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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). PMC4509590
Kannan L, et al. (2015). Public data and open source tools for multi-assay genomic investigation of disease. Brief Bioinform. doi:10.1093/bib/bbv080
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 2017-09-24T18:20:09-04:00.

Birnbaum DJ, Finetti P, Lopresti A, Gilabert M, Poizat F, Raoul JL, Delpero JR, Moutardier V, Birnbaum D, Mamessier E, Bertucci F. A 25-gene classifier predicts overall survival in resectable pancreatic cancer BMC Med, 15, pp. 170. doi:10.1186/s12916-017-0936-z (20 September 2017)
Huang HT, Seo HS, Zhang T, Wang Y, Jiang B, Li Q, Buckley DL, Nabet B, Roberts JM, Paulk J, Dastjerdi S, Winter GE, McLauchlan H, Moran J, Bradner JE, Eck MJ, Dhe-Paganon S, Zhao JJ, Gray NS. MELK is not necessary for the proliferation of basal-like breast cancer cells eLife, 6, pp. e26693. doi:10.7554/eLife.26693 (19 September 2017)
Tamiru M, Natsume S, Takagi H, White B, Yaegashi H, Shimizu M, Yoshida K, Uemura A, Oikawa K, Abe A, Urasaki N, Matsumura H, Babil P, Yamanaka S, Matsumoto R, Muranaka S, Girma G, Lopez-Montes A, Gedil M, Bhattacharjee R, Abberton M, Kumar PL, Rabbi I, Tsujimura M, Terachi T, Haerty W, Corpas M, Kamoun S, Kahl G, Takagi H, Asiedu R, Terauchi R. Genome sequencing of the staple food crop white Guinea yam enables the development of a molecular marker for sex determination BMC Biol, 15, pp. 86. doi:10.1186/s12915-017-0419-x (19 September 2017)
Cao Y, Han Y, Meng D, Li D, Jiao C, Jin Q, Lin Y, Cai Y. B-BOX genes: genome-wide identification, evolution and their contribution to pollen growth in pear (Pyrus bretschneideri Rehd.) BMC Plant Biol, 17, pp. 156. doi:10.1186/s12870-017-1105-4 (19 September 2017)
Singh G, Singh G, Singh P, Parmar R, Paul N, Vashist R, Swarnkar MK, Kumar A, Singh S, Singh AK, Kumar S, Sharma RK. Molecular dissection of transcriptional reprogramming of steviol glycosides synthesis in leaf tissue during developmental phase transitions in Stevia rebaudiana Bert Sci Rep, 7, pp. 11835. doi:10.1038/s41598-017-12025-y (19 September 2017)
Spiers H, Hannon E, Schalkwyk LC, Bray NJ, Mill J. 5-hydroxymethylcytosine is highly dynamic across human fetal brain development BMC Genomics, 18, pp. 738. doi:10.1186/s12864-017-4091-x (18 September 2017)
Park W, Rengaraj D, Kil DY, Kim H, Lee HK, Song KD. RNA-seq analysis of the kidneys of broiler chickens fed diets containing different concentrations of calcium Sci Rep, 7, pp. 11740. doi:10.1038/s41598-017-11379-7 (18 September 2017)
Moisiadis VG, Constantinof A, Kostaki A, Szyf M, Matthews SG. Prenatal Glucocorticoid Exposure Modifies Endocrine Function and Behaviour for 3 Generations Following Maternal and Paternal Transmission Sci Rep, 7, pp. 11814. doi:10.1038/s41598-017-11635-w (18 September 2017)
Wang J, Koganti PP, Yao J, Wei S, Cleveland B. Comprehensive analysis of lncRNAs and mRNAs in skeletal muscle of rainbow trout (Oncorhynchus mykiss) exposed to estradiol Sci Rep, 7, pp. 11780. doi:10.1038/s41598-017-12136-6 (18 September 2017)
Mages CF, Wintsche A, Bernhart SH, Müller GA. The DREAM complex through its subunit Lin37 cooperates with Rb to initiate quiescence eLife, 6, pp. e26876. doi:10.7554/eLife.26876 (18 September 2017)
Černá M, Kuntová B, Talacko P, Stopková R, Stopka P. Differential regulation of vaginal lipocalins (OBP, MUP) during the estrous cycle of the house mouse Sci Rep, 7, pp. 11674. doi:10.1038/s41598-017-12021-2 (15 September 2017)
Zappia L, Phipson B, Oshlack A. Splatter: simulation of single-cell RNA sequencing data. Genome Biol, 18(1), pp. 174. doi:10.1186/s13059-017-1305-0 (12 September 2017)
Li Y, Liu X, Tang H, Yang H, Meng X. RNA Sequencing Uncovers Molecular Mechanisms Underlying Pathological Complete Response to Chemotherapy in Patients with Operable Breast Cancer Med Sci Monit, 23, pp. 4321-4327. doi:10.12659/MSM.903272 (7 September 2017)
Welch R, Chung D, Grass J, Landick R, Keles S. Data exploration, quality control and statistical analysis of ChIP-exo/nexus experiments. Nucleic Acids Res, 45(15), pp. e145. doi:10.1093/nar/gkx594 (6 September 2017)
Martínez-Micaelo N, Beltrán-Debón R, Aragonés G, Faiges M, Alegret JM. MicroRNAs Clustered within the 14q32 Locus Are Associated with Endothelial Damage and Microparticle Secretion in Bicuspid Aortic Valve Disease Front Physiol, 8, pp. 648. doi:10.3389/fphys.2017.00648 (5 September 2017)
Talbott H, Hou X, Qiu F, Zhang P, Guda C, Yu F, Cushman RA, Wood JR, Wang C, Cupp AS, Davis JS. Transcriptomic and bioinformatics analysis of the early time-course of the response to prostaglandin F2 alpha in the bovine corpus luteum Data Brief, 14, pp. 695-706. doi:10.1016/j.dib.2017.08.026 (1 September 2017)
Riddell N, Crewther SG. Novel evidence for complement system activation in chick myopia and hyperopia models: a meta-analysis of transcriptome datasets. Sci Rep, 7(1), pp. 9719. doi:10.1038/s41598-017-10277-2 (29 August 2017)
Zararsız G, Goksuluk D, Korkmaz S, Eldem V, Zararsiz GE, Duru IP, Ozturk A. A comprehensive simulation study on classification of RNA-Seq data. PLoS One, 12(8), pp. e0182507. doi:10.1371/journal.pone.0182507 (23 August 2017)
Abdullah A, Eyster KM, Bjordahl T, Xiao P, Zeng E, Wang X. Murine Myocardial Transcriptome Analysis Reveals a Critical Role of COPS8 in the Gene Expression of Cullin-RING Ligase Substrate Receptors and Redox and Vesicle Trafficking Pathways. Front Physiol, 8, pp. 594. doi:10.3389/fphys.2017.00594 (17 August 2017)
Zheng T, Wang A, Hu D, Wang Y. Molecular mechanisms of breast cancer metastasis by gene expression profile analysis. Mol Med Rep, 16(4), pp. 4671-4677. doi:10.3892/mmr.2017.7157 (3 August 2017)

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