Gordon K. Smyth

228.7k total citations · 25 hit papers
345 papers, 122.5k citations indexed

About

Gordon K. Smyth is a scholar working on Molecular Biology, Immunology and Oncology. According to data from OpenAlex, Gordon K. Smyth has authored 345 papers receiving a total of 122.5k indexed citations (citations by other indexed papers that have themselves been cited), including 163 papers in Molecular Biology, 63 papers in Immunology and 59 papers in Oncology. Recurrent topics in Gordon K. Smyth's work include Gene expression and cancer classification (51 papers), Molecular Biology Techniques and Applications (35 papers) and T-cell and B-cell Immunology (31 papers). Gordon K. Smyth is often cited by papers focused on Gene expression and cancer classification (51 papers), Molecular Biology Techniques and Applications (35 papers) and T-cell and B-cell Immunology (31 papers). Gordon K. Smyth collaborates with scholars based in Australia, United States and Ireland. Gordon K. Smyth's co-authors include Wei Shi, Davis J. McCarthy, Mark D. Robinson, Yang Liao, Charity W. Law, Yifang Hu, Di Wu, Matthew E. Ritchie, Belinda Phipson and Yunshun Chen and has published in prestigious journals such as Nature, Science and Proceedings of the National Academy of Sciences.

In The Last Decade

Gordon K. Smyth

339 papers receiving 121.5k citations

Hit Papers

5 papers align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

edgeR : a Bioconductor package for differential expression analysis of digital gene expression data

2009 27.9k citations Gordon K. Smyth et al. profile →
limma powers differential expression analyses for RNA-sequencing and microarray studies

2015 23.6k citations Matthew E. Ritchie, Yifang Hu et al. profile →
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

2013 15.4k citations Gordon K. Smyth, Wei Shi et al. profile →
Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments

2004 9.4k citations Gordon K. Smyth profile →
Gene ontology analysis for RNA-seq: accounting for selection bias

2010 5.3k citations Gordon K. Smyth et al. Genome biology profile →
voom: precision weights unlock linear model analysis tools for RNA-seq read counts

2014 3.6k citations Charity W. Law, Yunshun Chen et al. Genome biology profile →
Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

2012 3.4k citations Yunshun Chen, Gordon K. Smyth et al. profile →
The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

2013 1.9k citations Gordon K. Smyth, Wei Shi et al. profile →
The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads

2019 1.6k citations Gordon K. Smyth, Wei Shi et al. profile →
Generation of a functional mammary gland from a single stem cell

2006 1.5k citations François Vaillant, Gordon K. Smyth et al. profile →
Normalization of cDNA microarray data

2003 1.5k citations Gordon K. Smyth et al. profile →
ELDA: Extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays

2009 1.4k citations Yifang Hu, Gordon K. Smyth profile →
Use of within-array replicate spots for assessing differential expression in microarray experiments

2005 1.1k citations Gordon K. Smyth et al. profile →
Aberrant luminal progenitors as the candidate target population for basal tumor development in BRCA1 mutation carriers

2009 1.0k citations Elgene Lim, François Vaillant et al. profile →
Count-based differential expression analysis of RNA sequencing data using R and Bioconductor

2013 841 citations Yunshun Chen, Gordon K. Smyth et al. profile →
Small-sample estimation of negative binomial dispersion, with applications to SAGE data

2007 751 citations Gordon K. Smyth et al. profile →
A comparison of background correction methods for two-colour microarrays

2007 735 citations Matthew E. Ritchie, Gordon K. Smyth et al. profile →
Randomized Quantile Residuals

1996 702 citations Peter K. Dunn, Gordon K. Smyth profile →
limmaGUI: A graphical user interface for linear modeling of microarray data

2004 597 citations Gordon K. Smyth et al. profile →
Moderated statistical tests for assessing differences in tag abundance

2007 586 citations Gordon K. Smyth et al. profile →
Control of mammary stem cell function by steroid hormone signalling

2010 521 citations Marie-Liesse Asselin-Labat, François Vaillant et al. profile →
Camera: a competitive gene set test accounting for inter-gene correlation

2012 477 citations Gordon K. Smyth et al. profile →
Generalized Linear Models With Examples in R

2018 257 citations Peter K. Dunn, Gordon K. Smyth profile →
A single‐cell RNA expression atlas of normal, preneoplastic and tumorigenic states in the human breast

2021 238 citations Bhupinder Pal, Yunshun Chen et al. The EMBO Journal profile →
edgeR v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets

2025 96 citations Yunshun Chen, Aaron T. L. Lun et al. profile →

Peers

Countries citing papers authored by Gordon K. Smyth

Since Specialization

Citations

This map shows the geographic impact of Gordon K. Smyth's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Gordon K. Smyth with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Gordon K. Smyth more than expected).

Fields of papers citing papers by Gordon K. Smyth

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Gordon K. Smyth. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Gordon K. Smyth. The network helps show where Gordon K. Smyth may publish in the future.

Co-authorship network of co-authors of Gordon K. Smyth

This figure shows the co-authorship network connecting the top 25 collaborators of Gordon K. Smyth. A scholar is included among the top collaborators of Gordon K. Smyth based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Gordon K. Smyth. Gordon K. Smyth is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

#	Work	Indexed citations
1	Systemic inflammatory response syndrome triggered by blood-borne pathogens induces prolonged dendritic cell paralysis and immunosuppression 2024 ·Cell Reports ·(unknown), Javier Vega‐Ramos, Daniel Fernandez‐Ruiz, (unknown), Aaron T. L. Lun, Jason T. White, Louise J. Young, (unknown), Yifan Zhan, Linda M. Wakim, Irina Caminschi, Mireille H. Lahoud, Andrew M. Lew, Ken Shortman, Gordon K. Smyth, William R. Heath, Justine D. Mintern, Antoine Roquilly, Jóse A. Villadangos	6
2	Hormone-responsive progenitors have a unique identity and exhibit high motility during mammary morphogenesis 2024 ·Cell Reports ·Caleb A. Dawson, Michael J. G. Milevskiy, Bianca D. Capaldo, (unknown), Xiaoyu Song, François Vaillant, (unknown), Felicity C. Jackling, Gordon K. Smyth, Yunshun Chen, Geoffrey J. Lindeman, Jane E. Visvader	0
3	Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data 2023 ·Genome biology ·Yue You, Xueyi Dong, (unknown), Mhairi J. Maxwell, Monther Alhamdoosh, Gordon K. Smyth, Peter F. Hickey, Matthew E. Ritchie, Charity W. Law	6
4	Overexpression of Lmo2 initiates T-lymphoblastic leukemia via impaired thymocyte competition 2023 ·The Journal of Experimental Medicine ·(unknown), Raed Alserihi, Christoffer Flensburg, Waruni Abeysekera, (unknown), Daniel H.D. Gray, (unknown), Gordon K. Smyth, Warren S. Alexander, Ian J. Majewski, Matthew P. McCormack	2
5	Activation of stably silenced genes by recruitment of a synthetic de-methylating module 2022 ·Nature Communications ·Wing Fuk Chan, Hannah D. Coughlan, Yunshun Chen, Christine R. Keenan, Gordon K. Smyth, Andrew C. Perkins, Timothy M. Johanson, Rhys S. Allan	14
6	A single‐cell RNA expression atlas of normal, preneoplastic and tumorigenic states in the human breast breakdown → 2021 ·The EMBO Journal ·Bhupinder Pal, Yunshun Chen, François Vaillant, Bianca D. Capaldo, Rachel Joyce, Xiaoyu Song, Vanessa L. Bryant, Jocelyn Sietsma Penington, Leon Di Stefano, Nina Tubau Ribera, Stephen Wilcox, G. Bruce Mann, (unknown), Anthony T. Papenfuss, Geoffrey J. Lindeman, Gordon K. Smyth, Jane E. Visvader	238
7	The histone acetyltransferase HBO1 promotes efficient tip cell sprouting during angiogenesis 2021 ·Development ·(unknown), Peter F. Hickey, Waruni Abeysekera, Lachlan Whitehead, (unknown), R. C. Andrew Symons, Tracey M. Baldwin, Daniela Amann‐Zalcenstein, Alexandra L. Garnham, Shalin H. Naik, Gordon K. Smyth, Tim Thomas, Anne K. Voss, Leigh Coultas	5
8	The concerted change in the distribution of cell cycle phases and zone composition in germinal centers is regulated by IL-21 2021 ·Nature Communications ·Dimitra Zotos, Isaak Quast, Connie S.N. Li Wai Suen, Craig I. McKenzie, Marcus J Robinson, Andrey Kan, Gordon K. Smyth, Philip D. Hodgkin, David M. Tarlinton	21
9	Dual Targeting of CDK4/6 and BCL2 Pathways Augments Tumor Response in Estrogen Receptor–Positive Breast Cancer 2020 ·Clinical Cancer Research ·James R. Whittle, François Vaillant, Elliot Surgenor, Antonia N. Policheni, Göknur Giner, Bianca D. Capaldo, (unknown), (unknown), Johanna F. Dekkers, Norman Sachs, Hans Clevers, Andrew Fellowes, (unknown), Huiling Xu, Stephen B. Fox, Marco J. Herold, Gordon K. Smyth, Daniel H.D. Gray, Jane E. Visvader, Geoffrey J. Lindeman	70
10	Circulating Small Noncoding RNA Biomarkers of Response to Triple Disease-modifying Antirheumatic Drug Therapy in White Women With Early Rheumatoid Arthritis 2020 ·The Journal of Rheumatology ·Andrew D. Foers, Alexandra L. Garnham, Gordon K. Smyth, Susanna Proudman, Lesley Cheng, Andrew F. Hill, Ken C. Pang, Ian P. Wicks	5
11	Barcoding reveals complex clonal behavior in patient-derived xenografts of metastatic triple negative breast cancer 2019 ·Nature Communications ·Delphine Mérino, Tom Weber, Antonin Serrano, François Vaillant, (unknown), Bhupinder Pal, Leon Di Stefano, Jaring Schreuder, Dawn Lin, Yunshun Chen, Marie-Liesse Asselin-Labat, Ton N. Schumacher, Daniel Cameron, Gordon K. Smyth, Anthony T. Papenfuss, Geoffrey J. Lindeman, Jane E. Visvader, Shalin H. Naik	107
12	Conserved IKAROS-regulated genes associated with B-progenitor acute lymphoblastic leukemia outcome 2017 ·The Journal of Experimental Medicine ·Matthew T. Witkowski, Yifang Hu, Kathryn G. Roberts, Judith M. Boer, Mark McKenzie, (unknown), (unknown), Cédric S. Tremblay, Margherita Ghisi, Tracy A. Willson, Martin A. Horstmann, Iannis Aifantis, Luisa Cimmino, Seth Frietze, Monique L. den Boer, Charles G. Mullighan, Gordon K. Smyth, Ross A. Dickins	22
13	RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR [version 1; referees: 3 approved] 2016 ·SHILAP Revista de lepidopterología ·Charity W. Law, Monther Alhamdoosh, Shian Su, Gordon K. Smyth, Matthew E. Ritchie	8
14	voom: precision weights unlock linear model analysis tools for RNA-seq read counts breakdown → 2014 ·Genome biology ·Charity W. Law, Yunshun Chen, Wei Shi, Gordon K. Smyth	3625
15	Nonequivalent Gene Expression and Copy Number Alterations in High-Grade Serous Ovarian Cancers with BRCA1 and BRCA2 Mutations 2013 ·Clinical Cancer Research ·Joshy George, Kathryn Alsop, Dariush Etemadmoghadam, (unknown), Thomas Mikeska, Alexander Dobrovic, Anna DeFazio, (unknown), Gordon K. Smyth, Douglas A. Levine, Gillian Mitchell, David D.L. Bowtell	67
16	Epigenetic Regulator Smchd1 Functions as a Tumor Suppressor 2012 ·Cancer Research ·Huei San Leong, Kelan Chen, Yifang Hu, Stanley Chun-Wei Lee, Jason Corbin, Miha Pakusch, James M. Murphy, Ian J. Majewski, Gordon K. Smyth, Warren S. Alexander, Douglas J. Hilton, Marnie E. Blewitt	36
17	Sensitization of BCL-2–expressing breast tumors to chemotherapy by the BH3 mimetic ABT-737 2011 ·Proceedings of the National Academy of Sciences ·Samantha R. Oakes, François Vaillant, Elgene Lim, Lily Lee, Kelsey Breslin, Frank Feleppa, Siddhartha Deb, Matthew E. Ritchie, Elena A. Takano, Teresa Ward, Stephen B. Fox, Daniele Generali, Gordon K. Smyth, Andreas Strasser, David C.S. Huang, Jane E. Visvader, Geoffrey J. Lindeman	150
18	Platelets Kill Intraerythrocytic Malarial Parasites and Mediate Survival to Infection 2009 ·Science ·Brendan J. McMorran, Vikki M. Marshall, Carolyn A. de Graaf, Karen E. Drysdale, (unknown), Gordon K. Smyth, Jason Corbin, Warren S. Alexander, Simon J. Foote	209
19	Histone Deacetylase Inhibitor Panobinostat Induces Clinical Responses with Associated Alterations in Gene Expression Profiles in Cutaneous T-Cell Lymphoma 2008 ·Clinical Cancer Research ·Leigh Ellis, Yan Pan, Gordon K. Smyth, Daniel J. George, Chris McCormack, (unknown), Monica Mita, Joachim Beck, Howard A. Burris, Gail Ryan, Peter Atadja, Dale Butterfoss, Margaret Dugan, Kenneth W. Culver, Ricky W. Johnstone, H. Miles Prince	244
20	Tweedie Family Densities: Methods of Evaluation 2001 ·USC Research Bank (University of the Sunshine Coast) ·Peter K. Dunn, Gordon K. Smyth	5

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