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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

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20 most recent PubMed and PubMed Central citations mentioning "Bioconductor". For a complete list, go to PubMed and PubMed Central. Last updated 2017-03-22T18:00:13-04:00.

Prince DC, Rallapalli G, Xu D, Schoonbeek HJ, Çevik V, Asai S, Kemen E, Cruz-Mireles N, Kemen A, Belhaj K, Schornack S, Kamoun S, Holub EB, Halkier BA, Jones JD. Albugo-imposed changes to tryptophan-derived antimicrobial metabolite biosynthesis may contribute to suppression of non-host resistance to Phytophthora infestans in Arabidopsis thaliana BMC Biol, 15, pp. 20. doi:10.1186/s12915-017-0360-z (20 March 2017)
Foroushani A, Agrahari R, Docking R, Chang L, Duns G, Hudoba M, Karsan A, Zare H. Large-scale gene network analysis reveals the significance of extracellular matrix pathway and homeobox genes in acute myeloid leukemia: an introduction to the Pigengene package and its applications. BMC Med Genomics, 10(1), pp. 16. doi:10.1186/s12920-017-0253-6 (16 March 2017)
Cao H, Wei D, Yang Y, Shang Y, Li G, Zhou Y, Ma Q, Xu Y. Systems-level understanding of ethanol-induced stresses and adaptation in E. coli Sci Rep, 7, pp. 44150. doi:10.1038/srep44150 (16 March 2017)
Srinivasan S, Su M, Ravishankar S, Moore J, Head P, Dixon JB, Vannberg F. TLR-exosomes exhibit distinct kinetics and effector function Sci Rep, 7, pp. 41623. doi:10.1038/srep41623 (14 March 2017)
Fragkouli A, Koukouraki P, Vlachos IS, Paraskevopoulou MD, Hatzigeorgiou AG, Doxakis E. Neuronal ELAVL proteins utilize AUF-1 as a co-partner to induce neuron-specific alternative splicing of APP Sci Rep, 7, pp. 44507. doi:10.1038/srep44507 (14 March 2017)
Carrillo-Salinas FJ, Mestre L, Mecha M, Feliú A, del Campo R, Villarrubia N, Espejo C, Montalbán X, Álvarez-Cermeño JC, Villar LM, Guaza C. Gut dysbiosis and neuroimmune responses to brain infection with Theiler’s murine encephalomyelitis virus Sci Rep, 7, pp. 44377. doi:10.1038/srep44377 (14 March 2017)
Ciucci S, Ge Y, Durán C, Palladini A, Jiménez-Jiménez V, Martínez-Sánchez LM, Wang Y, Sales S, Shevchenko A, Poser SW, Herbig M, Otto O, Androutsellis-Theotokis A, Guck J, Gerl MJ, Cannistraci CV. Enlightening discriminative network functional modules behind Principal Component Analysis separation in differential-omic science studies Sci Rep, 7, pp. 43946. doi:10.1038/srep43946 (13 March 2017)
Kovi MR, Amdahl H, Alsheikh M, Rognli OA. De novo and reference transcriptome assembly of transcripts expressed during flowering provide insight into seed setting in tetraploid red clover Sci Rep, 7, pp. 44383. doi:10.1038/srep44383 (13 March 2017)
Morrow JD, Zhou X, Lao T, Jiang Z, DeMeo DL, Cho MH, Qiu W, Cloonan S, Pinto-Plata V, Celli B, Marchetti N, Criner GJ, Bueno R, Washko GR, Glass K, Quackenbush J, Choi AM, Silverman EK, Hersh CP. Functional interactors of three genome-wide association study genes are differentially expressed in severe chronic obstructive pulmonary disease lung tissue Sci Rep, 7, pp. 44232. doi:10.1038/srep44232 (13 March 2017)
Huang T, Mi H, Lin CY, Zhao L, Zhong LL, Liu FB, Zhang G, Lu AP, Bian ZX. MOST: most-similar ligand based approach to target prediction BMC Bioinformatics, 18, pp. 165. doi:10.1186/s12859-017-1586-z (11 March 2017)
Swindell WR, Michaels KA, Sutter AJ, Diaconu D, Fritz Y, Xing X, Sarkar MK, Liang Y, Tsoi A, Gudjonsson JE, Ward NL. Imiquimod has strain-dependent effects in mice and does not uniquely model human psoriasis Genome Med, 9, pp. 24. doi:10.1186/s13073-017-0415-3 (9 March 2017)
Bortell N, Basova L, Semenova S, Fox HS, Ravasi T, Marcondes MC. Astrocyte-specific overexpressed gene signatures in response to methamphetamine exposure in vitro J Neuroinflammation, 14, pp. 49. doi:10.1186/s12974-017-0825-6 (9 March 2017)
Celiku O, Tandle A, Chung JY, Hewitt SM, Camphausen K, Shankavaram U. Computational analysis of the mesenchymal signature landscape in gliomas BMC Med Genomics, 10, pp. 13. doi:10.1186/s12920-017-0252-7 (9 March 2017)
Roca CP, Gomes SI, Amorim MJ, Scott-Fordsmand JJ. Variation-preserving normalization unveils blind spots in gene expression profiling Sci Rep, 7, pp. 42460. doi:10.1038/srep42460 (9 March 2017)
Gbelcová H, Rimpelová S, Ruml T, Fenclová M, Kosek V, Hajšlová J, Strnad H, Kolář M, Vítek L. Variability in statin-induced changes in gene expression profiles of pancreatic cancer Sci Rep, 7, pp. 44219. doi:10.1038/srep44219 (9 March 2017)
Niehof M, Hildebrandt T, Danov O, Arndt K, Koschmann J, Dahlmann F, Hansen T, Sewald K. RNA isolation from precision-cut lung slices (PCLS) from different species BMC Res Notes, 10, pp. 121. doi:10.1186/s13104-017-2447-6 (9 March 2017)
Qiao X, Wang H, Wang X, Zhao B, Liu J. Microarray technology reveals potentially novel genes and pathways involved in non-functioning pituitary adenomas Balkan J Med Genet, 19(2), pp. 5-16. doi:10.1515/bjmg-2016-0030 (9 March 2017)
Duclot F, Kabbaj M. The Role of Early Growth Response 1 (EGR1) in Brain Plasticity and Neuropsychiatric Disorders Front Behav Neurosci, 11, pp. 35. doi:10.3389/fnbeh.2017.00035 (6 March 2017)

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