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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: mainzer ls. Sci Rep. 2021 Nov 4;11(1):21680. doi: 10.1038/s41598-021-99288-8. Sci Rep. 2021. PMID: 34737383 Free PMC article.
Impact of variant-level batch effects on identification of genetic risk factors in large sequencing studies.
Wickland DP, Ren Y, Sinnwell JP, Reddy JS, Pottier C, Sarangi V, Carrasquillo MM, Ross OA, Younkin SG, Ertekin-Taner N, Rademakers R, Hudson ME, Mainzer LS, Biernacka JM, Asmann YW. Wickland DP, et al. Among authors: mainzer ls. PLoS One. 2021 Apr 16;16(4):e0249305. doi: 10.1371/journal.pone.0249305. eCollection 2021. PLoS One. 2021. PMID: 33861770 Free PMC article.
Organizing and running bioinformatics hackathons within Africa: The H3ABioNet cloud computing experience.
Ahmed AE, Mpangase PT, Panji S, Baichoo S, Souilmi Y, Fadlelmola FM, Alghali M, Aron S, Bendou H, De Beste E, Mbiyavanga M, Souiai O, Yi L, Zermeno J, Armstrong D, O'Connor BD, Mainzer LS, Crusoe MR, Meintjes A, Van Heusden P, Botha G, Joubert F, Jongeneel CV, Hazelhurst S, Mulder N. Ahmed AE, et al. Among authors: mainzer ls. AAS Open Res. 2019 Aug 7;1:9. doi: 10.12688/aasopenres.12847.2. eCollection 2018. AAS Open Res. 2019. PMID: 32382696 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: mainzer ls. BMC Bioinformatics. 2019 Dec 17;20(1):722. doi: 10.1186/s12859-019-3277-4. BMC Bioinformatics. 2019. PMID: 31847808 Free PMC article.
GABAC: an arithmetic coding solution for genomic data.
Voges J, Paridaens T, Müntefering F, Mainzer LS, Bliss B, Yang M, Ochoa I, Fostier J, Ostermann J, Hernaez M. Voges J, et al. Among authors: mainzer ls. Bioinformatics. 2020 Apr 1;36(7):2275-2277. doi: 10.1093/bioinformatics/btz922. Bioinformatics. 2020. PMID: 31830243 Free PMC article.
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: mainzer ls. BMC Bioinformatics. 2019 Nov 8;20(1):557. doi: 10.1186/s12859-019-3169-7. BMC Bioinformatics. 2019. PMID: 31703611 Free PMC article.
18 results