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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 2019-02-16T06:20:06-05:00.

Kim B, Lee E, Kim JK. Analysis of Technical and Biological Variability in Single-Cell RNA Sequencing. Methods Mol Biol, 1935, pp. 25-43. doi:10.1007/978-1-4939-9057-3_3 (14 February 2019)
Bacher R. Normalization for Single-Cell RNA-Seq Data Analysis. Methods Mol Biol, 1935, pp. 11-23. doi:10.1007/978-1-4939-9057-3_2 (14 February 2019)
Ashtiani M, Nickchi P, Jahangiri-Tazehkand S, Safari A, Mirzaie M, Jafari M. IMMAN: an R/Bioconductor package for Interolog protein network reconstruction, mapping and mining analysis. BMC Bioinformatics, 20(1), pp. 73. doi:10.1186/s12859-019-2659-y (12 February 2019)
Martorell-Marugán J, González-Rumayor V, Carmona-Sáez P. mCSEA: Detecting subtle differentially methylated regions. Bioinformatics. doi:10.1093/bioinformatics/btz096 (12 February 2019)
Cortés-Pereira E, Fernández-Tajes J, Fernández-Moreno M, Vázquez-Mosquera ME, Relaño S, Ramos-Louro P, Durán-Sotuela A, Dalmao-Fernández A, Oreiro N, Blanco FJ, Rego-Pérez I. Mitochondrial DNA (mtDNA) haplogroups J and H are differentially associated with the methylation status of articular cartilage: potential role in apoptosis and metabolic and developmental processes. Arthritis Rheumatol. doi:10.1002/art.40857 (12 February 2019)
Bentham RB, Bryson K, Szabadkai G. Biclustering Analysis of Co-regulation Patterns in Nuclear-Encoded Mitochondrial Genes and Metabolic Pathways. Methods Mol Biol, 1928, pp. 469-478. doi:10.1007/978-1-4939-9027-6_24 (7 February 2019)
Jeitziner R, Carrière M, Rougemont J, Oudot S, Hess K, Brisken C. Two-Tier Mapper, an unbiased topology-based clustering method for enhanced global gene expression analysis. Bioinformatics. doi:10.1093/bioinformatics/btz052 (7 February 2019)
Dong D, Tian Y, Zheng SC, Teschendorff AE. ebGSEA: An improved Gene Set Enrichment Analysis method for Epigenome-Wide-Association Studies. Bioinformatics. doi:10.1093/bioinformatics/btz073 (31 January 2019)
Okonechnikov K, Erkek S, Korbel JO, Pfister SM, Chavez L. InTAD: chromosome conformation guided analysis of enhancer target genes. BMC Bioinformatics, 20(1), pp. 60. doi:10.1186/s12859-019-2655-2 (31 January 2019)
Vardaxis I, Drabløs F, Rye MB, Lindqvist BH. MACPET: model-based analysis for ChIA-PET. Biostatistics. doi:10.1093/biostatistics/kxy084 (30 January 2019)
Marwah VS, Scala G, Kinaret PAS, Serra A, Alenius H, Fortino V, Greco D. eUTOPIA: solUTion for Omics data PreprocessIng and Analysis. Source Code Biol Med, 14, pp. 1. doi:10.1186/s13029-019-0071-7 (29 January 2019)
Rainer J, Gatto L, Weichenberger CX. ensembldb: an R package to create and use Ensembl-based annotation resources. Bioinformatics. doi:10.1093/bioinformatics/btz031 (25 January 2019)
Waldron L, Schiffer L, Azhar R, Ramos M, Geistlinger L, Segata N. Improving Accessibility of the Human Microbiome Project Data Through Integration With R/Bioconductor. Am J Epidemiol. doi:10.1093/aje/kwz008 (23 January 2019)
Otto R, Rössler JN, Sers C, Mamlouk S, Leser U. Robust in-silico identification of Cancer Cell Lines based on RNA and targeted DNA sequencing data. Sci Rep, 9(1), pp. 367. doi:10.1038/s41598-018-36300-8 (23 January 2019)
Kyritsis KA, Wang B, Sullivan J, Lyne R, Micklem G. InterMineR: an R package for InterMine databases. Bioinformatics. doi:10.1093/bioinformatics/btz039 (22 January 2019)
Stansfield JC, Cresswell KG, Dozmorov MG. multiHiCcompare: joint normalization and comparative analysis of complex Hi-C experiments. Bioinformatics. doi:10.1093/bioinformatics/btz048 (22 January 2019)
Ma G, Zhang C, Luo W, Zhao JL, Wang X, Qian Y. Construction of microRNA-messenger networks for human osteosarcoma. J Cell Physiol. doi:10.1002/jcp.28107 (21 January 2019)
Golumbeanu M, Desfarges S, Hernandez C, Quadroni M, Rato S, Mohammadi P, Telenti A, Beerenwinkel N, Ciuffi A. Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection. Sci Rep, 9(1), pp. 213. doi:10.1038/s41598-018-36135-3 (18 January 2019)
Lv J, Guo L, Wang JH, Yan YZ, Zhang J, Wang YY, Yu Y, Huang YF, Zhao HP. Biomarker identification and trans-regulatory network analyses in esophageal adenocarcinoma and Barrett's esophagus. World J Gastroenterol, 25(2), pp. 233-244. doi:10.3748/wjg.v25.i2.233 (14 January 2019)
Fuentes N, Silveyra P. Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice. J Vis Exp(143). doi:10.3791/58664 (7 January 2019)

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