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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 2018-02-18T10:40:07-05:00.

Metwally AA, Yang J, Ascoli C, Dai Y, Finn PW, Perkins DL. MetaLonDA: a flexible R package for identifying time intervals of differentially abundant features in metagenomic longitudinal studies Microbiome, 6, pp. 32. doi:10.1186/s40168-018-0402-y (13 February 2018)
Mohan V, Radha V, Nguyen TT, Stawiski EW, Pahuja KB, Goldstein LD, Tom J, Anjana RM, Kong-Beltran M, Bhangale T, Jahnavi S, Chandni R, Gayathri V, George P, Zhang N, Murugan S, Phalke S, Chaudhuri S, Gupta R, Zhang J, Santhosh S, Stinson J, Modrusan Z, Ramprasad VL, Seshagiri S, Peterson AS. Comprehensive genomic analysis identifies pathogenic variants in maturity-onset diabetes of the young (MODY) patients in South India BMC Med Genet, 19, pp. 22. doi:10.1186/s12881-018-0528-6 (13 February 2018)
Ferreira PG, Muñoz-Aguirre M, Reverter F, Sá Godinho CP, Sousa A, Amadoz A, Sodaei R, Hidalgo MR, Pervouchine D, Carbonell-Caballero J, Nurtdinov R, Breschi A, Amador R, Oliveira P, Çubuk C, Curado J, Aguet F, Oliveira C, Dopazo J, Sammeth M, Ardlie KG, Guigó R. The effects of death and post-mortem cold ischemia on human tissue transcriptomes Nat Commun, 9, pp. 490. doi:10.1038/s41467-017-02772-x (13 February 2018)
Shabalin AA, Hattab MW, Clark SL, Chan RF, Kumar G, Aberg KA, van den Oord EJCG, Birol I. RaMWAS: Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms. Bioinformatics. doi:10.1093/bioinformatics/bty069 (12 February 2018)
Egea I, Albaladejo I, Meco V, Morales B, Sevilla A, Bolarin MC, Flores FB. The drought-tolerant Solanum pennellii regulates leaf water loss and induces genes involved in amino acid and ethylene/jasmonate metabolism under dehydration Sci Rep, 8, pp. 2791. doi:10.1038/s41598-018-21187-2 (12 February 2018)
Sana J, Busek P, Fadrus P, Besse A, Radova L, Vecera M, Reguli S, Stollinova Sromova L, Hilser M, Lipina R, Lakomy R, Kren L, Smrcka M, Sedo A, Slaby O. Identification of microRNAs differentially expressed in glioblastoma stem-like cells and their association with patient survival Sci Rep, 8, pp. 2836. doi:10.1038/s41598-018-20929-6 (12 February 2018)
Eilebrecht S, Hotz-Wagenblatt A, Sarachaga V, Burk A, Falida K, Chakraborty D, Nikitina E, Tessmer C, Whitley C, Sauerland C, Gunst K, Grewe I, Bund T. Expression and replication of virus-like circular DNA in human cells Sci Rep, 8, pp. 2851. doi:10.1038/s41598-018-21317-w (12 February 2018)
Jessa S, Kleinman CL, Hancock J. chromswitch: A flexible method to detect chromatin state switches. Bioinformatics. doi:10.1093/bioinformatics/bty075 (9 February 2018)
Dickinson SE, Griffin BA, Elmore MF, Kriese-Anderson L, Elmore JB, Dyce PW, Rodning SP, Biase FH. Transcriptome profiles in peripheral white blood cells at the time of artificial insemination discriminate beef heifers with different fertility potential BMC Genomics, 19, pp. 129. doi:10.1186/s12864-018-4505-4 (9 February 2018)
Moneghetti KJ, Skhiri M, Contrepois K, Kobayashi Y, Maecker H, Davis M, Snyder M, Haddad F, Montoya JG. Value of Circulating Cytokine Profiling During Submaximal Exercise Testing in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Sci Rep, 8, pp. 2779. doi:10.1038/s41598-018-20941-w (9 February 2018)
Li F, Li Q, Wu X. Construction and analysis for differentially expressed long non-coding RNAs and MicroRNAs mediated competing endogenous RNA network in colon cancer. PLoS One, 13(2), pp. e0192494. doi:10.1371/journal.pone.0192494 (8 February 2018)
Lv J, Liu J, Guo L, Zhang J, Cheng Y, Chen C, Zhao H, Wang J. Bioinformatic analyses of microRNA-targeted genes and microarray-identified genes correlated with Barrett's esophagus. Cell Cycle, pp. 1-27. doi:10.1080/15384101.2018.1431597 (8 February 2018)
Oltedal S, Skaland I, Maple-Grødem J, Tjensvoll K, Janssen EA, Gilje B, Smaaland R, Heikkilä R, Nordgård O. Expression profiling and intracellular localization studies of the novel Proline-, Histidine-, and Glycine-rich protein 1 suggest an essential role in gastro-intestinal epithelium and a potential clinical application in colorectal cancer diagnostics BMC Gastroenterol, 18, pp. 26. doi:10.1186/s12876-018-0752-8 (7 February 2018)
Foley NM, Hughes GM, Huang Z, Clarke M, Jebb D, Whelan CV, Petit EJ, Touzalin F, Farcy O, Jones G, Ransome RD, Kacprzyk J, O’Connell MJ, Kerth G, Rebelo H, Rodrigues L, Puechmaille SJ, Teeling EC. Growing old, yet staying young: The role of telomeres in bats’ exceptional longevity Sci Adv, 4(2), pp. eaao0926. doi:10.1126/sciadv.aao0926 (7 February 2018)
van Iterson M, Cats D, Hop P, Heijmans BT, Stegle O. omicsPrint: DETECTION OF DATA LINKAGE ERRORS IN MULTIPLE OMICS STUDIES. Bioinformatics. doi:10.1093/bioinformatics/bty062 (6 February 2018)
Yu Z, Juhasz A, Islam S, Diepeveen D, Zhang J, Wang P, Ma W. Impact of mid-season sulphur deficiency on wheat nitrogen metabolism and biosynthesis of grain protein Sci Rep, 8, pp. 2499. doi:10.1038/s41598-018-20935-8 (6 February 2018)
Wolf FA, Angerer P, Theis FJ. SCANPY: large-scale single-cell gene expression data analysis Genome Biol, 19, pp. 15. doi:10.1186/s13059-017-1382-0 (6 February 2018)
Zha Y, Eiler A, Johansson F, Svanbäck R. Effects of predation stress and food ration on perch gut microbiota Microbiome, 6, pp. 28. doi:10.1186/s40168-018-0400-0 (6 February 2018)
Ryan ZC, Craig TA, Wang X, Delmotte P, Salisbury JL, Lanza IR, Sieck GC, Kumar R. 1α,25-dihydroxyvitamin D3 mitigates cancer cell mediated mitochondrial dysfunction in human skeletal muscle cells Biochem Biophys Res Commun, 496(2), pp. 746-752. doi:10.1016/j.bbrc.2018.01.092 (5 February 2018)
Das S, Rai A, Mishra DC, Rai SN. Statistical Approach for Gene Set Analysis with Trait Specific Quantitative Trait Loci Sci Rep, 8, pp. 2391. doi:10.1038/s41598-018-19736-w (5 February 2018)

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