rqtlexper.bib

% This file was created with JabRef 2.9.2.
% Encoding: ISO8859_1

@ARTICLE{Arends2010,
  author = {Arends, Danny and Prins, Pjotr and Jansen, Ritsert C and Broman,
	Karl W},
  title = {{R}/qtl: high throughput multiple {QTL} mapping},
  journal = {Bioinformatics},
  year = {2010},
  volume = {26},
  pages = {2990--2992},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2982156/}
}

@ARTICLE{Baum1970,
  author = {Baum, Leonard E and Petrie, Ted and Soules, George and Weiss, Norman},
  title = {A maximization technique occurring in the statistical analysis of
	probabilistic functions of Markov chains},
  journal = {Ann. Math. Statist.},
  year = {1970},
  volume = {41},
  pages = {164--171},
  url = {http://www.jstor.org/stable/2239727}
}

@ARTICLE{Broman2003,
  author = {Broman, K.W.},
  title = {Mapping quantitative trait loci in the case of a spike in the phenotype
	distribution},
  journal = {Genetics},
  year = {2003},
  volume = {163},
  pages = {1169--1175},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462498/}
}

@BOOK{rqtlbook,
  title = {A guide to {QTL} mapping with {R}/qtl},
  publisher = {Springer},
  year = {2009},
  author = {Karl W. Broman and \'Saunak Sen}
}

@ARTICLE{Broman2002,
  author = {Broman, Karl W and Speed, Terence P},
  title = {A model selection approach for the identification of quantitative
	trait loci in experimental crosses},
  journal = {J R Statist Soc B},
  year = {2002},
  volume = {64},
  pages = {641--656},
  url = {http://www.jstor.org/stable/3088807}
}

@ARTICLE{rqtlpaper,
  author = {Broman, K W and Wu, H and Sen, S and Churchill, G A},
  title = {{R}/qtl: {QTL} mapping in experimental crosses},
  journal = {Bioinformatics},
  year = {2003},
  volume = {19},
  pages = {889--890},
  url = {http://bioinformatics.oxfordjournals.org/content/19/7/889.long}
}

@BOOK{Brooks1975,
  title = {Mythical Man Month: Essays on Software Engineering},
  publisher = {Addison-Wesley},
  year = {1975},
  author = {F. P. Brooks}
}

@ARTICLE{Huang2012,
  author = {B. E. Huang and R. Shah and A. W. George},
  title = {dlmap: An {R} package for mixed model {QTL} and association analysis.},
  journal = {J. Statist. Soft.},
  year = {2012},
  volume = {50},
  issue = {6},
  pages = {1--22},
  url = {http://www.jstatsoft.org/v50/i06/paper}
}

@ARTICLE{Jansen2001,
  author = {Jansen, R.C. and Nap, J.P.},
  title = {Genetical genomics: the added value from segregation},
  journal = {Trends Genet.},
  year = {2001},
  volume = {17},
  pages = {388--391},
  url = {http://www.cell.com/trends/genetics/abstract/S0168-9525(01)02310-1}
}

@ARTICLE{Jansen1994,
  author = {Jansen, Ritsert C},
  title = {Controlling the type {I} and type {II} errors in mapping quantitative
	trait loci},
  journal = {Genetics},
  year = {1994},
  volume = {138},
  pages = {871--881},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1206235/}
}

@ARTICLE{Jansen1993,
  author = {Jansen, Ritsert C},
  title = {Interval mapping of multiple quantitative trait loci},
  journal = {Genetics},
  year = {1993},
  volume = {135},
  pages = {205--211},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1205619/}
}

@ARTICLE{JansenStam1994,
  author = {Jansen, Ritsert C and Stam, Piet},
  title = {High resolution of quantitative traits into multiple loci via interval
	mapping},
  journal = {Genetics},
  year = {1994},
  volume = {136},
  pages = {1447--1455},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1205923/}
}

@ARTICLE{Lander1989,
  author = {Lander, Eric S and Botstein, David},
  title = {Mapping {M}endelian factors underlying quantitative traits using {RFLP}
	linkage maps},
  journal = {Genetics},
  year = {1989},
  volume = {121},
  pages = {185--199},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1203601/}
}

@ARTICLE{Manichaikul2009,
  author = {Manichaikul, Ani and Moon, Jee Young and Sen, Saunak and Yandell,
	Brian S and Broman, Karl W},
  title = {A model selection approach for the identification of quantitative
	trait loci in experimental crosses, allowing epistasis},
  journal = {Genetics},
  year = {2009},
  volume = {181},
  pages = {1077--86},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2651044/}
}

@BOOK{Raymond1999,
  title = {The Cathedral \& the Bazaar},
  publisher = {O'Reilly, Sebastopol, CA},
  year = {1999},
  author = {E. S. Raymond},
  url = {http://www.catb.org/~esr/writings/cathedral-bazaar/cathedral-bazaar/}
}

@book{RCoreTeam2013,
  author = {{R Core Team}},
  title = {R: A language and environment for statistical computing},
  journal = {R Foundation for Statistical Computing, Vienna, Austria},
  year = {2013},
  url = {http://www.r-project.org}
}

@ARTICLE{Svenson2012,
  author = {Svenson, Karen L and Gatti, Daniel M and Valdar, William and Welsh,
	Catherine E and Cheng, Riyan and Chesler, Elissa J and Palmer, Abraham
	A and McMillan, Leonard and Churchill, Gary A},
  title = {High-resolution genetic mapping using the {M}ouse {D}iversity outbred
	population},
  journal = {Genetics},
  year = {2012},
  volume = {190},
  pages = {437--447},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3276626/}
}

@ARTICLE{Taylor2011,
  author = {J. Taylor and A. Verbyla},
  title = {R package wgaim: {QTL} analysis in bi-parental populations using
	linear mixed models},
  journal = {J. Statist. Soft.},
  year = {2011},
  volume = {40},
  issue = {7},
  pages = {1-18},
  url = {http://www.jstatsoft.org/v40/i07/paper}
}

@INCOLLECTION{Tesson2009,
  author = {Tesson, Bruno M and Jansen, Ritsert C},
  title = {{eQTL} analysis in mice and rats},
  booktitle = {Cardiovascular Genomics, Methods in Molecular Biology 573},
  publisher = {Humana Press},
  year = {2009},
  editor = {DiPetrillo, Keith},
  number = {10},
  chapter = {16},
  pages = {285--309},
}

@ARTICLE{CTC2004,
  author = {{The Complex Trait Consortium}},
  title = {The {C}ollaborative {C}ross, a community resource for the genetic analysis
	of complex traits},
  journal = {Nat. Genet.},
  year = {2004},
  volume = {36},
  pages = {1133--1137},
  url = {http://www.nature.com/ng/journal/v36/n11/full/ng1104-1133.html}
}

@ARTICLE{Yandell2007,
  author = {Yandell, Brian S and Mehta, Tapan and Banerjee, Samprit and Shriner,
	Daniel and Venkataraman, Ramprasad and Moon, Jee Young and Neely,
	W Whipple and Wu, Hao and von Smith, Randy and Yi, Nengjun},
  title = {{R}/qtlbim: {QTL} with {B}ayesian interval mapping in experimental crosses},
  journal = {Bioinformatics},
  year = {2007},
  volume = {23},
  pages = {641--643},
  url = {http://bioinformatics.oxfordjournals.org/content/23/5/641.long}
}

@article{Moore2013,
  title={High-Throughput Computer Vision Introduces the Time Axis to a Quantitative Trait Map of a Plant Growth Response},
  author={Moore, Candace R and Johnson, Logan S and Kwak, Il-Youp and Livny, Miron and Broman, Karl W and Spalding, Edgar P},
  journal={Genetics},
  volume={195},
  pages={1077--1086},
  year={2013},
  url = {http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3813838/}
}