Gordon K. Smyth

发表

Impact of RNA-seq data analysis algorithms on gene expression estimation and downstream prediction

May D. Wang, Weida Tong, Leming Shi, 2020, Scientific Reports.

A guide to creating design matrices for gene expression experiments

Monther Alhamdoosh, Matthew E. Ritchie, Charity W. Law, 2020, F1000Research.

When random assignment fails: Some lessons from the Minneapolis Spouse Abuse Experiment

Richard A. Berk, Lawrence W. Sherman, Gordon K. Smyth, 1988 .

A Conditional Likelihood Approach to Residual Maximum Likelihood Estimation in Generalized Linear Models

Gordon K. Smyth, G. Smyth, A. Verbyla, 1996 .

Adjusted likelihood methods for modelling dispersion in generalized linear models

Gordon K. Smyth, G. Smyth, A. Verbyla, 1999 .

Generation of a functional mammary gland from a single stem cell

François Vaillant, Marie-Liesse Asselin-Labat, Mark Shackleton, 2006, Nature.

Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips

Wei Shi, Alicia Oshlack, Gordon K. Smyth, 2010, Nucleic acids research.

Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses

Marie-Liesse Asselin-Labat, Huei San Leong, Matthew E. Ritchie, 2015, Nucleic acids research.

Gata-3 Negatively Regulates the Tumor-Initiating Capacity of Mammary Luminal Progenitor Cells and Targets the Putative Tumor Suppressor Caspase-14

Wei Shi, François Vaillant, Marie-Liesse Asselin-Labat, 2011, Molecular and Cellular Biology.

RNA-seq mixology: designing realistic control experiments to compare protocols and analysis methods

Marie-Liesse Asselin-Labat, Jaeil Ahn, Wenyi Wang, 2016, bioRxiv.

Estimating the proportion of microarray probes expressed in an RNA sample

Wei Shi, Hamish S. Scott, Douglas J. Hilton, 2010, Nucleic acids research.

Pearson's goodness of fit statistic as a score test statistic

Gordon K. Smyth, G. Smyth, 2003 .

Gene Regulation in Primates Evolves under Tissue-Specific Selection Pressures

Alicia Oshlack, Ran Blekhman, Yoav Gilad, 2008, PLoS genetics.

Opposing roles of polycomb repressive complexes in hematopoietic stem and progenitor cells.

Belinda Phipson, Ian J. Majewski, Warren S. Alexander, 2010, Blood.

Inhibitors of histone acetyltransferases KAT6A/B induce senescence and arrest tumour growth

Nghi Nguyen, Thomas S. Peat, Olan Dolezal, 2018, Nature.

Expression profiling in primates reveals a rapid evolution of human transcription factors

Terence P. Speed, Kevin P. White, Alicia Oshlack, 2006, Nature.

DNMT3L Is a Regulator of X Chromosome Compaction and Post-Meiotic Gene Transcription

Chi-Yi Lo, Hamish S. Scott, Moira K. O'Bryan, 2011, PloS one.

Abstract P4-04-03: Transcriptome Analyses of Mouse and Human Mammary Cell Subpopulations Reveals Multiple Conserved Genes and Pathways

Elgene Lim, François Vaillant, Di Wu, 2010 .

Robust Frequency Estimation Using Elemental Sets

Douglas M. Hawkins, Gordon K. Smyth, 2000 .

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

Aaron T. L. Lun, Gordon K. Smyth, G. Smyth, 2014, Nucleic acids research.

Exact and approximate REML for heteroscedastic regression

Gordon K. Smyth, G. Smyth, A. Verbyla, 2001 .

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

Gordon K. Smyth, Nigel Curtis, G. Smyth, 2011, PloS one.

featureCounts: an efficient general-purpose read summarization program

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

Coupled and separable iterations in nonlinear estimation

Gordon K. Smyth, G. Smyth, 1985 .

Individual Channel Analysis of Two-Colour Microarrays

Gordon K. Smyth, G. Smyth, 2005 .

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

Aaron T. L. Lun, Gordon K. Smyth, G. Smyth, 2015, F1000Research.

An Efficient Algorithm for REML in Heteroscedastic Regression

Gordon K. Smyth, G. Smyth, 2002 .

Linear Models for Microarray and RNA-Seq Data User's Guide

Wei Shi, Matthew E. Ritchie, James M. Wettenhall, 2015 .

goseq: Gene Ontology testing for RNA-seq datasets

Alicia Oshlack, Gordon K. Smyth, Matthew D. Young, 2014 .

RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR [version 2; referees: 3 approved]

Monther Alhamdoosh, Matthew E. Ritchie, Charity W. Law, 2016 .

Generalized linear models with varying dispersion

Gordon K. Smyth, G. Smyth, 1989 .

EGF-mediated induction of Mcl-1 at the switch to lactation is essential for alveolar cell survival

Aaron T. L. Lun, François Vaillant, Thomas Preiss, 2015, Nature Cell Biology.

of digital gene expression data User's Guide

Mark D. Robinson, Gordon K. Smyth, Davis J. McCarthy, 2012 .

On Using The Log-hyperbolic Distribution To Describe The Textural Characteristics Of Eolian Sediments

Gordon K. Smyth, Karl-Heinz Wyrwoll, 1988 .

Hemacytometer Cell Count Distributions: Implications of Non‐Poisson Behavior

Paul F. Greenfield, Lars K. Nielsen, Gordon K. Smyth, 1991 .

A general approach to modeling and analysis of species abundance data with extra zeros

Malcolm J. Faddy, Heather Podlich, Gordon K. Smyth, 2002 .

An algorithm for exponential fitting revisited

Michael R. Osborne, M. R. Osborne, Gordon K. Smyth, 1986, Journal of Applied Probability.

Randomized Quantile Residuals

Peter K. Dunn, Gordon K. Smyth, G. Smyth, 1996 .

Fitting Tweedie's Compound Poisson Model to Insurance Claims Data: Dispersion Modelling

Bent Jørgensen, Gordon K. Smyth, B. Jørgensen, 2002, ASTIN Bulletin.

Robust Frequency Estimation using Elemental Sets

Douglas M. Hawkins, Gordon K. Smyth, 1997 .

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

Aaron T. L. Lun, Gordon K. Smyth, G. Smyth, 2016, F1000Research.

Linear Models for Microarray Data User's Guide (Now Including RNA-Seq Data Analysis)

Wei Shi, Gordon K. Smyth, Matthew E. Ritchie, 2013 .