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Irizarry R, et al. (2015) Biomedical Data Science. Course Notes, EdX PH525.1x.

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). PMC4509590

Kannan L, et al. (2015). Public data and open source tools for multi-assay genomic investigation of disease. Brief Bioinform. doi:10.1093/bib/bbv080

Love M, Huber W, and Anders S. (2014) Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biology 15:550; doi:10.1186/s13059-014-0550-8

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

Recent

20 most recent PubMed and PubMed Central citations mentioning "Bioconductor". For a complete list, go to PubMed and PubMed Central. Last updated 2017-09-29T19:40:09-04:00.

Serviss JT, Gådin JR, Eriksson P, Folkersen L, Grandér D. ClusterSignificance: a bioconductor package facilitating statistical analysis of class cluster separations in dimensionality reduced data. Bioinformatics, 33(19), pp. 3126-3128. doi:10.1093/bioinformatics/btx393 (1 October 2017)

Xu T, Le TD, Liu L, Su N, Wang R, Sun B, Colaprico A, Bontempi G, Li J. CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization. Bioinformatics, 33(19), pp. 3131-3133. doi:10.1093/bioinformatics/btx378 (1 October 2017)

Bian G, Gloor GB, Gong A, Jia C, Zhang W, Hu J, Zhang H, Zhang Y, Zhou Z, Zhang J, Burton JP, Reid G, Xiao Y, Zeng Q, Yang K, Li J. The Gut Microbiota of Healthy Aged Chinese Is Similar to That of the Healthy Young mSphere, 2(5), pp. e00327-17. doi:10.1128/mSphere.00327-17 (27 September 2017)

Gerrard DL, Hawkinson A, Sherman T, Modahl CM, Hume G, Campbell CL, Schountz T, Frietze S. Transcriptomic Signatures of Tacaribe Virus-Infected Jamaican Fruit Bats mSphere, 2(5), pp. e00245-17. doi:10.1128/mSphere.00245-17 (27 September 2017)

Roux S, Emerson JB, Eloe-Fadrosh EA, Sullivan MB. Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity PeerJ, 5, pp. e3817. doi:10.7717/peerj.3817 (21 September 2017)

Mei Y, Liu H, Zhang S, Yang M, Hu C, Zhang J, Shen P, Chen X. Effects of salinity on the cellular physiological responses of Natrinema sp. J7-2 PLoS One, 12(9), pp. e0184974. doi:10.1371/journal.pone.0184974 (19 September 2017)

Kong W, Yang S, Wang Y, Bendahmane M, Fu X. Genome-wide identification and characterization of aquaporin gene family in Beta vulgaris PeerJ, 5, pp. e3747. doi:10.7717/peerj.3747 (19 September 2017)

Vivarini ÁD, Calegari-Silva TC, Saliba AM, Boaventura VS, França-Costa J, Khouri R, Dierckx T, Dias-Teixeira KL, Fasel N, Barral AM, Borges VM, Van Weyenbergh J, Lopes UG. Systems Approach Reveals Nuclear Factor Erythroid 2-Related Factor 2/Protein Kinase R Crosstalk in Human Cutaneous Leishmaniasis Front Immunol, 8, pp. 1127. doi:10.3389/fimmu.2017.01127 (15 September 2017)

Balan B, Caruso T, Martinelli F. Gaining Insight into Exclusive and Common Transcriptomic Features Linked with Biotic Stress Responses in Malus Front Plant Sci, 8, pp. 1569. doi:10.3389/fpls.2017.01569 (13 September 2017)

Zappia L, Phipson B, Oshlack A. Splatter: simulation of single-cell RNA sequencing data. Genome Biol, 18(1), pp. 174. doi:10.1186/s13059-017-1305-0 (12 September 2017)

Diaz-Mendoza M, Velasco-Arroyo B, Santamaria ME, Diaz I, Martinez M. HvPap-1 C1A Protease Participates Differentially in the Barley Response to a Pathogen and an Herbivore Front Plant Sci, 8, pp. 1585. doi:10.3389/fpls.2017.01585 (12 September 2017)

Kaiser Y, Lakshmikanth T, Chen Y, Mikes J, Eklund A, Brodin P, Achour A, Grunewald J. Mass Cytometry Identifies Distinct Lung CD4+ T Cell Patterns in Löfgren’s Syndrome and Non-Löfgren’s Syndrome Sarcoidosis Front Immunol, 8, pp. 1130. doi:10.3389/fimmu.2017.01130 (12 September 2017)

Lohman BK, Steinel NC, Weber JN, Bolnick DI. Gene Expression Contributes to the Recent Evolution of Host Resistance in a Model Host Parasite System Front Immunol, 8, pp. 1071. doi:10.3389/fimmu.2017.01071 (12 September 2017)

Welch R, Chung D, Grass J, Landick R, Keles S. Data exploration, quality control and statistical analysis of ChIP-exo/nexus experiments. Nucleic Acids Res, 45(15), pp. e145. doi:10.1093/nar/gkx594 (6 September 2017)

Riddell N, Crewther SG. Novel evidence for complement system activation in chick myopia and hyperopia models: a meta-analysis of transcriptome datasets. Sci Rep, 7(1), pp. 9719. doi:10.1038/s41598-017-10277-2 (29 August 2017)

Roberts S, Wong CC, Breen G, Coleman JR, De Jong S, Jöhren P, Keers R, Curtis C, Lee SH, Margraf J, Schneider S, Teismann T, Wannemüller A, Lester KJ, Eley TC. Genome-wide expression and response to exposure-based psychological therapy for anxiety disorders Transl Psychiatry, 7(8), pp. e1219-. doi:10.1038/tp.2017.177 (29 August 2017)

Zararsız G, Goksuluk D, Korkmaz S, Eldem V, Zararsiz GE, Duru IP, Ozturk A. A comprehensive simulation study on classification of RNA-Seq data. PLoS One, 12(8), pp. e0182507. doi:10.1371/journal.pone.0182507 (23 August 2017)

Abdullah A, Eyster KM, Bjordahl T, Xiao P, Zeng E, Wang X. Murine Myocardial Transcriptome Analysis Reveals a Critical Role of COPS8 in the Gene Expression of Cullin-RING Ligase Substrate Receptors and Redox and Vesicle Trafficking Pathways. Front Physiol, 8, pp. 594. doi:10.3389/fphys.2017.00594 (17 August 2017)

Serpeloni F, Radtke K, de Assis SG, Henning F, Nätt D, Elbert T. Grandmaternal stress during pregnancy and DNA methylation of the third generation: an epigenome-wide association study Transl Psychiatry, 7(8), pp. e1202-. doi:10.1038/tp.2017.153 (15 August 2017)

Zheng T, Wang A, Hu D, Wang Y. Molecular mechanisms of breast cancer metastasis by gene expression profile analysis. Mol Med Rep, 16(4), pp. 4671-4677. doi:10.3892/mmr.2017.7157 (3 August 2017)