Matthew Ritchie-Publications

Matthew Ritchie-Publications

Researcher: 

Publications

  1. Liu R, Holik AZ, Su S, Jansz N, Chen K, Leong HS, Blewitt ME, Asselin-Labat ML, Smyth GK, Ritchie ME. Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses. Nucleic Acids Res. 2015;43(15):e97. PMID: 25925576
  2. Galvis LA, Holik AZ, Short KM, Pasquet J, Lun AT, Blewitt ME, Smyth IM, Ritchie ME, Asselin-Labat ML. Repression of Igf1 expression by Ezh2 prevents basal cell differentiation in the developing lung. Development. 2015;142(8):1458-69. PMID: 25790853
  3. Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W, Smyth GK. limma powers differential expression analyses for RNA-sequencing and microarray studies.
    Nucleic Acids Res. 2015;43(7):e47. PMID: 25605792
  4. Dai Z, Sheridan JM, Gearing LJ, Moore DL, Su S, Wormald S, Wilcox S, O'Connor L, Dickins RA, Blewitt ME, Ritchie ME. edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR-Cas9 genetic screens. F1000Res. 2014;3:95. PMID: 24860646
  5. Liu R, Dai Z, Yeager M, Irizarry RA, Ritchie ME. KRLMM: an adaptive genotype calling method for common and low frequency variants. BMC Bioinformatics. 2014;15:158. PMID: 24886250.
  6. White MJ, McArthur K, Metcalf D, Lane RM, Cambier JC, Herold MJ, van Delft MF, Bedoui S, Lessene G, Ritchie ME, Huang DC, Kile BT. Apoptotic caspases suppress mtDNA-induced STING-mediated type I IFN production. Cell. 2014;159(7):1549-62. PMID: 25525874
  7. Smith ML, Baggerly KA, Bengtsson H, Ritchie ME, Hansen KD. illuminaio: An open source IDAT parsing tool for Illumina microarrays. F1000Res. 2013;2:264. PMID: 24701342.
  8. Vaillant F, Merino D, Lee L, Breslin K, Pal B, Ritchie ME, Smyth GK, Christie M, Phillipson LJ, Burns CJ, Mann GB, Visvader JE, Lindeman GJ. Targeting BCL-2 with the BH3 mimetic ABT-199 in estrogen receptor-positive breast cancer. Cancer Cell. 2013 Jul 8;24(1):120-9. PMID: 23845444.
  9. Liu R, Maia AT, Russell R, Caldas C, Ponder BA, Ritchie ME. Allele-specific expression analysis methods for high-density SNP microarray data. Bioinformatics. 2012 Apr 15;28(8):1102-8. PMID: 22355082.
  10. Ritchie ME, Carvalho BS, Hetrick KN, Tavare S, Irizarry RA. R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinformatics. 2009 Oct 1;25(19):2621-3. PMID: 19661241.