Yang JYH - Search Results

1

A field guide to cultivating computational biology.

Way GP, Greene CS, Carninci P, Carvalho BS, de Hoon M, Finley SD, Gosline SJC, Lȇ Cao KA, Lee JSH, Marchionni L, Robine N, Sindi SS, Theis FJ, Yang JYH, Carpenter AE, Fertig EJ. Way GP, et al. Among authors: yang jyh. PLoS Biol. 2021 Oct 7;19(10):e3001419. doi: 10.1371/journal.pbio.3001419. eCollection 2021 Oct. PLoS Biol. 2021. PMID: 34618807 Free PMC article.

2

Computational approaches for direct cell reprogramming: from the bulk omics era to the single cell era.

Tran A, Yang P, Yang JYH, Ormerod J. Tran A, et al. Among authors: yang jyh, yang p. Brief Funct Genomics. 2022 Jul 27;21(4):270-279. doi: 10.1093/bfgp/elac008. Brief Funct Genomics. 2022. PMID: 35411370 Free PMC article.

3

bcGST-an interactive bias-correction method to identify over-represented gene-sets in boutique arrays.

Wang KYX, Menzies AM, Silva IP, Wilmott JS, Yan Y, Wongchenko M, Kefford RF, Scolyer RA, Long GV, Tarr G, Mueller S, Yang JYH. Wang KYX, et al. Among authors: yang jyh. Bioinformatics. 2019 Apr 15;35(8):1350-1357. doi: 10.1093/bioinformatics/bty783. Bioinformatics. 2019. PMID: 30215668

4

ClassifyR: an R package for performance assessment of classification with applications to transcriptomics.

Strbenac D, Mann GJ, Ormerod JT, Yang JY. Strbenac D, et al. Bioinformatics. 2015 Jun 1;31(11):1851-3. doi: 10.1093/bioinformatics/btv066. Epub 2015 Feb 1. Bioinformatics. 2015. PMID: 25644269

5

Inferring data-specific micro-RNA function through the joint ranking of micro-RNA and pathways from matched micro-RNA and gene expression data.

Patrick E, Buckley M, Müller S, Lin DM, Yang JY. Patrick E, et al. Bioinformatics. 2015 Sep 1;31(17):2822-8. doi: 10.1093/bioinformatics/btv220. Epub 2015 Apr 24. Bioinformatics. 2015. PMID: 25910695 Free PMC article.

6

DCARS: differential correlation across ranked samples.

Ghazanfar S, Strbenac D, Ormerod JT, Yang JYH, Patrick E. Ghazanfar S, et al. Among authors: yang jyh. Bioinformatics. 2019 Mar 1;35(5):823-829. doi: 10.1093/bioinformatics/bty698. Bioinformatics. 2019. PMID: 30102408

7

scREMOTE: Using multimodal single cell data to predict regulatory gene relationships and to build a computational cell reprogramming model.

Tran A, Yang P, Yang JYH, Ormerod JT. Tran A, et al. Among authors: yang jyh, yang p. NAR Genom Bioinform. 2022 Mar 15;4(1):lqac023. doi: 10.1093/nargab/lqac023. eCollection 2022 Mar. NAR Genom Bioinform. 2022. PMID: 35300460 Free PMC article.

8

Scalable workflow for characterization of cell-cell communication in COVID-19 patients.

Lin Y, Loo L, Tran A, Lin DM, Moreno C, Hesselson D, Neely GG, Yang JYH. Lin Y, et al. Among authors: yang jyh. PLoS Comput Biol. 2022 Oct 5;18(10):e1010495. doi: 10.1371/journal.pcbi.1010495. eCollection 2022 Oct. PLoS Comput Biol. 2022. PMID: 36197936 Free PMC article.

9

Thinking process templates for constructing data stories with SCDNEY.

Cao Y, Tran A, Kim H, Robertson N, Lin Y, Torkel M, Yang P, Patrick E, Ghazanfar S, Yang J. Cao Y, et al. F1000Res. 2023 Dec 15;12:261. doi: 10.12688/f1000research.130623.1. eCollection 2023. F1000Res. 2023. PMID: 38434622 Free PMC article.

10

Genome-wide analysis in Drosophila reveals diet-by-gene interactions and uncovers diet-responsive genes.

Francis D, Ghazanfar S, Havula E, Krycer JR, Strbenac D, Senior A, Minard AY, Geddes T, Nelson ME, Weiss F, Stöckli J, Yang JYH, James DE. Francis D, et al. Among authors: yang jyh. G3 (Bethesda). 2021 Sep 27;11(10):jkab171. doi: 10.1093/g3journal/jkab171. G3 (Bethesda). 2021. PMID: 34568906 Free PMC article.

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