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Ramos, M, et al. (2017) Software for the Integration of Multiomics Experiments in Bioconductor Cancer Research 77:e39-e42. doi:10.1158/0008-5472.CAN-17-0344
Pasolli, E, et al. (2017) Accessible, curated metagenomic data through ExperimentHub Nature Methods 14, 1023–1024. doi:10.1038/nmeth.4468
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).
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
Irizarry R, et al. (2015) Biomedical Data Science. Course Notes, EdX PH525.1x.


20 most recent PubMed and PubMed Central citations mentioning "Bioconductor". For a complete list, go to PubMed and PubMed Central. Last updated 2018-03-23T14:00:10-04:00.

Young E, Carey M, Meharg AA, Meharg C. Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing Microbiome, 6, pp. 48. doi:10.1186/s40168-018-0434-3 (20 March 2018)
Galanos P, Pappas G, Polyzos A, Kotsinas A, Svolaki I, Giakoumakis NN, Glytsou C, Pateras IS, Swain U, Souliotis VL, Georgakilas AG, Geacintov N, Scorrano L, Lukas C, Lukas J, Livneh Z, Lygerou Z, Chowdhury D, Sørensen CS, Bartek J, Gorgoulis VG. Mutational signatures reveal the role of RAD52 in p53-independent p21-driven genomic instability Genome Biol, 19, pp. 37. doi:10.1186/s13059-018-1401-9 (16 March 2018)
Mourad R, Ginalski K, Legube G, Cuvier O. Predicting double-strand DNA breaks using epigenome marks or DNA at kilobase resolution Genome Biol, 19, pp. 34. doi:10.1186/s13059-018-1411-7 (15 March 2018)
Shahid M, Gull N, Yeon A, Cho E, Bae J, Yoon HS, You S, Yoon H, Kim M, Berman BP, Kim J. Alpha-oxoglutarate inhibits the proliferation of immortalized normal bladder epithelial cells via an epigenetic switch involving ARID1A Sci Rep, 8, pp. 4505. doi:10.1038/s41598-018-22771-2 (14 March 2018)
Kluge M, Friedel CC. Watchdog – a workflow management system for the distributed analysis of large-scale experimental data BMC Bioinformatics, 19, pp. 97. doi:10.1186/s12859-018-2107-4 (13 March 2018)
Singh R, Jones T, Wai CM, Jifon J, Nagai C, Ming R, Yu Q. Transcriptomic analysis of transgressive segregants revealed the central role of photosynthetic capacity and efficiency in biomass accumulation in sugarcane Sci Rep, 8, pp. 4415. doi:10.1038/s41598-018-22798-5 (13 March 2018)
Dabrowski MJ, Draminski M, Diamanti K, Stepniak K, Mozolewska MA, Teisseyre P, Koronacki J, Komorowski J, Kaminska B, Wojtas B. Unveiling new interdependencies between significant DNA methylation sites, gene expression profiles and glioma patients survival Sci Rep, 8, pp. 4390. doi:10.1038/s41598-018-22829-1 (13 March 2018)
Peyvandipour A, Saberian N, Shafi A, Donato M, Draghici S. A novel computational approach for drug repurposing using systems biology. Bioinformatics. doi:10.1093/bioinformatics/bty133 (9 March 2018)
Flores Saiffe Farías A, Mendizabal AP, Morales JA. An Ontology Systems Approach on Human Brain Expression and Metaproteomics Front Microbiol, 9, pp. 406. doi:10.3389/fmicb.2018.00406 (8 March 2018)
Mastriani E, Zhai R, Zhu S. Microarray-Based MicroRNA Expression Data Analysis with Bioconductor. Methods Mol Biol, 1751, pp. 127-138. doi:10.1007/978-1-4939-7710-9_9 (7 March 2018)
Sun MA, Shao X, Wang Y. Microarray Data Analysis for Transcriptome Profiling. Methods Mol Biol, 1751, pp. 17-33. doi:10.1007/978-1-4939-7710-9_2 (7 March 2018)
Wei Z, Zhang W, Fang H, Li Y, Wang X. esATAC: An Easy-to-use Systematic pipeline for ATAC-seq data analysis. Bioinformatics. doi:10.1093/bioinformatics/bty141 (7 March 2018)
Kapourani CA, Sanguinetti G. BPRMeth: a flexible Bioconductor package for modelling methylation profiles. Bioinformatics. doi:10.1093/bioinformatics/bty129 (7 March 2018)
Grogan LF, Mulvenna J, Gummer JP, Scheele BC, Berger L, Cashins SD, McFadden MS, Harlow P, Hunter DA, Trengove RD, Skerratt LF. Survival, gene and metabolite responses of Litoria verreauxii alpina frogs to fungal disease chytridiomycosis Sci Data, 5, pp. 180033. doi:10.1038/sdata.2018.33 (6 March 2018)
Fox SA, Currie SS, Dalley AJ, Farah CS. Transcriptome changes induced in vitro by alcohol-containing mouthwashes in normal and dysplastic oral keratinocytes. J Oral Pathol Med. doi:10.1111/jop.12704 (5 March 2018)
Pizzollo J, Nielsen WJ, Shibata Y, Safi A, Crawford GE, Wray GA, Babbitt CC. Comparative Serum Challenges Show Divergent Patterns of Gene Expression and Open Chromatin in Human and Chimpanzee Genome Biol Evol, 10(3), pp. 826-839. doi:10.1093/gbe/evy041 (5 March 2018)
Li R, Qu H, Wang S, Wei J, Zhang L, Ma R, Lu J, Zhu J, Zhong WD, Jia Z. GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, miRNA, and mRNA data in GDC. Bioinformatics. doi:10.1093/bioinformatics/bty124 (2 March 2018)
Lawson JT, Tomazou EM, Bock C, Sheffield NC. MIRA: An R package for DNA methylation-based inference of regulatory activity. Bioinformatics. doi:10.1093/bioinformatics/bty083 (1 March 2018)
Ou J, Liu H, Yu J, Kelliher MA, Castilla LH, Lawson ND, Zhu LJ. ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data. BMC Genomics, 19(1), pp. 169. doi:10.1186/s12864-018-4559-3 (1 March 2018)
Wagner J, Chelaru F, Kancherla J, Paulson JN, Zhang A, Felix V, Mahurkar A, Elmqvist N, Corrada Bravo H. Metaviz: interactive statistical and visual analysis of metagenomic data. Nucleic Acids Res. doi:10.1093/nar/gky136 (26 February 2018)


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