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Recommendations for performance optimizations when using GATK3.8 and GATK4.
Heldenbrand JR, Baheti S, Bockol MA, Drucker TM, Hart SN, Hudson ME, Iyer RK, Kalmbach MT, Kendig KI, Klee EW, Mattson NR, Wieben ED, Wiepert M, Wildman DE, Mainzer LS. Heldenbrand JR, et al. Among authors: hart sn. BMC Bioinformatics. 2019 Nov 8;20(1):557. doi: 10.1186/s12859-019-3169-7. BMC Bioinformatics. 2019. PMID: 31703611 Free PMC article.
Deep Sequence Analysis of Non-Small Cell Lung Cancer: Integrated Analysis of Gene Expression, Alternative Splicing, and Single Nucleotide Variations in Lung Adenocarcinomas with and without Oncogenic KRAS Mutations.
Kalari KR, Rossell D, Necela BM, Asmann YW, Nair A, Baheti S, Kachergus JM, Younkin CS, Baker T, Carr JM, Tang X, Walsh MP, Chai HS, Sun Z, Hart SN, Leontovich AA, Hossain A, Kocher JP, Perez EA, Reisman DN, Fields AP, Thompson EA. Kalari KR, et al. Among authors: hart sn. Front Oncol. 2012 Feb 10;2:12. doi: 10.3389/fonc.2012.00012. eCollection 2012. Front Oncol. 2012. PMID: 22655260 Free PMC article.
Bioinformatics for clinical next generation sequencing.
Oliver GR, Hart SN, Klee EW. Oliver GR, et al. Among authors: hart sn. Clin Chem. 2015 Jan;61(1):124-35. doi: 10.1373/clinchem.2014.224360. Epub 2014 Dec 1. Clin Chem. 2015. PMID: 25451870 Review.
Exome sequencing reveals frequent deleterious germline variants in cancer susceptibility genes in women with invasive breast cancer undergoing neoadjuvant chemotherapy.
Ellingson MS, Hart SN, Kalari KR, Suman V, Schahl KA, Dockter TJ, Felten SJ, Sinnwell JP, Thompson KJ, Tang X, Vedell PT, Barman P, Sicotte H, Eckel-Passow JE, Northfelt DW, Gray RJ, McLaughlin SA, Moreno-Aspitia A, Ingle JN, Moyer AM, Visscher DW, Jones K, Conners A, McDonough M, Wieben ED, Wang L, Weinshilboum R, Boughey JC, Goetz MP. Ellingson MS, et al. Among authors: hart sn. Breast Cancer Res Treat. 2015 Sep;153(2):435-43. doi: 10.1007/s10549-015-3545-6. Epub 2015 Aug 22. Breast Cancer Res Treat. 2015. PMID: 26296701 Free PMC article.
Sentieon DNASeq Variant Calling Workflow Demonstrates Strong Computational Performance and Accuracy.
Kendig KI, Baheti S, Bockol MA, Drucker TM, Hart SN, Heldenbrand JR, Hernaez M, Hudson ME, Kalmbach MT, Klee EW, Mattson NR, Ross CA, Taschuk M, Wieben ED, Wiepert M, Wildman DE, Mainzer LS. Kendig KI, et al. Among authors: hart sn. Front Genet. 2019 Aug 20;10:736. doi: 10.3389/fgene.2019.00736. eCollection 2019. Front Genet. 2019. PMID: 31481971 Free PMC article.
Correction to: Recommendations for performance optimizations when using GATK3.8 and GATK4.
Heldenbrand JR, Baheti S, Bockol MA, Drucker TM, Hart SN, Hudson ME, Iyer RK, Kalmbach MT, Kendig KI, Klee EW, Mattson NR, Wieben ED, Wiepert M, Wildman DE, Mainzer LS. Heldenbrand JR, et al. Among authors: hart sn. BMC Bioinformatics. 2019 Dec 17;20(1):722. doi: 10.1186/s12859-019-3277-4. BMC Bioinformatics. 2019. PMID: 31847808 Free PMC article.
Design considerations for workflow management systems use in production genomics research and the clinic.
Ahmed AE, Allen JM, Bhat T, Burra P, Fliege CE, Hart SN, Heldenbrand JR, Hudson ME, Istanto DD, Kalmbach MT, Kapraun GD, Kendig KI, Kendzior MC, Klee EW, Mattson N, Ross CA, Sharif SM, Venkatakrishnan R, Fadlelmola FM, Mainzer LS. Ahmed AE, et al. Among authors: hart sn. Sci Rep. 2021 Nov 4;11(1):21680. doi: 10.1038/s41598-021-99288-8. Sci Rep. 2021. PMID: 34737383 Free PMC article.
141 results