edgeR: a Bioconductor package for differential expression analysis of digital gene expression data MD Robinson, DJ McCarthy, GK Smyth Bioinformatics 26 (1), 139-140, 2010 | 36610 | 2010 |
limma powers differential expression analyses for RNA-sequencing and microarray studies ME Ritchie, B Phipson, D Wu, Y Hu, CW Law, W Shi, GK Smyth Nucleic acids research 43 (7), e47, 2015 | 28942 | 2015 |
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features Y Liao, GK Smyth, W Shi Bioinformatics 30 (7), 923-930, 2014 | 18634 | 2014 |
Bioconductor: open software development for computational biology and bioinformatics RC Gentleman, VJ Carey, DM Bates, B Bolstad, M Dettling, S Dudoit, ... Genome biology 5, 1-16, 2004 | 14144 | 2004 |
Linear models and empirical Bayes methods for assessing differential expression in microarray experiments GK Smyth Statistical applications in genetics and molecular biology 3 (1), Article 3, 2004 | 13697 | 2004 |
Limma: linear models for microarray data GK Smyth Bioinformatics and computational biology solutions using R and Bioconductor …, 2005 | 7191 | 2005 |
Limma: linear models for microarray data user’s guide GK Smyth, N Thorne, J Wettenhall Bioconductor, limma package, 2005 | 7134* | 2005 |
Limma: linear models for microarray data GK Smyth Bioinformatics and computational biology solutions using R and Bioconductor …, 2005 | 7059 | 2005 |
Limma: linear models for microarray data GK Smyth Bioinformatics and computational biology solutions using R and Bioconductor …, 2005 | 7059 | 2005 |
Limma: linear models for microarray data GK Smyth Bioinformatics and computational biology solutions using R and Bioconductor …, 2005 | 7059 | 2005 |
Gene ontology analysis for RNA-seq: accounting for selection bias MD Young, MJ Wakefield, GK Smyth, A Oshlack Genome Biology 11, R14, 2010 | 6126 | 2010 |
Voom: precision weights unlock linear model analysis tools for RNA-seq read counts CW Law, Y Chen, W Shi, GK Smyth Genome Biology 15 (2), R29, 2014 | 5585 | 2014 |
Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation DJ McCarthy, Y Chen, GK Smyth Nucleic acids research 40 (10), 4288-4297, 2012 | 5027 | 2012 |
Orchestrating high-throughput genomic analysis with Bioconductor W Huber, VJ Carey, R Gentleman, S Anders, M Carlson, BS Carvalho, ... Nature methods 12 (2), 115-121, 2015 | 3453 | 2015 |
The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote Y Liao, GK Smyth, W Shi Nucleic acids research 41 (10), e108, 2013 | 2727 | 2013 |
Generation of a functional mammary gland from a single stem cell M Shackleton, F Vaillant, KJ Simpson, J Stingl, GK Smyth, ... Nature 439 (7072), 84-88, 2006 | 2533 | 2006 |
Normalization of cDNA microarray data GK Smyth, T Speed Methods 31 (4), 265-273, 2003 | 2330 | 2003 |
ELDA: extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays Y Hu, GK Smyth Journal of immunological methods 347 (1-2), 70-78, 2009 | 1997 | 2009 |
The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads Y Liao, GK Smyth, W Shi Nucleic acids research 47 (8), e47-e47, 2019 | 1983 | 2019 |
Aberrant luminal progenitors as the candidate target population for basal tumor development in BRCA1 mutation carriers E Lim, F Vaillant, D Wu, NC Forrest, B Pal, AH Hart, ML Asselin-Labat, ... Nature medicine 15 (8), 907-913, 2009 | 1635 | 2009 |