Matthew E Ritchie
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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
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
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
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
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
beadarray: R classes and methods for Illumina bead-based data
MJ Dunning, ML Smith, ME Ritchie, S Tavaré
Bioinformatics 23 (16), 2183-2184, 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
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
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
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
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
Microarray background correction: maximum likelihood estimation for the normal–exponential convolution
JD Silver, ME Ritchie, GK Smyth
Biostatistics 10 (2), 352-363, 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
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
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
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
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
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
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
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
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