Ritchie ME - Search Results

1

Identification and control for the effects of bioinformatic globin depletion on human RNA-seq differential expression analysis.

Sheerin D, Lakay F, Esmail H, Kinnear C, Sansom B, Glanzmann B, Wilkinson RJ, Ritchie ME, Coussens AK. Sheerin D, et al. Among authors: ritchie me. Sci Rep. 2023 Feb 1;13(1):1859. doi: 10.1038/s41598-023-28218-7. Sci Rep. 2023. PMID: 36725870 Free PMC article.

2

limma powers differential expression analyses for RNA-sequencing and microarray studies.

Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W, Smyth GK. Ritchie ME, et al. Nucleic Acids Res. 2015 Apr 20;43(7):e47. doi: 10.1093/nar/gkv007. Epub 2015 Jan 20. Nucleic Acids Res. 2015. PMID: 25605792 Free PMC article.

3

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

Liu R, Holik AZ, Su S, Jansz N, Chen K, Leong HS, Blewitt ME, Asselin-Labat ML, Smyth GK, Ritchie ME. Liu R, et al. Among authors: ritchie me. Nucleic Acids Res. 2015 Sep 3;43(15):e97. doi: 10.1093/nar/gkv412. Epub 2015 Apr 29. Nucleic Acids Res. 2015. PMID: 25925576 Free PMC article.

4

CellBench: R/Bioconductor software for comparing single-cell RNA-seq analysis methods.

Su S, Tian L, Dong X, Hickey PF, Freytag S, Ritchie ME. Su S, et al. Among authors: ritchie me. Bioinformatics. 2020 Apr 1;36(7):2288-2290. doi: 10.1093/bioinformatics/btz889. Bioinformatics. 2020. PMID: 31778143 Free PMC article.

5

Benchmarking UMI-based single-cell RNA-seq preprocessing workflows.

You Y, Tian L, Su S, Dong X, Jabbari JS, Hickey PF, Ritchie ME. You Y, et al. Among authors: ritchie me. Genome Biol. 2021 Dec 14;22(1):339. doi: 10.1186/s13059-021-02552-3. Genome Biol. 2021. PMID: 34906205 Free PMC article.

6

Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data.

You Y, Dong X, Wee YK, Maxwell MJ, Alhamdoosh M, Smyth GK, Hickey PF, Ritchie ME, Law CW. You Y, et al. Among authors: ritchie me. Genome Biol. 2023 May 5;24(1):107. doi: 10.1186/s13059-023-02949-2. Genome Biol. 2023. PMID: 37147723 Free PMC article.

7

Empirical array quality weights in the analysis of microarray data.

Ritchie ME, Diyagama D, Neilson J, van Laar R, Dobrovic A, Holloway A, Smyth GK. Ritchie ME, et al. BMC Bioinformatics. 2006 May 19;7:261. doi: 10.1186/1471-2105-7-261. BMC Bioinformatics. 2006. PMID: 16712727 Free PMC article.

8

BeadArray expression analysis using bioconductor.

Ritchie ME, Dunning MJ, Smith ML, Shi W, Lynch AG. Ritchie ME, et al. PLoS Comput Biol. 2011 Dec;7(12):e1002276. doi: 10.1371/journal.pcbi.1002276. Epub 2011 Dec 1. PLoS Comput Biol. 2011. PMID: 22144879 Free PMC article.

9

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

Holik AZ, Law CW, Liu R, Wang Z, Wang W, Ahn J, Asselin-Labat ML, Smyth GK, Ritchie ME. Holik AZ, et al. Among authors: ritchie me. Nucleic Acids Res. 2017 Mar 17;45(5):e30. doi: 10.1093/nar/gkw1063. Nucleic Acids Res. 2017. PMID: 27899618 Free PMC article.

10

Glimma: interactive graphics for gene expression analysis.

Su S, Law CW, Ah-Cann C, Asselin-Labat ML, Blewitt ME, Ritchie ME. Su S, et al. Among authors: ritchie me. Bioinformatics. 2017 Jul 1;33(13):2050-2052. doi: 10.1093/bioinformatics/btx094. Bioinformatics. 2017. PMID: 28203714 Free PMC article.

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