Matthew E Ritchie

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Gordon K SmythDivision Head, Bioinformatics, Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Charity W LawThe Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Shian SuWalter and Eliza Hall InstituteVerified email at wehi.edu.au
Wei ShiProfessor, Olivia Newton-John Cancer Research InstituteVerified email at onjcri.org.au
Blewitt ME, Blewitt M, Champ MELaboratory head, Walter and Eliza Hall InstituteVerified email at wehi.edu.au
Xueyi DongWalter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Simon TavaréColumbia UniversityVerified email at columbia.edu
Belinda PhipsonSenior Researcher, Peter MacCallum Cancer CentreVerified email at petermac.org
Julie M SheridanThe Walter and Eliza Hall InstituteVerified email at wehi.edu.au
Mark J DunningUniversity of CambridgeVerified email at cruk.cam.ac.uk
Ruijie (Cynthia) LiuSt Vincent's institute of medical researchVerified email at svi.edu.au
Luyi TianWalter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Asselin-LabatThe Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Di WuAssociate Professor, Biostatistics Department, jointly with Adam Schools Dentistry at University ofVerified email at unc.edu
Monther Alhamdoosh, PhDCSL LimitedVerified email at csl.com.au
Quentin GouilThe Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Aliaksei Z HolikClarivate Analytics, Barcelona, SpainVerified email at clarivate.com
Shalin H. NaikGroup Leader, Walter + Eliza Hall InstituteVerified email at wehi.edu.au
Andy LynchUniversity of St AndrewsVerified email at st-andrews.ac.uk
Bhupinder PalLaboratory Head, Olivia Newton-John Cancer Research InstituteVerified email at onjcri.org.au

Matthew E Ritchie

The Walter and Eliza Hall Institute of Medical Research

Verified email at wehi.edu.au - Homepage

bioinformatics genomics


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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	12965	2015
A comparison of background correction methods for two-colour microarrays ME Ritchie, J Silver, A Oshlack, M Holmes, D Diyagama, A Holloway, ... Bioinformatics 23 (20), 2700-2707, 2007	1037	2007
beadarray: R classes and methods for Illumina bead-based data MJ Dunning, ML Smith, ME Ritchie, S Tavaré Bioinformatics 23 (16), 2183-2184, 2007	513	2007
Apoptotic caspases suppress mtDNA-induced STING-mediated type I IFN production MJ White, K McArthur, D Metcalf, RM Lane, JC Cambier, MJ Herold, ... Cell 159 (7), 1549-1562, 2014	460	2014
RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR CW Law, M Alhamdoosh, S Su, X Dong, L Tian, GK Smyth, ME Ritchie F1000Research 5, 2016	313	2016
Empirical array quality weights in the analysis of microarray data ME Ritchie, D Diyagama, J Neilson, R van Laar, A Dobrovic, A Holloway, ... BMC bioinformatics 7 (1), 1-16, 2006	279	2006
A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data NL Barbosa-Morais, MJ Dunning, SA Samarajiwa, JFJ Darot, ME Ritchie, ... Nucleic acids research 38 (3), e17-e17, 2010	262	2010
Targeting BCL-2 with the BH3 mimetic ABT-199 in estrogen receptor-positive breast cancer F Vaillant, D Merino, L Lee, K Breslin, B Pal, ME Ritchie, GK Smyth, ... Cancer cell 24 (1), 120-129, 2013	238	2013
Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses R Liu, AZ Holik, S Su, N Jansz, K Chen, HS Leong, ME Blewitt, ... Nucleic acids research 43 (15), e97-e97, 2015	219	2015
Opportunities and challenges in long-read sequencing data analysis SL Amarasinghe, S Su, X Dong, L Zappia, ME Ritchie, Q Gouil Genome biology 21 (1), 1-16, 2020	209	2020
Sensitization of BCL-2–expressing breast tumors to chemotherapy by the BH3 mimetic ABT-737 SR Oakes, F Vaillant, E Lim, L Lee, K Breslin, F Feleppa, S Deb, ... Proceedings of the National Academy of Sciences, 2011	183	2011
Microarray background correction: maximum likelihood estimation for the normal–exponential convolution JD Silver, ME Ritchie, GK Smyth Biostatistics 10 (2), 352-363, 2009	176	2009
Opposing roles of polycomb repressive complexes in hematopoietic stem and progenitor cells IJ Majewski, ME Ritchie, B Phipson, J Corbin, M Pakusch, A Ebert, ... Blood, The Journal of the American Society of Hematology 116 (5), 731-739, 2010	130	2010
Multidisciplinary diabetes care with and without bariatric surgery in overweight people: a randomised controlled trial JM Wentworth, J Playfair, C Laurie, ME Ritchie, WA Brown, P Burton, ... The lancet Diabetes & endocrinology 2 (7), 545-552, 2014	129	2014
Using the R package crlmm for genotyping and copy number estimation RB Scharpf, RA Irizarry, ME Ritchie, B Carvalho, I Ruczinski Journal of statistical software 40 (12), 1, 2011	129	2011
Global changes in the mammary epigenome are induced by hormonal cues and coordinated by Ezh2 B Pal, T Bouras, W Shi, F Vaillant, JM Sheridan, N Fu, K Breslin, K Jiang, ... Cell reports 3 (2), 411-426, 2013	125	2013
Statistical issues in the analysis of Illumina data MJ Dunning, NL Barbosa-Morais, AG Lynch, S Tavaré, ME Ritchie BMC bioinformatics 9 (1), 1-15, 2008	124	2008
Benchmarking single cell RNA-sequencing analysis pipelines using mixture control experiments L Tian, X Dong, S Freytag, KA Lê Cao, S Su, A JalalAbadi, ... Nature methods 16 (6), 479-487, 2019	117	2019
Integrative analysis of RUNX1 downstream pathways and target genes J Michaud, KM Simpson, R Escher, K Buchet-Poyau, T Beissbarth, ... BMC genomics 9 (1), 1-17, 2008	117	2008
High-resolution transcription atlas of the mitotic cell cycle in budding yeast MV Granovskaia, LJ Jensen, ME Ritchie, J Toedling, Y Ning, P Bork, ... Genome biology 11 (3), 1-11, 2010	111	2010

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