rename/move referennces.bib

paper.bib

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+% Encoding: UTF-8
+
+@Article{Laang2018,
+  author  = {Emma Lång and Anna Połeć and Anna Lång and Marijke Valk and Pernille Blicher and Alexander D. Rowe and Kim A. Tønseth and Catherine J. Jackson and Tor P. Utheim and Liesbeth M. C. Janssen and Jens Eriksson and Stig Ove Bøe},
+  journal = {Nature communications},
+  title   = {Coordinated collective migration and asymmetric cell division in confluent human keratinocytes without wounding},
+  year    = {2018},
+  issn    = {2041-1723},
+  volume  = {9},
+  doi     = {10.1038/s41467-018-05578-7},
+}
+
+@Article{Malinverno2017,
+  author  = {Chiara Malinverno and Salvatore Corallino and Fabio Giavazzi and Martin Bergert and Qingsen Li and Marco Leoni and Andrea Disanza and Emanuela Frittoli and Amanda Oldani and Emanuele Martini and Tobias Lendenmann and Gianluca Deflorian and Galina V. Beznoussenko and Dimos Poulikakos and Kok Haur Ong and Marina Uroz and Xavier Trepat and Dario Parazzoli and Paolo Maiuri and Weimiao Yu and Aldo Ferrari and Roberto Cerbino and Giorgio Scita},
+  journal = {Nature materials},
+  title   = {Endocytic reawakening of motility in jammed epithelia},
+  year    = {2017},
+  issn    = {1476-1122},
+  number  = {5},
+  pages   = {587-596},
+  volume  = {16},
+  doi     = {10.1038/nmat4848},
+}
+
+@Article{vanderWalt2011,
+  author  = {S. {van der Walt} and S. C. {Colbert} and G. {Varoquaux}},
+  journal = {Computing in Science Engineering},
+  title   = {The NumPy Array: A Structure for Efficient Numerical Computation},
+  year    = {2011},
+  number  = {2},
+  pages   = {22-30},
+  volume  = {13},
+  doi     = {10.1109/MCSE.2011.37},
+}
+
+@Article{Taylor2010,
+  author  = {Taylor,Z. J. and Gurka,R. and Kopp,G. A. and Liberzon,A.},
+  journal = {IEEE Transactions on Instrumentation and Measurement},
+  title   = {Long-duration time-resolved PIV to study unsteady aerodynamics},
+  year    = {2010},
+  number  = {12},
+  pages   = {3262-3269},
+  volume  = {59},
+  doi     = {10.1109/TIM.2010.2047149},
+}
+
+@Article{Bradski2000,
+  author               = {Bradski, G.},
+  journal              = {Dr. Dobb's Journal of Software Tools},
+  title                = {{The OpenCV Library}},
+  year                 = {2000},
+  citeulike-article-id = {2236121},
+  journaltitle         = {Dr. Dobb's Journal of Software Tools},
+  keywords             = {bibtex-import},
+  posted-at            = {2008-01-15 19:21:54},
+}
+
+@Article{Hunter2007,
+  author    = {Hunter, J. D.},
+  journal   = {Computing in Science \& Engineering},
+  title     = {Matplotlib: A 2D graphics environment},
+  year      = {2007},
+  number    = {3},
+  pages     = {90--95},
+  volume    = {9},
+  abstract  = {Matplotlib is a 2D graphics package used for Python for
+  application development, interactive scripting, and publication-quality
+  image generation across user interfaces and operating systems.},
+  doi       = {10.1109/MCSE.2007.55},
+  publisher = {IEEE COMPUTER SOC},
+}
+
+@Article{Vig2016,
+  author  = {Dhruv K. Vig and Alex E. Hamby and Charles W. Wolgemuth},
+  journal = {Biophysical Journal},
+  title   = {On the Quantification of Cellular Velocity Fields},
+  year    = {2016},
+  issn    = {0006-3495},
+  pages   = {1469-1475},
+  volume  = {110},
+  doi     = {10.1016/j.bpj.2016.02.032},
+}
+
+@Article{Jonkman2020,
+  author          = {Jonkman, James and Brown, Claire M. and Wright, Graham D. and Anderson, Kurt I. and North, Alison J.},
+  journal         = {Nature protocols},
+  title           = {Tutorial: guidance for quantitative confocal microscopy.},
+  year            = {2020},
+  issn            = {1750-2799},
+  month           = may,
+  pages           = {1585--1611},
+  volume          = {15},
+  abstract        = {When used appropriately, a confocal fluorescence microscope is an excellent tool for making quantitative measurements in cells and tissues. The confocal microscope's ability to block out-of-focus light and thereby perform optical sectioning through a specimen allows the researcher to quantify fluorescence with very high spatial precision. However, generating meaningful data using confocal microscopy requires careful planning and a thorough understanding of the technique. In this tutorial, the researcher is guided through all aspects of acquiring quantitative confocal microscopy images, including optimizing sample preparation for fixed and live cells, choosing the most suitable microscope for a given application and configuring the microscope parameters. Suggestions are offered for planning unbiased and rigorous confocal microscope experiments. Common pitfalls such as photobleaching and cross-talk are addressed, as well as several troubling instrumentation problems that may prevent the acquisition of quantitative data. Finally, guidelines for analyzing and presenting confocal images in a way that maintains the quantitative nature of the data are presented, and statistical analysis is discussed. A visual summary of this tutorial is available as a poster (https://doi.org/10.1038/s41596-020-0307-7).},
+  citation-subset = {IM},
+  completed       = {2020-07-07},
+  country         = {England},
+  doi             = {10.1038/s41596-020-0313-9},
+  issn-linking    = {1750-2799},
+  issue           = {5},
+  keywords        = {Microscopy, Confocal; Microscopy, Fluorescence; Tissue Fixation},
+  nlm-id          = {101284307},
+  owner           = {NLM},
+  pii             = {10.1038/s41596-020-0313-9},
+  pmid            = {32235926},
+  pubmodel        = {Print-Electronic},
+  pubstate        = {ppublish},
+  revised         = {2020-07-07},
+}
+
+@Article{Dutton2019,
+  author          = {Dutton, Johanna S. and Hinman, Samuel S. and Kim, Raehyun and Wang, Yuli and Allbritton, Nancy L.},
+  journal         = {Trends in biotechnology},
+  title           = {Primary Cell-Derived Intestinal Models: Recapitulating Physiology.},
+  year            = {2019},
+  issn            = {1879-3096},
+  month           = jul,
+  pages           = {744--760},
+  volume          = {37},
+  abstract        = {The development of physiologically relevant intestinal models fueled by breakthroughs in primary cell-culture methods has enabled successful recapitulation of key features of intestinal physiology. These advances, paired with engineering methods, for example incorporating chemical gradients or physical forces across the tissues, have yielded ever more sophisticated systems that enhance our understanding of the impact of the host microbiome on human physiology as well as on the genesis of intestinal diseases such as inflammatory bowel disease and colon cancer. In this review we highlight recent advances in the development and usage of primary cell-derived intestinal models incorporating monolayers, organoids, microengineered platforms, and macrostructured systems, and discuss the expected directions of the field.},
+  citation-subset = {IM},
+  completed       = {2020-06-25},
+  country         = {England},
+  doi             = {10.1016/j.tibtech.2018.12.001},
+  issn-linking    = {0167-7799},
+  issue           = {7},
+  keywords        = {Cell Culture Techniques, methods, trends; Cells, Cultured; Humans; Intestines, physiology; Models, Biological; Organoids, physiology; Tissue Engineering, methods, trends; in vitro models; intestine; monolayers; organ-on-chips; organoids; stem cells},
+  mid             = {NIHMS1517427},
+  nlm-id          = {8310903},
+  owner           = {NLM},
+  pii             = {S0167-7799(18)30338-X},
+  pmc             = {PMC6571163},
+  pmid            = {30591184},
+  pubmodel        = {Print-Electronic},
+  pubstate        = {ppublish},
+  revised         = {2020-07-01},
+}
+
+@Article{Danuser2006,
+  author          = {Danuser, Gaudenz and Waterman-Storer, Clare M.},
+  journal         = {Annual review of biophysics and biomolecular structure},
+  title           = {Quantitative fluorescent speckle microscopy of cytoskeleton dynamics.},
+  year            = {2006},
+  issn            = {1056-8700},
+  pages           = {361--387},
+  volume          = {35},
+  abstract        = {Fluorescent speckle microscopy (FSM) is a technology used to analyze the dynamics of macromolecular assemblies in vivo and in vitro. Speckle formation by random association of fluorophores with a macromolecular structure was originally discovered for microtubules. Since then FSM has been expanded to study other cytoskeleton and cytoskeleton-binding proteins. Specialized software has been developed to convert the stochastic speckle image signal into spatiotemporal maps of polymer transport and turnover in living cells. These maps serve as a unique quantitative readout of the dynamic steady state of the cytoskeleton and its responses to molecular and genetic interventions, allowing a systematic study of the mechanisms of cytoskeleton regulation and its effect on cell function. Here, we explain the principles of FSM imaging and signal analysis, outline the biological questions and corresponding methodological advances that have led to the current state of FSM, and give a glimpse of new FSM modalities under development.},
+  chemicals       = {Cytoskeletal Proteins},
+  citation-subset = {IM},
+  completed       = {2006-07-27},
+  country         = {United States},
+  doi             = {10.1146/annurev.biophys.35.040405.102114},
+  issn-linking    = {1056-8700},
+  keywords        = {Animals; Cytoskeletal Proteins, metabolism, ultrastructure; Cytoskeleton, physiology, ultrastructure; Humans; Image Interpretation, Computer-Assisted; Protein Transport, physiology; Spectrometry, Fluorescence, methods},
+  nlm-id          = {9211097},
+  owner           = {NLM},
+  pmid            = {16689641},
+  pubmodel        = {Print},
+  pubstate        = {ppublish},
+  references      = {70},
+  revised         = {2007-11-14},
+}
+
+@Comment{jabref-meta: databaseType:bibtex;}