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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.

Recent

20 most recent PubMed and PubMed Central citations mentioning "Bioconductor". For a complete list, go to PubMed and PubMed Central. Last updated 2019-07-18T00:40:06-04:00.

Bonnal RJP, Yates A, Goto N, Gautier L, Willis S, Fields C, Katayama T, Prins P. Sharing Programming Resources Between Bio* Projects. Methods Mol Biol, 1910, pp. 747-766. doi:10.1007/978-1-4939-9074-0_25 (7 July 2019)
Ruiz-Arenas C, Cáceres A, López-Sánchez M, Tolosana I, Pérez-Jurado L, González JR. scoreInvHap: Inversion genotyping for genome-wide association studies. PLoS Genet, 15(7), pp. e1008203. doi:10.1371/journal.pgen.1008203 (3 July 2019)
Sivaprakasam B, Sadagopan P. Development of an Interactive Web Application "Shiny App for Frequency Analysis on Homo sapiens Genome (SAFA-HsG)". Interdiscip Sci. doi:10.1007/s12539-019-00340-z (1 July 2019)
Roser LG, Agüero F, Sánchez DO. FastqCleaner: an interactive Bioconductor application for quality-control, filtering and trimming of FASTQ files. BMC Bioinformatics, 20(1), pp. 361. doi:10.1186/s12859-019-2961-8 (28 June 2019)
Chagas VS, Groeneveld CS, Oliveira KG, Trefflich S, de Almeida RC, Ponder BAJ, Meyer KB, Jones SJM, Robertson AG, Castro MAA. RTNduals: An R/Bioconductor package for analysis of co-regulation and inference of dual regulons. Bioinformatics. doi:10.1093/bioinformatics/btz534 (28 June 2019)
Hernandez-Ferrer C, Wellenius GA, Tamayo I, Basagaña X, Sunyer J, Vrijheid M, Gonzalez JR. Comprehensive study of the exposome and omic data using rexposome Bioconductor packages. Bioinformatics. doi:10.1093/bioinformatics/btz526 (27 June 2019)
Meng C, Basunia A, Peters B, Moghaddas Gholami A, Kuster B, Culhane AC. MOGSA: integrative single sample gene-set analysis of multiple omics data. Mol Cell Proteomics. doi:10.1074/mcp.TIR118.001251 (26 June 2019)
Jardim VC, Santos SS, Fujita A, Buckeridge MS. BioNetStat: A Tool for Biological Networks Differential Analysis. Front Genet, 10, pp. 594. doi:10.3389/fgene.2019.00594 (21 June 2019)
Wang X, Gao J, Zhou B, Xie J, Zhou G, Chen Y. Identification of prognostic markers for hepatocellular carcinoma based on miRNA expression profiles. Life Sci, pp. 116596. doi:10.1016/j.lfs.2019.116596 (21 June 2019)
Vertii A, Ou J, Yu J, Yan A, Pagès H, Liu H, Zhu LJ, Kaufman PD. Two contrasting classes of nucleolus-associated domains in mouse fibroblast heterochromatin. Genome Res. doi:10.1101/gr.247072.118 (14 June 2019)
Mauguen A, Seshan VE, Begg CB, Ostrovnaya I. Testing Clonal Relatedness of Two Tumors from the Same Patient based on their Mutational Profiles: update of the Clonality R Package. Bioinformatics. doi:10.1093/bioinformatics/btz486 (14 June 2019)
Agius P, Geiger H, Robine N. SCANVIS: a tool for SCoring, ANnotating and VISualizing splice junctions. Bioinformatics. doi:10.1093/bioinformatics/btz452 (14 June 2019)
Marini F, Binder H. pcaExplorer: an R/Bioconductor package for interacting with RNA-seq principal components. BMC Bioinformatics, 20(1), pp. 331. doi:10.1186/s12859-019-2879-1 (13 June 2019)
Thomas AM, Cabrera CP, Finlay M, Lall K, Nobles M, Schilling RJ, Wood K, Mein CA, Barnes MR, Munroe PB, Tinker A. Differentially Expressed Genes for Atrial Fibrillation Identified using RNA Sequencing from Paired Human Left and Right Atrial Appendages. Physiol Genomics. doi:10.1152/physiolgenomics.00012.2019 (7 June 2019)
Crookenden MA, Moyes KM, Kuhn-Sherlock B, Lehnert K, Walker CG, Loor JJ, Mitchell MD, Murray A, Dukkipati VSR, Vailati-Riboni M, Heiser A, Roche JR. Transcriptomic analysis of circulating neutrophils in metabolically stressed peripartal grazing dairy cows. J Dairy Sci, 102(8), pp. 7408-7420. doi:10.3168/jds.2019-16367 (6 June 2019)
Su S, Carey VJ, Shepherd L, Ritchie M, Morgan MT, Davis S. BiocPkgTools: Toolkit for mining the Bioconductor package ecosystem. F1000Res, 8, pp. 752. doi:10.12688/f1000research.19410.1 (29 May 2019)
El Amrani K, Alanis-Lobato G, Mah N, Kurtz A, Andrade-Navarro MA. Detection of condition-specific marker genes from RNA-seq data with MGFR. PeerJ, 7, pp. e6970. doi:10.7717/peerj.6970 (27 May 2019)
Delmonico L, Attiya S, Chen JW, Obenauer JC, Goodwin EC, Fournier MV. Expression Concordance of 325 Novel RNA Biomarkers between Data Generated by NanoString nCounter and Affymetrix GeneChip. Dis Markers, 2019, pp. 1940347. doi:10.1155/2019/1940347 (14 May 2019)
Stubbs BJ, Gopaulakrishnan S, Glass K, Pochet N, Everaert C, Raby B, Carey V. TFutils: Data structures for transcription factor bioinformatics. F1000Res, 8, pp. 152. doi:10.12688/f1000research.17976.2 (5 February 2019)
Li Z, Zuo Y, Xu C, Varghese RS, Ressom HW. INDEED: R package for network based differential expression analysis. Proceedings (IEEE Int Conf Bioinformatics Biomed), 2018, pp. 2709-2712. doi:10.1109/BIBM.2018.8621426 (24 January 2019)

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