Separate-channel analysis of two-channel microarrays: recovering inter-spot information

by Smyth, Gordon K, Altman, Naomi S
Published 2013

Camera: a competitive gene set test accounting for inter-gene correlation

by Wu, Di, Smyth, Gordon K.
Published 2012

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

by Liao, Yang, Smyth, Gordon K., Shi, Wei
Published 2013

De novo detection of differentially bound regions for ChIP-seq data using peaks and windows: controlling error rates correctly

by Lun, Aaron T.L., Smyth, Gordon K.
Published 2014

diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data

by Lun, Aaron T.L., Smyth, Gordon K.
Published 2015

From reads to regions: a Bioconductor workflow to detect differential binding in ChIP-seq data

by Lun, Aaron T. L., Smyth, Gordon K.
Published 2016

csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows

by Lun, Aaron T.L., Smyth, Gordon K.
Published 2016

Normalization of boutique two-color microarrays with a high proportion of differentially expressed probes

by Oshlack, Alicia, Emslie, Dianne, Corcoran, Lynn M, Smyth, Gordon K
Published 2007

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

by McCarthy, Davis J., Chen, Yunshun, Smyth, Gordon K.
Published 2012

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

by Law, Charity W, Chen, Yunshun, Shi, Wei, Smyth, Gordon K
Published 2014

From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline

by Chen, Yunshun, Lun, Aaron T. L., Smyth, Gordon K.
Published 2016

Proximal genomic localization of STAT1 binding and regulated transcriptional activity

by Wormald, Samuel, Hilton, Douglas J, Smyth, Gordon K, Speed, Terence P
Published 2006

Technical Variability Is Greater than Biological Variability in a Microarray Experiment but Both Are Outweighed by Changes Induced by Stimulation

by Bryant, Penelope A., Smyth, Gordon K., Robins-Browne, Roy, Curtis, Nigel
Published 2011

Statistical analysis of an RNA titration series evaluates microarray precision and sensitivity on a whole-array basis

by Holloway, Andrew J, Oshlack, Alicia, Diyagama, Dileepa S, Bowtell, David DL, Smyth, Gordon K
Published 2006

Whole transcriptome analysis for T cell receptor-affinity and IRF4-regulated clonal expansion of T cells

by Shi, Wei, Man, Kevin, Smyth, Gordon K., Nutt, Stephen L., Kallies, Axel
Published 2014

RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR

by Law, Charity W., Alhamdoosh, Monther, Su, Shian, Smyth, Gordon K., Ritchie, Matthew E.
Published 2016

Empirical array quality weights in the analysis of microarray data

by Ritchie, Matthew E, Diyagama, Dileepa, Neilson, Jody, van Laar, Ryan, Dobrovic, Alexander, Holloway, Andrew, Smyth, Gordon K
Published 2006

Blimp-1 controls plasma cell function through regulation of immunoglobulin secretion and the unfolded protein response

by Tellier, Julie, Shi, Wei, Minnich, Martina, Liao, Yang, Crawford, Simon, Smyth, Gordon K, Kallies, Axel, Busslinger, Meinrad, Nutt, Stephen L
Published 2016

limma powers differential expression analyses for RNA-sequencing and microarray studies

by Ritchie, Matthew E., Phipson, Belinda, Wu, Di, Hu, Yifang, Law, Charity W., Shi, Wei, Smyth, Gordon K.
Published 2015

Spatiotemporal regulation of multiple overlapping sense and novel natural antisense transcripts at the nrgn and camk2n1 gene loci during mouse cerebral corticogenesis.

by Ling, King Hwa, Cheah, Pike See, Hewitt, Chelsee Ann, Beissbarth, Tim, Hyde, Lavinia, Smyth, Gordon K., Tan, S.S., Hahn, Christopher N., Thomas, Tim, Thomas , P.Q., Scott, Hamish S.
Published 2011