| limma powers differential expression analyses for RNA-sequencing and microarray studies ME Ritchie, B Phipson, DI Wu, Y Hu, CW Law, W Shi, GK Smyth Nucleic acids research 43 (7), e47-e47, 2015 | 11132 | 2015 |
| featureCounts: an efficient general purpose program for assigning sequence reads to genomic features Y Liao, GK Smyth, W Shi Bioinformatics 30 (7), 923-30, 2014 | 6591 | 2014 |
| 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 | 2885 | 2014 |
| 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 | 1542 | 2013 |
| A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium SEQC Consortium Nature biotechnology 32 (9), 903, 2014 | 581 | 2014 |
| The transcription factors Blimp-1 and IRF4 jointly control the differentiation and function of effector regulatory T cells E Cretney, A Xin, W Shi, M Minnich, F Masson, M Miasari, GT Belz, ... Nature immunology 12 (4), 304-311, 2011 | 484 | 2011 |
| Hobit and Blimp1 instruct a universal transcriptional program of tissue residency in lymphocytes LK Mackay, M Minnich, NAM Kragten, Y Liao, B Nota, C Seillet, A Zaid, ... Science 352 (6284), 459-463, 2016 | 432 | 2016 |
| The transcriptional regulators IRF4, BATF and IL-33 orchestrate development and maintenance of adipose tissue–resident regulatory T cells A Vasanthakumar, K Moro, A Xin, Y Liao, R Gloury, S Kawamoto, ... Nature immunology 16 (3), 276-285, 2015 | 358 | 2015 |
| 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 | 348 | 2019 |
| The transcription factor IRF4 is essential for TCR affinity–mediated metabolic programming and clonal expansion of T cells K Man, M Miasari, W Shi, A Xin, DC Henstridge, S Preston, M Pellegrini, ... Nature immunology 14 (11), 1155, 2013 | 281 | 2013 |
| Transcriptional profiling of mouse B cell terminal differentiation defines a signature for antibody-secreting plasma cells W Shi, Y Liao, SN Willis, N Taubenheim, M Inouye, DM Tarlinton, ... Nature immunology 16 (6), 663-673, 2015 | 221 | 2015 |
| Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection AD Ewing, KE Houlahan, Y Hu, K Ellrott, C Caloian, TN Yamaguchi, ... Nature methods 12 (7), 623-630, 2015 | 213 | 2015 |
| Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips W Shi, A Oshlack, GK Smyth Nucleic acids research 38 (22), e204-e204, 2010 | 209 | 2010 |
| Blimp-1 controls plasma cell function through the regulation of immunoglobulin secretion and the unfolded protein response J Tellier, W Shi, M Minnich, Y Liao, S Crawford, GK Smyth, A Kallies, ... Nature immunology 17 (3), 323-330, 2016 | 186 | 2016 |
| Targeting antigen to mouse dendritic cells via Clec9A induces potent CD4 T cell responses biased toward a follicular helper phenotype MH Lahoud, F Ahmet, S Kitsoulis, S San Wan, D Vremec, CN Lee, ... The Journal of Immunology 187 (2), 842-850, 2011 | 180 | 2011 |
| Blocking IL-6 trans-signaling prevents high-fat diet-induced adipose tissue macrophage recruitment but does not improve insulin resistance MJ Kraakman, HL Kammoun, TL Allen, V Deswaerte, DC Henstridge, ... Cell metabolism 21 (3), 403-416, 2015 | 173 | 2015 |
| Complementarity and redundancy of IL-22-producing innate lymphoid cells LC Rankin, MJH Girard-Madoux, C Seillet, LA Mielke, Y Kerdiles, A Fenis, ... Nature immunology 17 (2), 179-186, 2016 | 163 | 2016 |
| HDAC inhibitors induce tumor-cell-selective pro-apoptotic transcriptional responses JE Bolden, W Shi, K Jankowski, CY Kan, L Cluse, BP Martin, ... Cell Death & Disease 4 (2), e519, 2013 | 162 | 2013 |
| CIS is a potent checkpoint in NK cell–mediated tumor immunity RB Delconte, TB Kolesnik, LF Dagley, J Rautela, W Shi, EM Putz, ... Nature Immunology 17 (7), 816-824, 2016 | 152 | 2016 |
| Transcription factor IRF4 promotes CD8+ T cell exhaustion and limits the development of memory-like T cells during chronic infection K Man, SS Gabriel, Y Liao, R Gloury, S Preston, DC Henstridge, ... Immunity 47 (6), 1129-1141. e5, 2017 | 146 | 2017 |
Gordon K SmythDivision Head, Bioinformatics, Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
