
  Title                    = {{{P}attern Recognition using Generalized Portrait Method}},
  Author                   = {Vapnik, V. and Lerner, A.},
  Journal                  = {Automation and Remote Control},
  Year                     = {1963},
  Volume                   = {24},

  Citeulike-article-id     = {619639},
  Posted-at                = {2006-05-09 01:04:55},
  Priority                 = {2}
}

@Article{Verma2010,
  Title                    = {{{P}rostate {M}{R}{I} and 3{D} {M}{R} spectroscopy: how we do it}},
  Author                   = {Verma, S. and Rajesh, A. and Futterer, J. J. and Turkbey, B. and Scheenen, T. W. and Pang, Y. and Choyke, P. L. and Kurhanewicz, J. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2010},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {1414--1426},
  Volume                   = {194}
}

@Article{Verma2012,
  Title                    = {{{O}verview of dynamic contrast-enhanced {M}{R}{I} in prostate cancer diagnosis and management}},
  Author                   = {Verma, S. and Turkbey, B. and Muradyan, N. and Rajesh, A. and Cornud, F. and Haider, M. A. and Choyke, P. L. and Harisinghani, M. },
  Journal                  = {AJR Am J Roentgenol},
  Year                     = {2012},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {1277--1288},
  Volume                   = {198}
}

@Article{Vilanova2009,
  Title                    = {{{P}eripheral zone prostate cancer in patients with elevated {P}{S}{A} levels and low free-to-total {P}{S}{A} ratio: detection with {M}{R} imaging and {M}{R} spectroscopy}},
  Author                   = {Vilanova, Joan C and Comet, Josep and Barcel{\'o}-Vidal, Carles and Barcel{\'o}, Joaquim and L{\'o}pez-Bonet, Eugeni and Maroto, Albert and Arzoz, Montse and Moreno, {\`A}ngel and Areal, Joan},
  Journal                  = {Radiology},
  Year                     = {2009},
  Number                   = {1},
  Pages                    = {135--143},
  Volume                   = {253},

  Publisher                = {Radiological Society of North America}
}

@Article{Villers1991,
  Title                    = {{{A}natomy of the prostate: review of the different models}},
  Author                   = {Villers, A. and Steg, A. and Boccon-Gibod, L.},
  Journal                  = {Eur. Urol.},
  Year                     = {1991},
  Pages                    = {261--268},
  Volume                   = {20},

  Abstract                 = {Current understanding of the anatomic subdivision of the adult prostate gland is secondary to two major studies successively published by Gil Vernet in 1953 and by McNeal in 1968. In Gil Vernet's report, glandular tissue consists of a caudal gland, a cranial gland and a intermediate gland. These 3 glandular areas were defined according to the location of their glandular openings into the urethra. In McNeal's report, the urethra is taken as the primary anatomic reference point. The four glandular areas are best visualized by examination of the selected coronal plane of sections along the proximal and distal prostatic urethra. The peripheral zone is located posterolaterally, the central zone is located at the base, and the 2 lobes of the transition zone are located along the proximal urethra. Fibromuscular regions are concentrated anteromedially. Most of the anatomic regions are similar between the two models, however, in McNeal's model, accuracies concerning the boundaries of the central zone and transition zone ultimately make this model superior for the study of both the physiology and pathology of the prostate.}
}

@Article{Viola1997,
  Title                    = {{{A}lignment by maximization of mutual information}},
  Author                   = {Viola, P. and Wells,III, W. M.},
  Journal                  = {Int. J. Comput. Vision},
  Year                     = {1997},

  Month                    = sep,
  Number                   = {2},
  Pages                    = {137--154},
  Volume                   = {24},

  Acmid                    = {263015},
  Address                  = {Hingham, MA, USA},
  File                     = {:../../../../Registration/Alignment by maximization of mutual information - Viola 1997.pdf:PDF:},
  ISSN                     = {0920-5691},
  Issue_date               = {Sept. 1997},
  Numpages                 = {18},
  Publisher                = {Kluwer Academic Publishers}
}

@InProceedings{Viswanath2011,
  Title                    = {{{E}nhanced multi-protocol analysis via intelligent supervised embedding ({E}{M}{P}r{A}v{I}{S}{E}): detecting prostate cancer on multi-parametric {M}{R}{I}}},
  Author                   = {Viswanath, S. and Bloch, B. N. and Chappelow, J. and Patel, P. and Rofsky, N. and Lenkinski, R. and Genega, E. and Madabhushi, A.},
  Booktitle                = {Proc. SPIE 7963, Medical Imaging 2011: Computer-Aided Diagnosis},
  Year                     = {2011},

  File                     = {:../Computer-Aided Diagnosis/Enhanced multi-protocol analysis via intelligent supervised embedding (EMPrAvISE) Detecting prostate cancer on Multi-Parametric MRI - Viswanath 2011.pdf:PDF:}
}

@Article{Viswanath2008a,
  Title                    = {{{A} comprehensive segmentation, registration, and cancer detection scheme on 3 {T}esla in vivo prostate {D}{C}{E}-{M}{R}{I}}},
  Author                   = {Viswanath, S. and Bloch, B. N. and Genega, E. and Rofsky, N. and Lenkinski, R. and Chappelow, J. and Toth, R. and Madabhushi, A.},
  Journal                  = {Med Image Comput Comput Assist Interv},
  Year                     = {2008},
  Number                   = {Pt 1},
  Pages                    = {662--669},
  Volume                   = {11},

  File                     = {:../../../../Computer-Aided Diagnosis/A Comprehensive Segmentation, Registration, and Cancer Detection Scheme on 3 Tesla In Vivo Prostate DCE MRI - Viswanath et al 2008.pdf:PDF:}
}

@InProceedings{Viswanath2009,
  Title                    = {{{I}ntegrating structural and functional imaging for computer assisted detection of prostate cancer on multi-protocol in vivo 3 {T}esla {M}{R}{I}}},
  Author                   = {Viswanath, S. and Bloch, B.~N. and Rosen, M. and Chappelow, J. and Toth, R. and Rofsky, N. and Lenkinski, R. and Genega, E. and Kalyanpur, A. and Madabhushi, A.},
  Booktitle                = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference Series},
  Year                     = {2009},
  Month                    = feb,
  Series                   = {Society of Photo-Optical Instrumentation Engineers (SPIE) Conference Series},
  Volume                   = {7260},

  Adsnote                  = {Provided by the SAO/NASA Astrophysics Data System},
  Adsurl                   = {http://adsabs.harvard.edu/abs/2009SPIE.7260E.114V},
  Eid                      = {72603I},
  File                     = {:../../../../Computer-Aided Diagnosis/Integrating Structural and Functional Imaging for Computer assisted detection of prostate cancer of multi -protocol in vivo 3 tesla mri - Viswanath et al 2009.pdf:PDF:}
}

@InProceedings{Viswanath2008,
  Title                    = {{{A} meta-classifier for detecting prostate cancer by quantitative integration of {\textit{In Vivo}} magnetic resonance spectroscopy and magnetic resonance imaging}},
  Author                   = {Viswanath, S. and Tiwari, P. and Rosen, M. and Madabhushi, A.},
  Booktitle                = {Medical Imaging 2008: Computer-Aided Diagnosis},
  Year                     = {2008},
  Publisher                = {SPIE},
  Volume                   = {6915},

  File                     = {:../../../../Computer-Aided Diagnosis/A Meta-classifier for Detecting Prostate Cancer by Quantitive Integration of In Vivo MRSI and MRI - Viswanath 2008.pdf:PDF:}
}

@Article{Viswanath2012,
  Title                    = {{{C}entral gland and peripheral zone prostate tumors have significantly different quantitative imaging signatures on 3 {T}esla endorectal, in vivo {T}2-weighted {M}{R} imagery}},
  Author                   = {Viswanath, S. E. and Bloch, N. B. and Chappelow, J. C. and Toth, R. and Rofsky, N. M. and Genega, E. M. and Lenkinski, R. E. and Madabhushi, A.},
  Journal                  = {J Magn Reson Imaging},
  Year                     = {2012},

  Month                    = {Jul},
  Number                   = {1},
  Pages                    = {213--224},
  Volume                   = {36},

  File                     = {:../../../../Computer-Aided Diagnosis/Central Gland and Peripheral Zone Prostate tumors have significantly different quantitative imaging signature on 3 Tesla endorectal in vivo T2 weighted MRI - Viswanath et al 2012.pdf:PDF:}
}

@Article{Vos2012,
  Title                    = {{{A}utomatic computer-aided detection of prostate cancer based on multiparametric magnetic resonance image analysis}},
  Author                   = {Vos, P. C. and Barentsz, J. O. and Karssemeijer, N. and Huisman, H. J.},
  Journal                  = {Phys Med Biol},
  Year                     = {2012},

  Month                    = {Mar},
  Number                   = {6},
  Pages                    = {1527--1542},
  Volume                   = {57},

  File                     = {:../../../../Computer-Aided Diagnosis/Automatic computer-aided detection of prostate cancer based on multiparametric magnetic resonance image analysis - Vos Huisman 2012.pdf:PDF:}
}

@Article{Vos2010,
  Title                    = {{{C}omputer-assisted analysis of peripheral zone prostate lesions using {T}2-weighted and dynamic contrast enhanced {T}1-weighted {M}{R}{I}}},
  Author                   = {Vos, P. C. and Hambrock, T. and Barenstz, J. O. and Huisman, H. J.},
  Journal                  = {Phys Med Biol},
  Year                     = {2010},

  Month                    = {Mar},
  Number                   = {6},
  Pages                    = {1719--1734},
  Volume                   = {55},

  File                     = {:../../../../Computer-Aided Diagnosis/Computer-assisted analysis of peripheral zone prostate lesions using T2-weighted and dynamic contrast enhanced T1-weighted MRI - Vos Huisman 2010.pdf:PDF:}
}

@InProceedings{Vos2008,
  Title                    = {{{C}ombining {T}2-weighted with dynamic {M}{R} images for computerized classification of prostate lesions}},
  Author                   = {Vos, P. C. and Hambrock, T. and Barenstz, J. O. and Huisman, H. J.},
  Booktitle                = {Medical Imaging 2008: Computer-Aided Diagnosis},
  Year                     = {2008},
  Publisher                = {SPIE},
  Volume                   = {6915},

  File                     = {:../../../../Computer-Aided Diagnosis/Combining T2-weighted with Dynamic MRI for computerized classification of prostate lesions - Vos Huisman 2008.pdf:PDF:}
}

@Article{Vos2008a,
  Title                    = {{{C}omputerized analysis of prostate lesions in the peripheral zone using dynamic contrast enhanced {M}{R}{I}}},
  Author                   = {Vos, P. C. and Hambrock, T. and Hulsbergen-van de Kaa, C. A. and Futterer, J. J. and Barentsz, J. O. and Huisman, H. J.},
  Journal                  = {Med Phys},
  Year                     = {2008},

  Month                    = {Mar},
  Number                   = {3},
  Pages                    = {888--899},
  Volume                   = {35},

  File                     = {:../../../../Computer-Aided Diagnosis/Computerized analysis of prostate lesions in the peripheral zone using dynamic contrast enhanced MRI - Vos 2008.pdf:PDF:}
}

@Article{Vovk2007,
  Title                    = {{{A} review of methods for correction of intensity inhomogeneity in {M}{R}{I}}},
  Author                   = {Vovk, U. and Pernus, F. and Likar, B.},
  Journal                  = {Medical Imaging, IEEE Transactions on},
  Year                     = {2007},
  Number                   = {3},
  Pages                    = {405-421},
  Volume                   = {26},

  ISSN                     = {0278-0062}
}

@Conference{Walker2010,
  Title                    = {{{A}bsolute quantification in 1{H} {M}{R}{S}{I} of the prostate at 3{T}}},
  Author                   = {Walker, P.M. and Crehange, G. and Parfait, S. and Cochet, A. and Maignon, P. and Cormier, L. and Brunotte, F.},
  Booktitle                = {ISMRM Annual Meeting 2010},
  Year                     = {2010}
}

@Article{Wang2008,
  Title                    = {{{A}ssessment of biologic aggressiveness of prostate cancer: correlation of {M}{R} signal intensity with {G}leason grade after radical prostatectomy}},
  Author                   = {Wang, L. and Mazaheri, Y. and Zhang, J. and Ishill, N. M. and Kuroiwa, K. and Hricak, H. },
  Journal                  = {Radiology},
  Year                     = {2008},

  Month                    = {Jan},
  Number                   = {1},
  Pages                    = {168--176},
  Volume                   = {246}
}

@Article{Wang2014,
  Title                    = {{{C}omputer {A}ided-{D}iagnosis of prostate cancer on multiparametric {M}{R}{I}: a technical review of current research}},
  Author                   = {Wang, S. and Burtt, K. and Turkbey, B. and Choyke, P. and Summers, R.M.},
  Journal                  = {BioMed Research International},
  Year                     = {2014},
  Volume                   = {2014},

  Owner                    = {lemaitre},
  Timestamp                = {2015.01.03}
}

@Article{Warfield2004,
  Title                    = {{{S}imultaneous truth and performance level estimation ({S}{T}{A}{P}{L}{E}): an algorithm for the validation of image segmentation}},
  Author                   = {Warfield, S. K. and Zou, K. H. and Wells, W. M.},
  Journal                  = {IEEE Trans Med Imaging},
  Year                     = {2004},

  Month                    = {Jul},
  Number                   = {7},
  Pages                    = {903--921},
  Volume                   = {23}
}

@Article{Wiart2007,
  Title                    = {{{I}nfluence of perfusion on high-intensity focused ultrasound prostate ablation: a first-pass {M}{R}{I} study}},
  Author                   = {Wiart, M. and Curiel, L. and Gelet, A. and Lyonnet, D. and Chapelon, J. Y. and Rouviere, O. },
  Journal                  = {Magn Reson Med},
  Year                     = {2007},

  Month                    = {Jul},
  Number                   = {1},
  Pages                    = {119--127},
  Volume                   = {58}
}

@Article{Wigle2008,
  Title                    = {{{R}ole of hormonal and other factors in human prostate cancer}},
  Author                   = {Wigle, D. T. and Turner, M. C. and Gomes, J. and Parent, M. E. },
  Journal                  = {J Toxicol Environ Health B Crit Rev},
  Year                     = {2008},

  Month                    = {Mar},
  Number                   = {3-4},
  Pages                    = {242--259},
  Volume                   = {11}
}

@Article{Ye2007,
  Title                    = {{{B}one metastasis in prostate cancer: molecular and cellular mechanisms ({R}eview)}},
  Author                   = {Ye, L. and Kynaston, H. G. and Jiang, W. G. },
  Journal                  = {Int. J. Mol. Med.},
  Year                     = {2007},

  Month                    = {Jul},
  Number                   = {1},
  Pages                    = {103--111},
  Volume                   = {20}
}

@Article{Zelhof2009,
  Title                    = {{{D}escription of magnetic resonance imaging-derived enhancement variables in pathologically confirmed prostate cancer and normal peripheral zone regions}},
  Author                   = {Zelhof, B. and Lowry, M. and Rodrigues, G. and Kraus, S. and Turnbull, L.},
  Journal                  = {BJU Int.},
  Year                     = {2009},

  Month                    = {Sep},
  Number                   = {5},
  Pages                    = {621--627},
  Volume                   = {104}
}

@Article{Zhao2012,
  Title                    = {{{R}otation-Invariant Image and Video Description With Local Binary Pattern Features}},
  Author                   = {Zhao, G. and Ahonen, T. and Matas, J. and Pietikainen, M.},
  Journal                  = {Image Processing, IEEE Transactions on},
  Year                     = {2012},
  Number                   = {4},
  Pages                    = {1465-1477},
  Volume                   = {21},

  ISSN                     = {1057-7149}
}

@Article{Zhu2010,
  Title                    = {{{D}ual-band water and lipid suppression for {M}{R} spectroscopic imaging at 3 {T}esla}},
  Author                   = {Zhu, H. and Ouwerkerk, R. and Barker, P. B. },
  Journal                  = {Magn Reson Med},
  Year                     = {2010},

  Month                    = {Jun},
  Number                   = {6},
  Pages                    = {1486--1492},
  Volume                   = {63}
}

@inproceedings{zhu2011automated,
  title={Automated determination of arterial input function for DCE-MRI of the prostate},
  author={Zhu, Yingxuan and Chang, Ming-Ching and Gupta, Sandeep},
  booktitle={SPIE Medical Imaging},
  pages={79630W--79630W},
  year={2011},
  organization={International Society for Optics and Photonics},
  doi={10.1117/12.878213}
}


@inproceedings{shanbhag2012generalized,
  title={A generalized methodology for detection of vascular input function with dynamic contrast enhanced perfusion data},
  author={Shanbhag, D and Gupta, Sandeep N and Rajamani, K and Zhu, Yingxuan and Mullick, Rakesh},
  booktitle={ISMRM},
  volume={12},
  pages={10},
  year={2012}
}

@article{fennessy2015quantitative,
  title={Quantitative pharmacokinetic analysis of prostate cancer DCE-MRI at 3T: comparison of two arterial input functions on cancer detection with digitized whole mount histopathological validation},
  author={Fennessy, Fiona M and Fedorov, Andriy and Penzkofer, Tobias and Kim, Kyung Won and Hirsch, Michelle S and Vangel, Mark G and Masry, Paul and Flood, Trevor A and Chang, Ming-Ching and Tempany, Clare M and others},
  journal={Magnetic resonance imaging},
  volume={33},
  number={7},
  pages={886--894},
  year={2015},
  publisher={Elsevier},
  doi={10.1016/j.mri.2015.02.008}
}

@article{parker2006experimentally,
  title={Experimentally-derived functional form for a population-averaged high-temporal-resolution arterial input function for dynamic contrast-enhanced MRI},
  author={Parker, Geoff JM and Roberts, Caleb and Macdonald, Andrew and Buonaccorsi, Giovanni A and Cheung, Sue and Buckley, David L and Jackson, Alan and Watson, Yvonne and Davies, Karen and Jayson, Gordon C},
  journal={Magnetic resonance in medicine},
  volume={56},
  number={5},
  pages={993--1000},
  year={2006},
  publisher={Wiley Online Library},
  doi={10.1002/mrm.21066}
}


@article{schabel2008uncertainty,
  title={Uncertainty and bias in contrast concentration measurements using spoiled gradient echo pulse sequences},
  author={Schabel, Matthias C and Parker, Dennis L},
  journal={Physics in medicine and biology},
  volume={53},
  number={9},
  pages={2345},
  year={2008},
  publisher={IOP Publishing},
  doi={10.1088/0031-9155/53/9/010}
}


@Article{Zitova2003,
  Title                    = {{{I}mage registration methods: a survey}},
  Author                   = {Zitov\'a, B. and Flusser, J.},
  Journal                  = {Image and Vision Computing },
  Year                     = {2003},
  Number                   = {11},
  Pages                    = {977 - 1000},
  Volume                   = {21},

  ISSN                     = {0262-8856}
}

@Article{pmid18491536,
  Owner                    = {lemaitre},
  Timestamp                = {2014.04.29}
}

@article{rampun2016computer,
  title={Computer-aided detection of prostate cancer in T2-weighted MRI within the peripheral zone.},
  author={Rampun, Andrik and Zheng, Ling and Malcolm, Paul and Tiddeman, Bernie and Zwiggelaar, Reyer},
  journal={Physics in medicine and biology},
  volume={61},
  number={13},
  pages={4796--4825},
  year={2016}
}

@article{rampun2016computerb,
  title={Computer aided diagnosis of prostate cancer: A texton based approach},
  author={Rampun, Andrik and Tiddeman, Bernie and Zwiggelaar, Reyer and Malcolm, Paul},
  journal={Medical Physics},
  volume={43},
  number={10},
  pages={5412--5425},
  year={2016},
  publisher={American Association of Physicists in Medicine}
}

@article{rampun2016quantitative,
  title={A Quantitative Study of Texture Features Across Different Window Sizes in Prostate T2-Weighted MRI},
  author={Rampun, Andrik and Wang, Liping and Malcolm, Paul and Zwiggelaar, Reyer},
  journal={Procedia Computer Science},
  volume={90},
  pages={74--79},
  year={2016},
  publisher={Elsevier}
}

@inproceedings{rampun2015computer,
  title={Computer Aided Diagnosis of Prostate Cancer within the Peripheral Zone in T2-Weighted MRI},
  author={Rampun, Andrik and Zheng, Ling and Malcolm, Paul and Zwiggelaar, Reyer},
  booktitle={Medical Image Understanding and Analysis (MIUA 2015)},
  year={2015}
}

@inproceedings{rampun2015classifying,
  title={Classifying Benign and Malignant Tissues within the Prostate Peripheral Zone using Textons},
  author={Rampun, Andrik and Zheng, Ling and Malcolm, Paul and Zwiggelaar, Reyer},
  booktitle={Medical Image Understanding and Analysis (MIUA 2015)},
  year={2015}
}

@inproceedings{trigui2016classification,
  title={A classification approach to prostate cancer localization in 3T multi-parametric MRI},
  author={Trigui, Rania and Miteran, Johel and Sellami, Lamia and Walker, Paul and Hamida, Ahmed Ben},
  booktitle={Advanced Technologies for Signal and Image Processing (ATSIP), 2016 2nd International Conference on},
  pages={113--118},
  year={2016},
  organization={IEEE}
}

@article{trigui2017automatic,
  title={Automatic classification and localization of prostate cancer using multi-parametric MRI/MRS},
  author={Trigui, R and Mit{\'e}ran, J and Walker, PM and Sellami, L and Hamida, A Ben},
  journal={Biomedical Signal Processing and Control},
  volume={31},
  pages={189--198},
  year={2017},
  publisher={Elsevier}
}

@inproceedings{lehaire2014computer,
  title={Computer-aided diagnostic system for prostate cancer detection and characterization combining learned dictionaries and supervised classification},
  author={Lehaire, Jerome and Flamary, R{\'e}mi and Rouvi{\`e}re, Olivier and Lartizien, Carole},
  booktitle={2014 IEEE International Conference on Image Processing (ICIP)},
  pages={2251--2255},
  year={2014},
  organization={IEEE}
}

@inproceedings{samarasinghe2016semi,
  title={Semi-quantitative analysis of prostate perfusion MRI by clustering of pre and post contrast enhancement phases},
  author={Samarasinghe, Gihan and Sowmya, Arcot and Moses, Daniel Aaron},
  booktitle={Biomedical Imaging (ISBI), 2016 IEEE 13th International Symposium on},
  pages={943--947},
  year={2016},
  organization={IEEE}
}

@inproceedings{cameron2014multiparametric,
  title={Multiparametric MRI prostate cancer analysis via a hybrid morphological-textural model},
  author={Cameron, Andrew and Modhafar, Amen and Khalvati, Farzad and Lui, Dorothy and Shafiee, Mohammad J and Wong, Alexander and Haider, Masoom},
  booktitle={2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society},
  pages={3357--3360},
  year={2014},
  organization={IEEE}
}

@article{khalvati2015automated,
  title={Automated prostate cancer detection via comprehensive multi-parametric magnetic resonance imaging texture feature models},
  author={Khalvati, Farzad and Wong, Alexander and Haider, Masoom A},
  journal={BMC medical imaging},
  volume={15},
  number={1},
  pages={27},
  year={2015},
  publisher={BioMed Central Ltd}
}

@article{cameron2016maps,
  title={MAPS: a quantitative radiomics approach for prostate cancer detection},
  author={Cameron, Andrew and Khalvati, Farzad and Haider, Masoom A and Wong, Alexander},
  journal={IEEE Transactions on Biomedical Engineering},
  volume={63},
  number={6},
  pages={1145--1156},
  year={2016},
  publisher={IEEE}
}

@article{chung2015prostate,
  title={Prostate Cancer Detection via a Quantitative Radiomics-Driven Conditional Random Field Framework},
  author={Chung, Audrey and Khalvati, Farzad and Shafiee, Mohammad and Haider, Masoom and Wong, Alexander},
  journal={IEEE Access},
  volume={3},
  pages={2531--2541},
  year={2015},
  publisher={IEEE}
}


@article{ling2002smoothing,
  title={Smoothing low-SNR molecular images via anisotropic median-diffusion},
  author={Ling, H and Bovik, Alan C},
  journal={IEEE Transactions on Medical Imaging},
  volume={21},
  number={4},
  pages={377--384},
  year={2002},
  publisher={IEEE}
}

@inproceedings{rampun2014detection,
  title={Detection and localisation of prostate cancer within the peripheral zone using scoring algorithm},
  author={Rampun, A. and Malcolm, P. and Zwiggelaar, R.},
  booktitle={Irish Machine Vision and Image Processing},
  year={2014}
}

@article{varma2005statistical,
  title={A statistical approach to texture classification from single images},
  author={Varma, M. and Zisserman, A.},
  journal={International Journal of Computer Vision},
  volume={62},
  number={1-2},
  pages={61--81},
  year={2005},
  publisher={Springer}
}

@article{leung2001representing,
  title={Representing and recognizing the visual appearance of materials using three-dimensional textons},
  author={Leung, Thomas and Malik, Jitendra},
  journal={International journal of computer vision},
  volume={43},
  number={1},
  pages={29--44},
  year={2001},
  publisher={Springer}
}

@article{otsu1975threshold,
  title={A threshold selection method from gray-level histograms},
  author={Otsu, N.},
  journal={Automatica},
  volume={11},
  number={285-296},
  pages={23--27},
  year={1975}
}

@article{tamura1978textural,
  title={Textural features corresponding to visual perception},
  author={Tamura, Hideyuki and Mori, Shunji and Yamawaki, Takashi},
  journal={IEEE Transactions on Systems, Man, and Cybernetics},
  volume={8},
  number={6},
  pages={460--473},
  year={1978},
  publisher={IEEE}
}

@article{gasparovic2006use,
  title={Use of tissue water as a concentration reference for proton spectroscopic imaging},
  author={Gasparovic, Charles and Song, Tao and Devier, Deidre and Bockholt, H Jeremy and Caprihan, Arvind and Mullins, Paul G and Posse, Stefan and Jung, Rex E and Morrison, Leslie A},
  journal={Magnetic resonance in medicine},
  volume={55},
  number={6},
  pages={1219--1226},
  year={2006},
  publisher={Wiley Online Library}
}

@article{lowry1996quantification,
  title={Quantification of citrate concentration in the prostate by proton magnetic resonance spectroscopy: Zonal and age-related differences},
  author={Lowry, Martin and Liney, GP and Turnbull, LW and Manton, DJ and Blackband, SJ and Horsman, A},
  journal={Magnetic resonance in medicine},
  volume={36},
  number={3},
  pages={352--358},
  year={1996},
  publisher={Wiley Online Library}
}

@Article{he2009learning,
  Title                    = {Learning from imbalanced data},
  Author                   = {He, Haibo and Garcia, Edwardo and others},
  Journal                  = {Knowledge and Data Engineering, IEEE Transactions on},
  Year                     = {2009},
  Number                   = {9},
  Pages                    = {1263--1284},
  Volume                   = {21},
  Publisher                = {IEEE}
}

@article{stejskal1965spin,
  title={Spin diffusion measurements: spin echoes in the presence of a time-dependent field gradient},
  author={Stejskal, Edward O and Tanner, John E},
  journal={The journal of chemical physics},
  volume={42},
  number={1},
  pages={288--292},
  year={1965},
  publisher={AIP Publishing}
}

@article{haase1986flash,
  title={FLASH imaging. Rapid NMR imaging using low flip-angle pulses},
  author={Haase, Axel and Frahm, Jens and Matthaei, Dieter and Hanicke, W and Merboldt, K-D},
  journal={Journal of Magnetic Resonance (1969)},
  volume={67},
  number={2},
  pages={258--266},
  year={1986},
  publisher={Elsevier},
  doi={10.1016/0022-2364(86)90433-6}
}

@book{carr2011magnetic,
  title={Magnetic resonance angiography: principles and applications},
  author={Carr, James C and Carroll, Timothy J},
  year={2011},
  publisher={Springer Science \& Business Media}
}

@article{de2004mr,
  title={MR imaging relaxation times of abdominal and pelvic tissues measured in vivo at 3.0 T: preliminary results 1},
  author={De Bazelaire, Cedric MJ and Duhamel, Guillaume D and Rofsky, Neil M and Alsop, David C},
  journal={Radiology},
  volume={230},
  number={3},
  pages={652--659},
  year={2004},
  publisher={Radiological Society of North America},
  doi={10.1148/radiol.2303021331}
}

@article{peng2011reproducible,
  title={Reproducible research in computational science},
  author={Peng, Roger D},
  journal={Science},
  volume={334},
  number={6060},
  pages={1226--1227},
  year={2011},
  publisher={American Association for the Advancement of Science}
}

@MISC{varoquaux2015Software,
  author = {Varoquaux, Ga\"{e}l},
  title = {{O}f {S}oftware and {S}cience. {R}eproducible science: what, why, and how},
  howpublished = {http://gael-varoquaux.info/programming/of-software-and-science-reproducible-science-what-why-and-how.html},
  year = {2015},
  address = {Accessed the 10/2016.},
  citeulike-linkout-0 = {http://gael-varoquaux.info/programming/of-software-and-science-reproducible-science-what-why-and-how.html},
  posted-at = {2015-12-16},
}

@article{xi2008baseline,
  title={Baseline correction for NMR spectroscopic metabolomics data analysis},
  author={Xi, Yuanxin and Rocke, David M},
  journal={BMC bioinformatics},
  volume={9},
  number={1},
  pages={1},
  year={2008},
  publisher={BioMed Central}
}

@article{wang2005face,
  title={Face recognition from 2D and 3D images using 3D Gabor filters},
  author={Wang, Yingjie and Chua, Chin-Seng},
  journal={Image and vision computing},
  volume={23},
  number={11},
  pages={1018--1028},
  year={2005},
  publisher={Elsevier}
}

@article{kovesi1999image,
  title={Image features from phase congruency},
  author={Kovesi, Peter},
  journal={Videre: Journal of computer vision research},
  volume={1},
  number={3},
  pages={1--26},
  year={1999},
  publisher={Citeseer}
}

@article{ojala2002multiresolution,
  title={Multiresolution gray-scale and rotation invariant texture classification with local binary patterns},
  author={Ojala, Timo and Pietikainen, Matti and Maenpaa, Topi},
  journal={IEEE Transactions on pattern analysis and machine intelligence},
  volume={24},
  number={7},
  pages={971--987},
  year={2002},
  publisher={IEEE}
}

@article{lambin2012radiomics,
  title={Radiomics: extracting more information from medical images using advanced feature analysis},
  author={Lambin, Philippe and Rios-Velazquez, Emmanuel and Leijenaar, Ralph and Carvalho, Sara and van Stiphout, Ruud GPM and Granton, Patrick and Zegers, Catharina ML and Gillies, Robert and Boellard, Ronald and Dekker, Andr{\'e} and others},
  journal={European journal of cancer},
  volume={48},
  number={4},
  pages={441--446},
  year={2012},
  publisher={Elsevier}
}

@article{shin2016deep,
  title={Deep convolutional neural networks for computer-aided detection: CNN architectures, dataset characteristics and transfer learning},
  author={Shin, Hoo-Chang and Roth, Holger R and Gao, Mingchen and Lu, Le and Xu, Ziyue and Nogues, Isabella and Yao, Jianhua and Mollura, Daniel and Summers, Ronald M},
  journal={IEEE transactions on medical imaging},
  volume={35},
  number={5},
  pages={1285--1298},
  year={2016},
  publisher={IEEE}
}

@book{hosmer2004applied,
  title={Applied logistic regression},
  author={Hosmer Jr, David W and Lemeshow, Stanley},
  year={2004},
  publisher={John Wiley \& Sons}
}

@article{friedman2001greedy,
  title={Greedy function approximation: a gradient boosting machine},
  author={Friedman, Jerome H},
  journal={Annals of statistics},
  pages={1189--1232},
  year={2001},
  publisher={JSTOR}
}

@article{imblearn,
author  = {Guillaume  Lema{{\^i}}tre and Fernando Nogueira and Christos K. Aridas},
title   = {Imbalanced-learn: A Python Toolbox to Tackle the Curse of Imbalanced Datasets in Machine Learning},
journal = {Journal of Machine Learning Research},
year    = {2017},
volume  = {18},
number  = {17},
pages   = {1-5},
url     = {http://jmlr.org/papers/v18/16-365.html}
}

@article{pedregosa2011scikit,
  title={Scikit-learn: Machine learning in Python},
  author={Pedregosa, Fabian and Varoquaux, Ga{\"e}l and Gramfort, Alexandre and Michel, Vincent and Thirion, Bertrand and Grisel, Olivier and Blondel, Mathieu and Prettenhofer, Peter and Weiss, Ron and Dubourg, Vincent and others},
  journal={Journal of Machine Learning Research},
  volume={12},
  number={Oct},
  pages={2825--2830},
  year={2011}
}