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Gene selection for cancer identification: a decision tree model empowered by particle swarm optimization algorithm
Chen, Kun-Huang, Wang, Kung-Jeng, Tsai, Min-Lung, Wang, Kung-Min, Adrian, Angelia Melani, Cheng, Wei-Chung, Yang, Tzu-Sen, Teng, Nai-Chia, Tan, Kuo-Pin, Chang, Ku-Shang
Published in BMC bioinformatics (20.02.2014)
Published in BMC bioinformatics (20.02.2014)
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Journal Article
A business process clustering algorithm using incremental covering arrays to explore search space and balanced Bayesian information criterion to evaluate quality of solutions
Ordoñez, Hugo, Torres-Jimenez, Jose, Cobos, Carlos, Ordoñez, Armando, Herrera-Viedma, Enrique, Maldonado-Martinez, Gildardo
Published in PloS one (13.06.2019)
Published in PloS one (13.06.2019)
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Journal Article
scTPC: a novel semisupervised deep clustering model for scRNA-seq data
Qiu, Yushan, Yang, Lingfei, Jiang, Hao, Zou, Quan
Published in Bioinformatics (Oxford, England) (02.05.2024)
Published in Bioinformatics (Oxford, England) (02.05.2024)
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Journal Article
Integrated Genetic and Epigenetic Analysis Identifies Haplotype-Specific Methylation in the FTO Type 2 Diabetes and Obesity Susceptibility Locus
Bell, Christopher G., Finer, Sarah, Lindgren, Cecilia M., Wilson, Gareth A., Rakyan, Vardhman K., Teschendorff, Andrew E., Akan, Pelin, Stupka, Elia, Down, Thomas A., Prokopenko, Inga, Morison, Ian M., Mill, Jonathan, Pidsley, Ruth, Deloukas, Panos, Frayling, Timothy M., Hattersley, Andrew T., McCarthy, Mark I., Beck, Stephan, Hitman, Graham A.
Published in PloS one (18.11.2010)
Published in PloS one (18.11.2010)
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Journal Article
Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS
Johnson, Jeanette A. I., Tsang, Ashley P., Mitchell, Jacob T., Zhou, David L., Bowden, Julia, Davis-Marcisak, Emily, Sherman, Thomas, Liefeld, Ted, Loth, Melanie, Goff, Loyal A., Zimmerman, Jacquelyn W., Kinny-Köster, Ben, Jaffee, Elizabeth M., Tamayo, Pablo, Mesirov, Jill P., Reich, Michael, Fertig, Elana J., Stein-O’Brien, Genevieve L.
Published in Nature protocols (01.12.2023)
Published in Nature protocols (01.12.2023)
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Journal Article
Integrating biological knowledge into variable selection: an empirical Bayes approach with an application in cancer biology
Hill, Steven M, Neve, Richard M, Bayani, Nora, Kuo, Wen-Lin, Ziyad, Safiyyah, Spellman, Paul T, Gray, Joe W, Mukherjee, Sach
Published in BMC bioinformatics (11.05.2012)
Published in BMC bioinformatics (11.05.2012)
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Journal Article
Genetic Structure, Linkage Disequilibrium and Signature of Selection in Sorghum: Lessons from Physically Anchored DArT Markers
Bouchet, Sophie, Pot, David, Deu, Monique, Rami, Jean-François, Billot, Claire, Perrier, Xavier, Rivallan, Ronan, Gardes, Laëtitia, Xia, Ling, Wenzl, Peter, Kilian, Andrzej, Glaszmann, Jean-Christophe
Published in PloS one (13.03.2012)
Published in PloS one (13.03.2012)
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Journal Article
A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis
Down, Thomas A, Rakyan, Vardhman K, Turner, Daniel J, Flicek, Paul, Li, Heng, Kulesha, Eugene, Gräf, Stefan, Johnson, Nathan, Herrero, Javier, Tomazou, Eleni M, Thorne, Natalie P, Bäckdahl, Liselotte, Herberth, Marlis, Howe, Kevin L, Jackson, David K, Miretti, Marcos M, Marioni, John C, Birney, Ewan, Hubbard, Tim J P, Durbin, Richard, Tavaré, Simon, Beck, Stephan
Published in Nature biotechnology (01.07.2008)
Published in Nature biotechnology (01.07.2008)
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Journal Article
QChIPat: a quantitative method to identify distinct binding patterns for two biological ChIP-seq samples in different experimental conditions
Liu, Bin, Yi, Jimmy, SV, Aishwarya, Lan, Xun, Ma, Yilin, Huang, Tim HM, Leone, Gustavo, Jin, Victor X
Published in BMC genomics (09.12.2013)
Published in BMC genomics (09.12.2013)
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Journal Article
Fast, Scalable, Bayesian Spike Identification for Multi-Electrode Arrays
Prentice, Jason S., Homann, Jan, Simmons, Kristina D., Tkačik, Gašper, Balasubramanian, Vijay, Nelson, Philip C.
Published in PloS one (20.07.2011)
Published in PloS one (20.07.2011)
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Journal Article
SEQing: web-based visualization of iCLIP and RNA-seq data in an interactive python framework
Lewinski, Martin, Bramkamp, Yannik, Köster, Tino, Staiger, Dorothee
Published in BMC bioinformatics (18.03.2020)
Published in BMC bioinformatics (18.03.2020)
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Journal Article
Correlation Network Analysis Applied to Complex Biofilm Communities
Duran-Pinedo, Ana E., Paster, Bruce, Teles, Ricardo, Frias-Lopez, Jorge
Published in PloS one (07.12.2011)
Published in PloS one (07.12.2011)
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Journal Article
Increasing tendency of urine protein is a risk factor for rapid eGFR decline in patients with CKD: A machine learning-based prediction model by using a big database
Inaguma, Daijo, Kitagawa, Akimitsu, Yanagiya, Ryosuke, Koseki, Akira, Iwamori, Toshiya, Kudo, Michiharu, Yuzawa, Yukio
Published in PLoS ONE (17.09.2020)
Published in PLoS ONE (17.09.2020)
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Journal Article
Inferring Protein Modulation from Gene Expression Data Using Conditional Mutual Information
Giorgi, Federico M., Lopez, Gonzalo, Woo, Jung H., Bisikirska, Brygida, Califano, Andrea, Bansal, Mukesh
Published in PloS one (14.10.2014)
Published in PloS one (14.10.2014)
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Journal Article
An Introduction to Programming for Bioscientists: A Python-Based Primer
Ekmekci, Berk, McAnany, Charles E., Mura, Cameron
Published in PLoS computational biology (01.06.2016)
Published in PLoS computational biology (01.06.2016)
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Journal Article