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, Monash Biomedicine Discovery Institute, Monash UniversityVerified email at monash.edu
Blewitt ME, Blewitt M, Champ MELaboratory head, Walter and Eliza Hall InstituteVerified email at wehi.edu.au
Quentin GouilThe Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Xueyi DongWalter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Luyi TianGuangzhou LaboratoryVerified email at gzlab.ac.cn
Belinda PhipsonLaboratory Head, The Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Di WuAssociate Professor, Biostatistics Department, jointly with Adams Schools Dentistry at University ofVerified email at unc.edu
Simon TavaréColumbia UniversityVerified email at columbia.edu
Julie M SheridanThe Walter and Eliza Hall InstituteVerified email at wehi.edu.au
Ruijie (Cynthia) LiuSt Vincent's institute of medical researchVerified email at svi.edu.au
Monther Alhamdoosh, PhDCSL LimitedVerified email at csl.com.au
Asselin-LabatThe Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
David CS HuangThe Walter and Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Natasha JanszThe Peter Doherty Institute for Infection and Immunity, The University of MelbourneVerified email at mater.uq.edu.au
Peter HickeySenior Research Officer, Advanced Technology and Biology Division, WEHIVerified email at wehi.edu.au
Mark J DunningUniversity of SheffieldVerified email at sheffield.ac.uk
Aliaksei Z HolikClarivate Analytics, Barcelona, SpainVerified email at clarivate.com

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	30521	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), 30, 2020	1371	2020
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	1140	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	868	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	777	2016
beadarray: R classes and methods for Illumina bead-based data MJ Dunning, ML Smith, ME Ritchie, S Tavaré Bioinformatics 23 (16), 2183-2184, 2007	580	2007
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	497	2015
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, 1-16, 2006	326	2006
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	309	2013
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	297	2019
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	287	2010
Microarray background correction: maximum likelihood estimation for the normal–exponential convolution JD Silver, ME Ritchie, GK Smyth Biostatistics 10 (2), 352-363, 2009	237	2009
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	225	2011
Synergy between the KEAP1/NRF2 and PI3K pathways drives non-small-cell lung cancer with an altered immune microenvironment SA Best, DP De Souza, A Kersbergen, AN Policheni, S Dayalan, D Tull, ... Cell metabolism 27 (4), 935-943. e4, 2018	194	2018
Combining multiple tools outperforms individual methods in gene set enrichment analyses M Alhamdoosh, M Ng, NJ Wilson, JM Sheridan, H Huynh, MJ Wilson, ... Bioinformatics 33 (3), 414-424, 2017	186	2017
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	181	2014
Glimma: interactive graphics for gene expression analysis S Su, CW Law, C Ah-Cann, ML Asselin-Labat, ME Blewitt, ME Ritchie Bioinformatics 33 (13), 2050-2052, 2017	173	2017
The neuropeptide VIP confers anticipatory mucosal immunity by regulating ILC3 activity C Seillet, K Luong, J Tellier, N Jacquelot, RD Shen, P Hickey, VC Wimmer, ... Nature immunology 21 (2), 168-177, 2020	167	2020
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	160	2010
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	155	2013

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