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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
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
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
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
BACOM: in silico detection of genomic deletion types and correction of normal cell contamination in copy number data
Yu, Guoqiang, Zhang, Bai, Bova, G. Steven, Xu, Jianfeng, Shih, Ie−Ming, Wang, Yue
Published in Bioinformatics (01.06.2011)
Published in Bioinformatics (01.06.2011)
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Journal Article
Simultaneous inferences based on empirical Bayes methods and false discovery rates ineQTL data analysis
Chakraborty, Arindom, Jiang, Guanglong, Boustani, Malaz, Liu, Yunlong, Skaar, Todd, Li, Lang
Published in BMC genomics (09.12.2013)
Published in BMC genomics (09.12.2013)
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Journal Article