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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 2018-06-24T14:00:09-04:00.

Puca L, Bareja R, Prandi D, Shaw R, Benelli M, Karthaus WR, Hess J, Sigouros M, Donoghue A, Kossai M, Gao D, Cyrta J, Sailer V, Vosoughi A, Pauli C, Churakova Y, Cheung C, Deonarine LD, McNary TJ, Rosati R, Tagawa ST, Nanus DM, Mosquera JM, Sawyers CL, Chen Y, Inghirami G, Rao RA, Grandori C, Elemento O, Sboner A, Demichelis F, Rubin MA, Beltran H. Patient derived organoids to model rare prostate cancer phenotypes Nat Commun, 9, pp. 2404. doi:10.1038/s41467-018-04495-z (19 June 2018)
Jacob L, Combes F, Burger T. PEPA test: fast and powerful differential analysis from relative quantitative proteomics data using shared peptides. Biostatistics. doi:10.1093/biostatistics/kxy021 (18 June 2018)
Zafar F, Valappil RA, Kim S, Johansen KK, Chang AL, Tetrud JW, Eis PS, Hatchwell E, Langston JW, Dickson DW, Schüle B. Genetic fine-mapping of the Iowan SNCA gene triplication in a patient with Parkinson’s disease NPJ Parkinsons Dis, 4, pp. 18. doi:10.1038/s41531-018-0054-4 (15 June 2018)
Esteves GH, Reis LFL. A statistical method for measuring activation of gene regulatory networks. Stat Appl Genet Mol Biol, 17(3). doi:10.1515/sagmb-2016-0059 (13 June 2018)
Endo C, Johnson TA, Morino R, Nakazono K, Kamitsuji S, Akita M, Kawajiri M, Yamasaki T, Kami A, Hoshi Y, Tada A, Ishikawa K, Hine M, Kobayashi M, Kurume N, Tsunemi Y, Kamatani N, Kawashima M. Genome-wide association study in Japanese females identifies fifteen novel skin-related trait associations Sci Rep, 8, pp. 8974. doi:10.1038/s41598-018-27145-2 (12 June 2018)
Mavroudis PD, DuBois DC, Almon RR, Jusko WJ. Modeling circadian variability of core-clock and clock-controlled genes in four tissues of the rat PLoS One, 13(6), pp. e0197534. doi:10.1371/journal.pone.0197534 (12 June 2018)
Pan J, Xiong D, Zhang Q, Szabo E, Miller MS, Lubet RA, Wang Y, You M. Airway brushing as a new experimental methodology to detect airway gene expression signatures in mouse lung squamous cell carcinoma Sci Rep, 8, pp. 8895. doi:10.1038/s41598-018-26902-7 (11 June 2018)
Gentilini D, Somigliana E, Pagliardini L, Rabellotti E, Garagnani P, Bernardinelli L, Papaleo E, Candiani M, Di Blasio AM, Viganò P. Multifactorial analysis of the stochastic epigenetic variability in cord blood confirmed an impact of common behavioral and environmental factors but not of in vitro conception Clin Epigenetics, 10, pp. 77. doi:10.1186/s13148-018-0510-3 (8 June 2018)
Gong W, Kwak IY, Pota P, Koyano-Nakagawa N, Garry DJ. DrImpute: imputing dropout events in single cell RNA sequencing data BMC Bioinformatics, 19, pp. 220. doi:10.1186/s12859-018-2226-y (8 June 2018)
Taudt A, Roquis D, Vidalis A, Wardenaar R, Johannes F, Colome-Tatché-Tatché M. METHimpute: imputation-guided construction of complete methylomes from WGBS data. BMC Genomics, 19(1), pp. 444. doi:10.1186/s12864-018-4641-x (7 June 2018)
Wu Z, Derks MF, Dibbits B, Megens HJ, Groenen MA, Crooijmans RP. A Novel Loss-of-Function Variant in Transmembrane Protein 263 (TMEM263) of Autosomal Dwarfism in Chicken Front Genet, 9, pp. 193. doi:10.3389/fgene.2018.00193 (7 June 2018)
Marczell I, Balogh P, Nyiro G, Kiss AL, Kovacs B, Bekesi G, Racz K, Patocs A. Membrane-bound estrogen receptor alpha initiated signaling is dynamin dependent in breast cancer cells Eur J Med Res, 23, pp. 31. doi:10.1186/s40001-018-0328-7 (7 June 2018)
Strange DP, Green R, Siemann DN, Gale M Jr, Verma S. Immunoprofiles of human Sertoli cells infected with Zika virus reveals unique insights into host-pathogen crosstalk Sci Rep, 8, pp. 8702. doi:10.1038/s41598-018-27027-7 (7 June 2018)
de la Rosa Rodriguez MA, Sugahara G, Hooiveld GJ, Ishida Y, Tateno C, Kersten S. The whole transcriptome effects of the PPARα agonist fenofibrate on livers of hepatocyte humanized mice BMC Genomics, 19, pp. 443. doi:10.1186/s12864-018-4834-3 (7 June 2018)
Cava C, Bertoli G, Castiglioni I. In silico identification of drug target pathways in breast cancer subtypes using pathway cross-talk inhibition J Transl Med, 16, pp. 154. doi:10.1186/s12967-018-1535-2 (5 June 2018)
Peraldo-Neia C, Ostano P, Cavalloni G, Pignochino Y, Sangiolo D, De Cecco L, Marchesi E, Ribero D, Scarpa A, De Rose AM, Giuliani A, Calise F, Raggi C, Invernizzi P, Aglietta M, Chiorino G, Leone F. Transcriptomic analysis and mutational status of IDH1 in paired primary-recurrent intrahepatic cholangiocarcinoma BMC Genomics, 19, pp. 440. doi:10.1186/s12864-018-4829-0 (5 June 2018)
Van P, Jiang W, Gottardo R, Finak G. ggCyto: Next Generation Open-Source Visualization Software for Cytometry. Bioinformatics. doi:10.1093/bioinformatics/bty441 (1 June 2018)
Surles-Zeigler MC, Li Y, Distel TJ, Omotayo H, Ge S, Ford BD. Transcriptomic analysis of neuregulin-1 regulated genes following ischemic stroke by computational identification of promoter binding sites: A role for the ETS-1 transcription factor. PLoS One, 13(6), pp. e0197092. doi:10.1371/journal.pone.0197092 (1 June 2018)
Zhao S, Li CI, Guo Y, Sheng Q, Shyr Y. RnaSeqSampleSize: real data based sample size estimation for RNA sequencing. BMC Bioinformatics, 19(1), pp. 191. doi:10.1186/s12859-018-2191-5 (30 May 2018)
Gregorová J, Vrábel D, Radová L, Gablo NA, Almaši M, Štork M, Slabý O, Pour L, Minařík J, Ševčíková S. [MicroRNA Analysis for Extramedullary Multiple Myeloma Relapse]. Klin Onkol, 31(Supplementum1), pp. 148-150. doi: (29 May 2018)

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