| 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 | 3414 | 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 | 3159 | 2012 |
| Count-based differential expression analysis of RNA sequencing data using R and Bioconductor S Anders, DJ McCarthy, Y Chen, M Okoniewski, GK Smyth, W Huber, ... Nature protocols 8 (9), 1765-1786, 2013 | 1055 | 2013 |
| From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline Y Chen, ATL Lun, GK Smyth F1000Research 5, 2016 | 280 | 2016 |
| It’s DE-licious: a recipe for differential expression analyses of RNA-seq experiments using quasi-likelihood methods in edgeR ATL Lun, Y Chen, GK Smyth Statistical Genomics, 391-416, 2016 | 241 | 2016 |
| Differential Expression Analysis of Complex RNA-seq Experiments Using edgeR Y Chen, ATL Lun, GK Smyth Statistical Analysis of Next Generation Sequencing Data, 51-74, 2014 | 141 | 2014 |
| Construction of developmental lineage relationships in the mouse mammary gland by single-cell RNA profiling B Pal, Y Chen, F Vaillant, P Jamieson, L Gordon, AC Rios, S Wilcox, N Fu, ... Nature communications 8 (1), 1-14, 2017 | 113 | 2017 |
| statmod: Statistical modeling G Smyth, Y Hu, P Dunn, B Phipson, Y Chen R package version 1 (4), 17, 2013 | 98* | 2013 |
| edgeR: differential expression analysis of digital gene expression data User’s Guide Y Chen, D McCarthy, M Robinson, GK Smyth Bioconductor User’s Guide, 2014 | 96 | 2014 |
| Intraclonal plasticity in mammary tumors revealed through large-scale single-cell resolution 3d imaging AC Rios, BD Capaldo, F Vaillant, B Pal, R van Ineveld, CA Dawson, ... Cancer cell 35 (4), 618-632. e6, 2019 | 70 | 2019 |
| Barcoding reveals complex clonal behavior in patient-derived xenografts of metastatic triple negative breast cancer D Merino, TS Weber, A Serrano, F Vaillant, K Liu, B Pal, L Di Stefano, ... Nature communications 10 (1), 1-12, 2019 | 57 | 2019 |
| Regulation of germinal center responses and B-cell memory by the chromatin modifier MOZ KL Good-Jacobson, Y Chen, AK Voss, GK Smyth, T Thomas, D Tarlinton Proceedings of the National Academy of Sciences 111 (26), 9585-9590, 2014 | 44 | 2014 |
| Differential methylation analysis of reduced representation bisulfite sequencing experiments using edgeR Y Chen, B Pal, JE Visvader, GK Smyth F1000Research 6, 2017 | 42 | 2017 |
| c-Myb Regulates the T-Bet-Dependent Differentiation Program in B Cells to Coordinate Antibody Responses D Piovesan, J Tempany, A Di Pietro, I Baas, C Yiannis, K O’Donnell, ... Cell Reports 19 (3), 461-470, 2017 | 38 | 2017 |
| Lung Basal Stem Cells Rapidly Repair DNA Damage Using the Error-Prone Nonhomologous End-Joining Pathway CE Weeden, Y Chen, SB Ma, Y Hu, G Ramm, KD Sutherland, GK Smyth, ... PLOS Biology 15 (1), e2000731, 2017 | 33 | 2017 |
| Integration of microRNA signatures of distinct mammary epithelial cell types with their gene expression and epigenetic portraits B Pal, Y Chen, A Bert, Y Hu, JM Sheridan, T Beck, W Shi, K Satterley, ... Breast Cancer Research 17 (1), 1-16, 2015 | 28 | 2015 |
| Statistical genomics: methods and protocols ATL Lun, Y Chen, GK Smyth, E Mathé, S Davis Springer, New York, New York, NY 1418, 391-416, 2016 | 21 | 2016 |
| 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 | 21* | 2010 |
| Foxp1 is indispensable for ductal morphogenesis and controls the exit of mammary stem cells from quiescence NY Fu, B Pal, Y Chen, FC Jackling, M Milevskiy, F Vaillant, BD Capaldo, ... Developmental cell 47 (5), 629-644. e8, 2018 | 14 | 2018 |
| From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline [version 2; referees: 5 approved … Y Chen, AT Lun, GK Smyth PubMed Abstract| Publisher Full Text| Free Full Text, 0 | 12 | |
Gordon K SmythDivision Head, Bioinformatics, Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
