Publications

Bioconductor F1000 Research Channel launched!

Featured

Amezquita, R.A., Lun, A.T.L., Becht, E. et al. Orchestrating single-cell analysis with Bioconductor. Nature Methods (2019) doi:10.1038/s41592-019-0654-x
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 2021-01-18T06:40:08-05:00.

Griss J, Viteri G, Sidiropoulos K, Nguyen V, Fabregat A, Hermjakob H. ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis. Mol Cell Proteomics, 19(12), pp. 2115-2125. doi:10.1074/mcp.TIR120.002155 (17 January 2021)
Choudhari JK, Verma MK, Choubey J, Sahariah BP. Investigation of MicroRNA and transcription factor mediated regulatory network for silicosis using systems biology approach. Sci Rep, 11(1), pp. 1265. doi:10.1038/s41598-020-77636-4 (14 January 2021)
Ruiz-Deya G, Matta J, Encarnación-Medina J, Ortiz-Sanchéz C, Dutil J, Putney R, Berglund A, Dhillon J, Kim Y, Park JY. Differential DNA Methylation in Prostate Tumors from Puerto Rican Men. Int J Mol Sci, 22(2). doi:10.3390/ijms22020733 (13 January 2021)
Chen X, Ashoor H, Musich R, Wang J, Zhang M, Zhang C, Lu M, Li S. epihet for intra-tumoral epigenetic heterogeneity analysis and visualization. Sci Rep, 11(1), pp. 376. doi:10.1038/s41598-020-79627-x (11 January 2021)
Morante-Palacios O, Ballestar E. shinyÉPICo: A graphical pipeline to analyze Illumina DNA methylation arrays. Bioinformatics. doi:10.1093/bioinformatics/btaa1095 (8 January 2021)
Bhattacharya S, Barseghyan H, Délot EC, Vilain E. nanotatoR: a tool for enhanced annotation of genomic structural variants. BMC Genomics, 22(1), pp. 10. doi:10.1186/s12864-020-07182-w (6 January 2021)
Moulos P. recoup: flexible and versatile signal visualization from next generation sequencing. BMC Bioinformatics, 22(1), pp. 2. doi:10.1186/s12859-020-03902-x (6 January 2021)
Haselimashhadi H, Mason JC, Mallon AM, Smedley D, Meehan TF, Parkinson H. OpenStats: A robust and scalable software package for reproducible analysis of high-throughput phenotypic data. PLoS One, 15(12), pp. e0242933. doi:10.1371/journal.pone.0242933 (30 December 2020)
Appunni S, Rubens M, Ramamoorthy V, Sharma H, Singh AK, Swarup V, Singh HN. Differentially Expressed Genes and Their Clinical Significance in Ischaemic Stroke: An In-Silico Study. Malays J Med Sci, 27(6), pp. 53-67. doi:10.21315/mjms2020.27.6.6 (29 December 2020)
Eling N, Damond N, Hoch T, Bodenmiller B. Cytomapper: an R/bioconductor package for visualisation of highly multiplexed imaging data. Bioinformatics. doi:10.1093/bioinformatics/btaa1061 (26 December 2020)
Meng-Long Z, Xiao-Yan H, Ya-Lu C, Xin N, Qing-Ting R, Zhen-Yi L, Li-Qun LI. [Mechanism and experimental verification of Sijunzi Decoction in treatment of ulcerative colitis based on network pharmacology]. Zhongguo Zhong Yao Za Zhi, 45(22), pp. 5362-5372. doi:10.19540/j.cnki.cjcmm.20200810.405 (23 December 2020)
Mayakonda A, Schönung M, Hey J, Batra RN, Feuerstein-Akgoz C, Köhler K, Lipka DB, Sotillo R, Plass C, Lutsik P, Toth R. Methrix: an R/bioconductor package for systematic aggregation and analysis of bisulfite sequencing data. Bioinformatics. doi:10.1093/bioinformatics/btaa1048 (21 December 2020)
Lloyd GR, Jankevics A, Weber RJM. Struct: an R/bioconductor-based framework for standardised metabolomics data analysis and beyond. Bioinformatics. doi:10.1093/bioinformatics/btaa1031 (16 December 2020)
Zhang Y, Wang Z, Zhang Y, Tong H, Zhang Y, Lu T. Potential Mechanisms for Traditional Chinese Medicine in Treating Airway Mucus Hypersecretion Associated With Coronavirus Disease 2019. Front Mol Biosci, 7, pp. 577285. doi:10.3389/fmolb.2020.577285 (14 December 2020)
Xie JQ, Lu YP, Sun HL, Gao LN, Song PP, Feng ZJ, You CG. Sex Difference of Ribosome in Stroke-Induced Peripheral Immunosuppression by Integrated Bioinformatics Analysis. Biomed Res Int, 2020, pp. 3650935. doi:10.1155/2020/3650935 (3 December 2020)
Alshameri A, Al-Qurainy F, Gaafar AR, Khan S, Nadeem M, Alansi S, Shaikhaldein HO, Salih AM. Identification of Differentially Expressed Drought-Responsive Genes in Guar [Cyamopsis tetragonoloba (L.) Taub]. Int J Genomics, 2020, pp. 4147615. doi:10.1155/2020/4147615 (3 December 2020)
Escuin D, López-Vilaró L, Bell O, Mora J, Moral A, Pérez JI, Arqueros C, Ramón Y Cajal T, Lerma E, Barnadas A. MicroRNA-1291 Is Associated With Locoregional Metastases in Patients With Early-Stage Breast Cancer. Front Genet, 11, pp. 562114. doi:10.3389/fgene.2020.562114 (2 December 2020)
Huang T, Choi M, Tzouros M, Golling S, Pandya NJ, Banfai B, Dunkley T, Vitek O. MSstatsTMT: Statistical Detection of Differentially Abundant Proteins in Experiments with Isobaric Labeling and Multiple Mixtures. Mol Cell Proteomics, 19(10), pp. 1706-1723. doi:10.1074/mcp.RA120.002105 (25 November 2020)
Zhu Y, Orre LM, Zhou Tran Y, Mermelekas G, Johansson HJ, Malyutina A, Anders S, Lehtiö J. DEqMS: A Method for Accurate Variance Estimation in Differential Protein Expression Analysis. Mol Cell Proteomics, 19(6), pp. 1047-1057. doi:10.1074/mcp.TIR119.001646 (23 November 2020)
Choudhary S, Anand R, Pradhan D, Bastia B, Kumar SN, Singh H, Puri P, Thomas G, Jain AK. Transcriptomic landscaping of core genes and pathways of mild and severe psoriasis vulgaris. Int J Mol Med. doi:10.3892/ijmm.2020.4771 (27 October 2020)

Books

Monograph     R Programming for Bioinformatics     Bioconductor Case Studies

Book Chapters

Technical Reports and Working Papers

Compendia

Literature Search »

 

Courses & Conferences »

Bioconductor courses and conferences explore R programming and the analysis of genomic data. View catalog of a recent course material.

Packages »

Bioconductor's stable, semi-annual release:

Bioconductor is also available via Docker and Amazon Machine Images.