Patro R - Search Results

1

DifferentialRegulation: a Bayesian hierarchical approach to identify differentially regulated genes.

Tiberi S, Meili J, Cai P, Soneson C, He D, Sarkar H, Avalos-Pacheco A, Patro R, Robinson MD. Tiberi S, et al. Among authors: patro r. Biostatistics. 2024 Oct 1;25(4):1079-1093. doi: 10.1093/biostatistics/kxae017. Biostatistics. 2024. PMID: 38887902 Free PMC article.

2

RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes.

Srivastava A, Sarkar H, Gupta N, Patro R. Srivastava A, et al. Among authors: patro r. Bioinformatics. 2016 Jun 15;32(12):i192-i200. doi: 10.1093/bioinformatics/btw277. Bioinformatics. 2016. PMID: 27307617 Free PMC article.

3

Quark enables semi-reference-based compression of RNA-seq data.

Sarkar H, Patro R. Sarkar H, et al. Among authors: patro r. Bioinformatics. 2017 Nov 1;33(21):3380-3386. doi: 10.1093/bioinformatics/btx428. Bioinformatics. 2017. PMID: 29077806

4

A space and time-efficient index for the compacted colored de Bruijn graph.

Almodaresi F, Sarkar H, Srivastava A, Patro R. Almodaresi F, et al. Among authors: patro r. Bioinformatics. 2018 Jul 1;34(13):i169-i177. doi: 10.1093/bioinformatics/bty292. Bioinformatics. 2018. PMID: 29949982 Free PMC article.

5

Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification.

Love MI, Soneson C, Patro R. Love MI, et al. Among authors: patro r. F1000Res. 2018 Jun 27;7:952. doi: 10.12688/f1000research.15398.3. eCollection 2018. F1000Res. 2018. PMID: 30356428 Free PMC article.

6

A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogs.

Soneson C, Love MI, Patro R, Hussain S, Malhotra D, Robinson MD. Soneson C, et al. Among authors: patro r. Life Sci Alliance. 2019 Jan 17;2(1):e201800175. doi: 10.26508/lsa.201800175. Print 2019 Feb. Life Sci Alliance. 2019. PMID: 30655364 Free PMC article.

7

Minnow: a principled framework for rapid simulation of dscRNA-seq data at the read level.

Sarkar H, Srivastava A, Patro R. Sarkar H, et al. Among authors: patro r. Bioinformatics. 2019 Jul 15;35(14):i136-i144. doi: 10.1093/bioinformatics/btz351. Bioinformatics. 2019. PMID: 31510649 Free PMC article.

8

Tximeta: Reference sequence checksums for provenance identification in RNA-seq.

Love MI, Soneson C, Hickey PF, Johnson LK, Pierce NT, Shepherd L, Morgan M, Patro R. Love MI, et al. Among authors: patro r. PLoS Comput Biol. 2020 Feb 25;16(2):e1007664. doi: 10.1371/journal.pcbi.1007664. eCollection 2020 Feb. PLoS Comput Biol. 2020. PMID: 32097405 Free PMC article.

9

Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data.

Sarkar H, Srivastava A, Bravo HC, Love MI, Patro R. Sarkar H, et al. Among authors: patro r. Bioinformatics. 2020 Jul 1;36(Suppl_1):i102-i110. doi: 10.1093/bioinformatics/btaa448. Bioinformatics. 2020. PMID: 32657377 Free PMC article.

10

A Bayesian framework for inter-cellular information sharing improves dscRNA-seq quantification.

Srivastava A, Malik L, Sarkar H, Patro R. Srivastava A, et al. Among authors: patro r. Bioinformatics. 2020 Jul 1;36(Suppl_1):i292-i299. doi: 10.1093/bioinformatics/btaa450. Bioinformatics. 2020. PMID: 32657394 Free PMC article.

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