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Irizarry R, et al. (2015) Biomedical Data Science. Course Notes, EdX PH525.1x.
Huber W, et al. (2015) Orchestrating high-throughput genomic analysis with Bioconductor. Nature Methods 12:115-121; doi:10.1038/nmeth.3252 (full-text free with registration).
Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W, and Smyth, GK (2015) limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucl. Acids Res; doi:10.1093/nar/gkv007
Love M, Huber W, and Anders S. (2014) Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biology 15:550; doi:10.1186/s13059-014-0550-8
Lawrence M, Huber W, Pagès H, Aboyoun P, Carlson M, et al. (2013) Software for Computing and Annotating Genomic Ranges. PLoS Comput Biol 9(8): e1003118. doi: 10.1371/journal.pcbi.1003118

Recent

20 most recent PubMed and PubMed Central citations mentioning "Bioconductor". For a complete list, go to PubMed and PubMed Central. Last updated 2015-07-01T20:50:11-07:00.

Eijssen LM, Goelela VS, Kelder T, Adriaens ME, Evelo CT, Radonjic M. A user-friendly workflow for analysis of Illumina gene expression bead array data available at the arrayanalysis.org portal. BMC Genomics, 16, pp. 482. doi:10.1186/s12864-015-1689-8 (30 June 2015)
Duck G, Kovacevic A, Robertson DL, Stevens R, Nenadic G. Ambiguity and variability of database and software names in bioinformatics J Biomed Semantics, 6, pp. 29. doi:10.1186/s13326-015-0026-0 (29 June 2015)
Zou M, Zhang X, Shi Z, Lin L, Ouyang G, Zhang G, Zheng H, Wei K, Ji W. A Comparative Transcriptome Analysis between Wild and Albino Yellow Catfish (Pelteobagrus fulvidraco) PLoS One, 10(6), pp. e0131504. doi:10.1371/journal.pone.0131504 (26 June 2015)
Fröhlich H. biRte: Bayesian Inference of Context Specific Regulator Activities and Transcriptional Networks. Bioinformatics. doi:10.1093/bioinformatics/btv379 (25 June 2015)
Carrillo JA, He Y, Luo J, Menendez KR, Tablante NL, Zhao K, Paulson JN, Li B, Song J. Methylome Analysis in Chickens Immunized with Infectious Laryngotracheitis Vaccine PLoS One, 10(6), pp. e0100476. doi:10.1371/journal.pone.0100476 (24 June 2015)
Puthiyedth N, Riveros C, Berretta R, Moscato P. A New Combinatorial Optimization Approach for Integrated Feature Selection Using Different Datasets: A Prostate Cancer Transcriptomic Study PLoS One, 10(6), pp. e0127702. doi:10.1371/journal.pone.0127702 (24 June 2015)
Laitz AV, Acencio ML, Budzinski IG, Labate MT, Lemke N, Ribolla PE, Maia IG. Transcriptome Response Signatures Associated with the Overexpression of a Mitochondrial Uncoupling Protein (AtUCP1) in Tobacco PLoS One, 10(6), pp. e0130744. doi:10.1371/journal.pone.0130744 (24 June 2015)
Pant I, Kumar N, Khan I, Rao SG, Kondaiah P. Role of Areca Nut Induced TGF-β and Epithelial-Mesenchymal Interaction in the Pathogenesis of Oral Submucous Fibrosis PLoS One, 10(6), pp. e0129252. doi:10.1371/journal.pone.0129252 (24 June 2015)
García-Ortega LF, Martínez O. How Many Genes Are Expressed in a Transcriptome? Estimation and Results for RNA-Seq PLoS One, 10(6), pp. e0130262. doi:10.1371/journal.pone.0130262 (24 June 2015)
Juliá M, Telenti A, Rausell A. Sincell: an R/Bioconductor package for statistical assessment of cell-state hierarchies from single-cell RNA-seq. Bioinformatics. doi:10.1093/bioinformatics/btv368 (22 June 2015)
Ruppender N, Larson S, Lakely B, Kollath L, Brown L, Coleman I, Coleman R, Nguyen H, Nelson PS, Corey E, Snyder LA, Vessella RL, Morrissey C, Lam HM. Cellular Adhesion Promotes Prostate Cancer Cells Escape from Dormancy PLoS One, 10(6), pp. e0130565. doi:10.1371/journal.pone.0130565 (19 June 2015)
Vyas M, Fisher TW, He R, Nelson W, Yin G, Cicero JM, Willer M, Kim R, Kramer R, May GA, Crow JA, Soderlund CA, Gang DR, Brown JK. Asian Citrus Psyllid Expression Profiles Suggest Candidatus Liberibacter Asiaticus-Mediated Alteration of Adult Nutrition and Metabolism, and of Nymphal Development and Immunity PLoS One, 10(6), pp. e0130328. doi:10.1371/journal.pone.0130328 (19 June 2015)
Sun L, Li J, Yan B. Gene expression profiling analysis of osteosarcoma cell lines. Mol Med Rep. doi:10.3892/mmr.2015.3958 (18 June 2015)
Bartel J, Krumsiek J, Schramm K, Adamski J, Gieger C, Herder C, Carstensen M, Peters A, Rathmann W, Roden M, Strauch K, Suhre K, Kastenmüller G, Prokisch H, Theis FJ. The Human Blood Metabolome-Transcriptome Interface PLoS Genet, 11(6), pp. e1005274. doi:10.1371/journal.pgen.1005274 (18 June 2015)
Rebernig CA, Lafon-Placette C, Hatorangan MR, Slotte T, Köhler C. Non-reciprocal Interspecies Hybridization Barriers in the Capsella Genus Are Established in the Endosperm PLoS Genet, 11(6), pp. e1005295. doi:10.1371/journal.pgen.1005295 (18 June 2015)
Klambauer G, Wischenbart M, Mahr M, Unterthiner T, Mayr A, Hochreiter S. Rchemcpp: a web service for structural analoging in ChEMBL, Drugbank and the Connectivity Map. Bioinformatics. doi:10.1093/bioinformatics/btv373 (17 June 2015)
Li Y, Xiao X, Ji X, Liu B, Amos CI. RNA-seq analysis of lung adenocarcinomas reveals different gene expression profiles between smoking and nonsmoking patients. Tumour Biol. doi:10.1007/s13277-015-3576-y (17 June 2015)
Gådin JR, Van't Hooft FM, Eriksson P, Folkersen L. AllelicImbalance: an R/ bioconductor package for detecting, managing, and visualizing allele expression imbalance data from RNA sequencing. BMC Bioinformatics, 16, pp. 194. doi:10.1186/s12859-015-0620-2 (12 June 2015)
Löffler-Wirth H, Kalcher M, Binder H. oposSOM: R-package for high-dimensional portraying of genome-wide expression landscapes on bioconductor. Bioinformatics. doi:10.1093/bioinformatics/btv342 (10 June 2015)
Hicks SC, Irizarry RA. quantro: a data-driven approach to guide the choice of an appropriate normalization method. Genome Biol, 16(1), pp. 117. doi:10.1186/s13059-015-0679-0 (4 June 2015)

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