Patro R - Search Results

1

Airpart: interpretable statistical models for analyzing allelic imbalance in single-cell datasets.

Mu W, Sarkar H, Srivastava A, Choi K, Patro R, Love MI. Mu W, et al. Among authors: patro r. Bioinformatics. 2022 May 13;38(10):2773-2780. doi: 10.1093/bioinformatics/btac212. Bioinformatics. 2022. PMID: 35561168 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

Salmon provides fast and bias-aware quantification of transcript expression.

Patro R, Duggal G, Love MI, Irizarry RA, Kingsford C. Patro R, et al. Nat Methods. 2017 Apr;14(4):417-419. doi: 10.1038/nmeth.4197. Epub 2017 Mar 6. Nat Methods. 2017. PMID: 28263959 Free PMC article.

4

Improved data-driven likelihood factorizations for transcript abundance estimation.

Zakeri M, Srivastava A, Almodaresi F, Patro R. Zakeri M, et al. Among authors: patro r. Bioinformatics. 2017 Jul 15;33(14):i142-i151. doi: 10.1093/bioinformatics/btx262. Bioinformatics. 2017. PMID: 28881996 Free PMC article.

5

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

6

Grouper: graph-based clustering and annotation for improved de novo transcriptome analysis.

Malik L, Almodaresi F, Patro R. Malik L, et al. Among authors: patro r. Bioinformatics. 2018 Oct 1;34(19):3265-3272. doi: 10.1093/bioinformatics/bty378. Bioinformatics. 2018. PMID: 29746620

7

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.

8

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.

9

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.

10

Alevin efficiently estimates accurate gene abundances from dscRNA-seq data.

Srivastava A, Malik L, Smith T, Sudbery I, Patro R. Srivastava A, et al. Among authors: patro r. Genome Biol. 2019 Mar 27;20(1):65. doi: 10.1186/s13059-019-1670-y. Genome Biol. 2019. PMID: 30917859 Free PMC article.

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