Haynes WA - Search Results

1

EMPOWERING MULTI-COHORT GENE EXPRESSION ANALYSIS TO INCREASE REPRODUCIBILITY.

Haynes WA, Vallania F, Liu C, Bongen E, Tomczak A, Andres-Terrè M, Lofgren S, Tam A, Deisseroth CA, Li MD, Sweeney TE, Khatri P. Haynes WA, et al. Pac Symp Biocomput. 2017;22:144-153. doi: 10.1142/9789813207813_0015. Pac Symp Biocomput. 2017. PMID: 27896970 Free PMC article.

2

Methods to increase reproducibility in differential gene expression via meta-analysis.

Sweeney TE, Haynes WA, Vallania F, Ioannidis JP, Khatri P. Sweeney TE, et al. Among authors: haynes wa. Nucleic Acids Res. 2017 Jan 9;45(1):e1. doi: 10.1093/nar/gkw797. Epub 2016 Sep 14. Nucleic Acids Res. 2017. PMID: 27634930 Free PMC article.

3

Integrated, multicohort analysis reveals unified signature of systemic lupus erythematosus.

Haynes WA, Haddon DJ, Diep VK, Khatri A, Bongen E, Yiu G, Balboni I, Bolen CR, Mao R, Utz PJ, Khatri P. Haynes WA, et al. JCI Insight. 2020 Feb 27;5(4):e122312. doi: 10.1172/jci.insight.122312. JCI Insight. 2020. PMID: 31971918 Free PMC article.

4

Gene annotation bias impedes biomedical research.

Haynes WA, Tomczak A, Khatri P. Haynes WA, et al. Sci Rep. 2018 Jan 22;8(1):1362. doi: 10.1038/s41598-018-19333-x. Sci Rep. 2018. PMID: 29358745 Free PMC article.

5

Interpretation of biological experiments changes with evolution of the Gene Ontology and its annotations.

Tomczak A, Mortensen JM, Winnenburg R, Liu C, Alessi DT, Swamy V, Vallania F, Lofgren S, Haynes W, Shah NH, Musen MA, Khatri P. Tomczak A, et al. Sci Rep. 2018 Mar 23;8(1):5115. doi: 10.1038/s41598-018-23395-2. Sci Rep. 2018. PMID: 29572502 Free PMC article.

6

Leveraging heterogeneity across multiple datasets increases cell-mixture deconvolution accuracy and reduces biological and technical biases.

Vallania F, Tam A, Lofgren S, Schaffert S, Azad TD, Bongen E, Haynes W, Alsup M, Alonso M, Davis M, Engleman E, Khatri P. Vallania F, et al. Nat Commun. 2018 Nov 9;9(1):4735. doi: 10.1038/s41467-018-07242-6. Nat Commun. 2018. PMID: 30413720 Free PMC article.

7

Unsupervised Analysis of Transcriptomics in Bacterial Sepsis Across Multiple Datasets Reveals Three Robust Clusters.

Sweeney TE, Azad TD, Donato M, Haynes WA, Perumal TM, Henao R, Bermejo-Martin JF, Almansa R, Tamayo E, Howrylak JA, Choi A, Parnell GP, Tang B, Nichols M, Woods CW, Ginsburg GS, Kingsmore SF, Omberg L, Mangravite LM, Wong HR, Tsalik EL, Langley RJ, Khatri P. Sweeney TE, et al. Among authors: haynes wa. Crit Care Med. 2018 Jun;46(6):915-925. doi: 10.1097/CCM.0000000000003084. Crit Care Med. 2018. PMID: 29537985 Free PMC article.

8

Differential expression analysis for pathways.

Haynes WA, Higdon R, Stanberry L, Collins D, Kolker E. Haynes WA, et al. PLoS Comput Biol. 2013;9(3):e1002967. doi: 10.1371/journal.pcbi.1002967. Epub 2013 Mar 14. PLoS Comput Biol. 2013. PMID: 23516350 Free PMC article.

9

Development of Th17-Associated Interstitial Kidney Inflammation in Lupus-Prone Mice Lacking the Gene Encoding STAT-1.

Yiu G, Rasmussen TK, Ajami B, Haddon DJ, Chu AD, Tangsombatvisit S, Haynes WA, Diep V, Steinman L, Faix J, Utz PJ. Yiu G, et al. Among authors: haynes wa. Arthritis Rheumatol. 2016 May;68(5):1233-44. doi: 10.1002/art.39535. Arthritis Rheumatol. 2016. PMID: 26636548 Free PMC article.

10

Mining Twitter Data to Improve Detection of Schizophrenia.

McManus K, Mallory EK, Goldfeder RL, Haynes WA, Tatum JD. McManus K, et al. Among authors: haynes wa. AMIA Jt Summits Transl Sci Proc. 2015 Mar 25;2015:122-6. eCollection 2015. AMIA Jt Summits Transl Sci Proc. 2015. PMID: 26306253 Free PMC article.

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