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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 2019-08-24T11:20:06-04:00.

Zhou XR, Song N, Luo JY, Zhai H, Li XM, Zhao Q, Liu F, Li XM, Yang YN. Expression profiles and potential functions of long non-coding RNA in stable angina pectoris patients from Uyghur population of China. Biosci Rep. doi:10.1042/BSR20190364 (14 August 2019)
da Silva V, Ramos M, Groenen M, Crooijmans R, Johansson A, Regitano L, Coutinho L, Zimmer R, Waldron L, Geistlinger L. CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes. Bioinformatics. doi:10.1093/bioinformatics/btz632 (8 August 2019)
Brionne A, Juanchich A, Hennequet-Antier C. ViSEAGO: a Bioconductor package for clustering biological functions using Gene Ontology and semantic similarity. BioData Min, 12, pp. 16. doi:10.1186/s13040-019-0204-1 (6 August 2019)
Sun J, Xu H, Qi M, Zhang C, Shi J. Identification of key genes in osteosarcoma by meta‑analysis of gene expression microarray. Mol Med Rep. doi:10.3892/mmr.2019.10543 (31 July 2019)
Huo Z, Tang S, Park Y, Tseng G. P-value evaluation, variability index and biomarker categorization for adaptively weighted Fisher's meta-analysis method in omics applications. Bioinformatics. doi:10.1093/bioinformatics/btz589 (29 July 2019)
Reynès C, Kister G, Rohmer M, Bouschet T, Varrault A, Dubois E, Rialle S, Journot L, Sabatier R. ISoLDE: a data-driven statistical method for the inference of allelic imbalance in datasets with reciprocal crosses. Bioinformatics. doi:10.1093/bioinformatics/btz564 (26 July 2019)
Puente-Santamaria L, Wasserman WW, Del Peso L. TFEA.ChIP: A tool kit for transcription factor binding site enrichment analysis capitalizing on ChIP-seq datasets. Bioinformatics. doi:10.1093/bioinformatics/btz573 (26 July 2019)
Shafi A, Nguyen T, Peyvandipour A, Draghici S. GSMA: an approach to identify robust global and test Gene Signatures using Meta-Analysis. Bioinformatics. doi:10.1093/bioinformatics/btz561 (22 July 2019)
Gogarten SM, Sofer T, Chen H, Yu C, Brody JA, Thornton TA, Rice KM, Conomos MP. Genetic association testing using the GENESIS R/Bioconductor package. Bioinformatics. doi:10.1093/bioinformatics/btz567 (22 July 2019)
Zimmermann MT, Kabat B, Grill DE, Kennedy RB, Poland GA. RITAN: rapid integration of term annotation and network resources. PeerJ, 7, pp. e6994. doi:10.7717/peerj.6994 (19 July 2019)
Faux T, Rytkönen KT, Laiho A, Elo LL. RepViz: a replicate-driven R tool for visualizing genomic regions. BMC Res Notes, 12(1), pp. 441. doi:10.1186/s13104-019-4473-z (19 July 2019)
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)
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)
Thodberg M, Sandelin A. A step-by-step guide to analyzing CAGE data using R/Bioconductor. F1000Res, 8, pp. 886. doi:10.12688/f1000research.18456.1 (18 June 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)

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