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High-depth African genomes inform human migration and health.
Choudhury A, Aron S, Botigué LR, Sengupta D, Botha G, Bensellak T, Wells G, Kumuthini J, Shriner D, Fakim YJ, Ghoorah AW, Dareng E, Odia T, Falola O, Adebiyi E, Hazelhurst S, Mazandu G, Nyangiri OA, Mbiyavanga M, Benkahla A, Kassim SK, Mulder N, Adebamowo SN, Chimusa ER, Muzny D, Metcalf G, Gibbs RA; TrypanoGEN Research Group; Rotimi C, Ramsay M; H3Africa Consortium; Adeyemo AA, Lombard Z, Hanchard NA. Choudhury A, et al. Among authors: botha g. Nature. 2020 Oct;586(7831):741-748. doi: 10.1038/s41586-020-2859-7. Epub 2020 Oct 28. Nature. 2020. PMID: 33116287 Free PMC article.
H3ABioNet, a sustainable pan-African bioinformatics network for human heredity and health in Africa.
Mulder NJ, Adebiyi E, Alami R, Benkahla A, Brandful J, Doumbia S, Everett D, Fadlelmola FM, Gaboun F, Gaseitsiwe S, Ghazal H, Hazelhurst S, Hide W, Ibrahimi A, Jaufeerally Fakim Y, Jongeneel CV, Joubert F, Kassim S, Kayondo J, Kumuthini J, Lyantagaye S, Makani J, Mansour Alzohairy A, Masiga D, Moussa A, Nash O, Ouwe Missi Oukem-Boyer O, Owusu-Dabo E, Panji S, Patterton H, Radouani F, Sadki K, Seghrouchni F, Tastan Bishop Ö, Tiffin N, Ulenga N; H3ABioNet Consortium. Mulder NJ, et al. Genome Res. 2016 Feb;26(2):271-7. doi: 10.1101/gr.196295.115. Epub 2015 Dec 1. Genome Res. 2016. PMID: 26627985 Free PMC article.
Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network.
Jongeneel CV, Achinike-Oduaran O, Adebiyi E, Adebiyi M, Adeyemi S, Akanle B, Aron S, Ashano E, Bendou H, Botha G, Chimusa E, Choudhury A, Donthu R, Drnevich J, Falola O, Fields CJ, Hazelhurst S, Hendry L, Isewon I, Khetani RS, Kumuthini J, Kimuda MP, Magosi L, Mainzer LS, Maslamoney S, Mbiyavanga M, Meintjes A, Mugutso D, Mpangase P, Munthali R, Nembaware V, Ndhlovu A, Odia T, Okafor A, Oladipo O, Panji S, Pillay V, Rendon G, Sengupta D, Mulder N. Jongeneel CV, et al. Among authors: botha g. PLoS Comput Biol. 2017 Jun 1;13(6):e1005419. doi: 10.1371/journal.pcbi.1005419. eCollection 2017 Jun. PLoS Comput Biol. 2017. PMID: 28570565 Free PMC article.
Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans.
Choudhury A, Ramsay M, Hazelhurst S, Aron S, Bardien S, Botha G, Chimusa ER, Christoffels A, Gamieldien J, Sefid-Dashti MJ, Joubert F, Meintjes A, Mulder N, Ramesar R, Rees J, Scholtz K, Sengupta D, Soodyall H, Venter P, Warnich L, Pepper MS. Choudhury A, et al. Among authors: botha g. Nat Commun. 2017 Dec 12;8(1):2062. doi: 10.1038/s41467-017-00663-9. Nat Commun. 2017. PMID: 29233967 Free PMC article.
Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.
Baichoo S, Souilmi Y, Panji S, Botha G, Meintjes A, Hazelhurst S, Bendou H, Beste E, Mpangase PT, Souiai O, Alghali M, Yi L, O'Connor BD, Crusoe M, Armstrong D, Aron S, Joubert F, Ahmed AE, Mbiyavanga M, Heusden PV, Magosi LE, Zermeno J, Mainzer LS, Fadlelmola FM, Jongeneel CV, Mulder N. Baichoo S, et al. Among authors: botha g. BMC Bioinformatics. 2018 Nov 29;19(1):457. doi: 10.1186/s12859-018-2446-1. BMC Bioinformatics. 2018. PMID: 30486782 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: botha g. 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.
G6PD variant distribution in sub-Saharan Africa and potential risks of using chloroquine/hydroxychloroquine based treatments for COVID-19.
da Rocha J, Othman H, Tiemessen CT, Botha G, Ramsay M, Masimirembwa C, Adebamowo C, Choudhury A, Brandenburg JT, Matshaba M, Simo G, Gamo FJ, Hazelhurst S; H3Africa Consortium. da Rocha J, et al. Among authors: botha g. medRxiv [Preprint]. 2020 Jun 2:2020.05.27.20114066. doi: 10.1101/2020.05.27.20114066. medRxiv. 2020. PMID: 32577690 Free PMC article. Updated. Preprint.
Using a multiple-delivery-mode training approach to develop local capacity and infrastructure for advanced bioinformatics in Africa.
Ras V, Botha G, Aron S, Lennard K, Allali I, Claassen-Weitz S, Mwaikono KS, Kennedy D, Holmes JR, Rendon G, Panji S, Fields CJ, Mulder N. Ras V, et al. Among authors: botha g. PLoS Comput Biol. 2021 Feb 25;17(2):e1008640. doi: 10.1371/journal.pcbi.1008640. eCollection 2021 Feb. PLoS Comput Biol. 2021. PMID: 33630830 Free PMC article.
Unmapped exome reads implicate a role for Anelloviridae in childhood HIV-1 long-term non-progression.
Mwesigwa S, Williams L, Retshabile G, Katagirya E, Mboowa G, Mlotshwa B, Kyobe S, Kateete DP, Wampande EM, Wayengera M, Mpoloka SW, Mirembe AN, Kasvosve I, Morapedi K, Kisitu GP, Kekitiinwa AR, Anabwani G, Joloba ML, Matovu E, Mulindwa J, Noyes H, Botha G; Collaborative African Genomics Network (CAfGEN); TrypanoGEN Research Group; Brown CW, Mardon G, Matshaba M, Hanchard NA. Mwesigwa S, et al. Among authors: botha g. NPJ Genom Med. 2021 Mar 19;6(1):24. doi: 10.1038/s41525-021-00185-w. NPJ Genom Med. 2021. PMID: 33741997 Free PMC article.
Author Correction: High-depth African genomes inform human migration and health.
Choudhury A, Aron S, Botigué LR, Sengupta D, Botha G, Bensellak T, Wells G, Kumuthini J, Shriner D, Fakim YJ, Ghoorah AW, Dareng E, Odia T, Falola O, Adebiyi E, Hazelhurst S, Mazandu G, Nyangiri OA, Mbiyavanga M, Benkahla A, Kassim SK, Mulder N, Adebamowo SN, Chimusa ER, Muzny D, Metcalf G, Gibbs RA; TrypanoGEN Research Group; Rotimi C, Ramsay M; H3Africa Consortium; Adeyemo AA, Lombard Z, Hanchard NA. Choudhury A, et al. Among authors: botha g. Nature. 2021 Apr;592(7856):E26. doi: 10.1038/s41586-021-03286-9. Nature. 2021. PMID: 33846614 Free PMC article. No abstract available.
41 results