H3ABioNet, a sustainable pan-African bioinformatics network for human heredity and health in Africa

被引:79
作者
Mulder, Nicola J. [1 ]
Adebiyi, Ezekiel [2 ,3 ]
Alami, Raouf [4 ]
Benkahla, Alia [5 ]
Brandful, James [6 ]
Doumbia, Seydou [7 ]
Everett, Dean [8 ,9 ]
Fadlelmola, Faisal M. [10 ]
Gaboun, Fatima [11 ]
Gaseitsiwe, Simani [12 ]
Ghazal, Hassan [13 ]
Hazelhurst, Scott [14 ]
Hide, Winston [15 ,16 ]
Ibrahimi, Azeddine [17 ]
Fakim, Yasmina Jaufeerally [18 ]
Jongeneel, C. Victor [19 ,20 ]
Joubert, Fourie [21 ]
Kassim, Samar [22 ]
Kayondo, Jonathan [23 ]
Kumuthini, Judit [24 ]
Lyantagaye, Sylvester [25 ]
Makani, Julie [26 ]
Alzohairy, Ahmed Mansour [27 ]
Masiga, Daniel [28 ]
Moussa, Ahmed [29 ]
Nash, Oyekanmi [30 ]
Oukem-Boyer, Odile Ouwe Missi [31 ]
Owusu-Dabo, Ellis [32 ]
Panji, Sumir [1 ]
Patterton, Hugh [33 ]
Radouani, Fouzia [34 ]
Sadki, Khalid [35 ]
Seghrouchni, Fouad [36 ]
Bishop, Ozlem Tastan [37 ]
Tiffin, Nicki [38 ]
Ulenga, Nzovu [39 ]
机构
[1] Univ Cape Town, Dept Integrat Biomed Sci, Inst Infect Dis & Mol Med, Computat Biol Grp,Fac Hlth Sci, ZA-7925 Cape Town, South Africa
[2] Covenant Univ, Bioinformat Res CUBRe, PMB 1023, Ota, Ogun State, Nigeria
[3] Covenant Univ, Dept Comp & Informat Sci, PMB 1023, Ota, Ogun State, Nigeria
[4] Ctr Natl Transfus Sanguine, Rabat 10100, Morocco
[5] Inst Pasteur Tunis, Tunis 1002, Tunisia
[6] Univ Ghana, Noguchi Mem Inst Med Res, Accra, Ghana
[7] Univ Sci Tech & Technol Bamako, Bamako 3206, Mali
[8] Malawi Liverpool Wellcome Trust, Clin Res Program, Blantyre, Malawi
[9] Univ Liverpool, Inst Infect & Global Hlth, Liverpool L69 3BX, Merseyside, England
[10] Future Univ Sudan, Univ Khartoum, Fac Sci, Ctr Bioinformat & Syst Biol, Khartoum 11115, Sudan
[11] Inst Natl Rech Agronom, Rabat 10000, Morocco
[12] Botswana Harvard AIDS Inst Partnership, Gaborone, Botswana
[13] Univ Mohammed First, Oujda 60000, Morocco
[14] Univ Witwatersrand, Sydney Brenner Inst Mol Biosci, ZA-2193 Johannesburg, South Africa
[15] Harvard TH Chan Sch Publ Hlth, Boston, MA 02115 USA
[16] Univ Sheffield, Sheffield Inst Translat Neurosci, Dept Neurosci, Sheffield S10 2HQ, S Yorkshire, England
[17] Univ Mohammed V Souissi, Fac Med & Pharm Rabat, Rabat 10100, Morocco
[18] Univ Mauritius, Reduit 80837, Mauritius
[19] Univ Illinois, Natl Ctr Supercomp Applicat, Urbana, IL 61801 USA
[20] Univ Illinois, Inst Genom Biol, Urbana, IL 61801 USA
[21] Univ Pretoria, Dept Biochem, ZA-0083 Pretoria, South Africa
[22] Ain Shams Univ, Med Biochem & Mol Biol Dept, Fac Med, Cairo 11566, Egypt
[23] Uganda Virus Res Inst, Entebbe 31301, Uganda
[24] Ctr Prote & Genom Res, ZA-7925 Cape Town, South Africa
[25] Univ Dar Es Salaam, Dar Es Salaam 73, Tanzania
[26] Muhimbili Univ Hlth & Allied Sci, Dar Es Salaam 00255, Tanzania
[27] Zagazig Univ, Dept Genet, Fac Agr, Sharkia 44519, Egypt
[28] Int Ctr Insect Physiol & Ecol, Nairobi 00100, Kenya
[29] Abdelmalek Essaadi Univ, ENSA, Tangier 90000, Morocco
[30] Natl Biotechnol Dev Agcy, Abuja 10099, Nigeria
[31] Ctr Rech Med & Sanitaire, BP 10887, Niamey, Niger
[32] Kwame Nkrumah Univ Sci & Technol, Kumasi Ctr Collaborat Res Trop Med, Kumasi, Ghana
[33] Univ Free State, ZA-9300 Bloemfontein, South Africa
[34] Inst Pasteur Maroc, Casablanca 20360, Maroc, Morocco
[35] Univ Mohammed V Rabat, Fac Sci Rabat, Rabat 10000, Morocco
[36] Inst Natl Hyg, Rabat 10090, Morocco
[37] Rhodes Univ, Res Unit Bioinformat, Dept Biochem & Microbiol, ZA-6140 Grahamstown, South Africa
[38] Univ Western Cape, South African Natl Bioinformat Inst, Med Res Council, South Africa Bioinformat Unit, ZA-7530 Cape Town, South Africa
[39] Management & Dev Hlth, Dar Es Salaam 61, Tanzania
基金
美国国家卫生研究院;
关键词
GENOME-WIDE ASSOCIATION; DISEASE; SUSCEPTIBILITY; TUBERCULOSIS; ANCESTRY;
D O I
10.1101/gr.196295.115
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The application of genomics technologies to medicine and biomedical research is increasing in popularity, made possible by new high-throughput genotyping and sequencing technologies and improved data analysis capabilities. Some of the greatest genetic diversity among humans, animals, plants, and microbiota occurs in Africa, yet genomic research outputs from the continent are limited. The Human Heredity and Health in Africa (H3Africa) initiative was established to drive the development of genomic research for human health in Africa, and through recognition of the critical role of bioinformatics in this process, spurred the establishment of H3ABioNet, a pan-African bioinformatics network for H3Africa. The limitations in bioinformatics capacity on the continent have been a major contributory factor to the lack of notable outputs in high-throughput biology research. Although pockets of high-quality bioinformatics teams have existed previously, the majority of research institutions lack experienced faculty who can train and supervise bioinformatics students. H3ABioNet aims to address this dire need, specifically in the area of human genetics and genomics, but knock-on effects are ensuring this extends to other areas of bioinformatics. Here, we describe the emergence of genomics research and the development of bioinformatics in Africa through H3ABioNet.
引用
收藏
页码:271 / 277
页数:7
相关论文
共 26 条
  • [1] A map of human genome variation from population-scale sequencing
    Altshuler, David
    Durbin, Richard M.
    Abecasis, Goncalo R.
    Bentley, David R.
    Chakravarti, Aravinda
    Clark, Andrew G.
    Collins, Francis S.
    De la Vega, Francisco M.
    Donnelly, Peter
    Egholm, Michael
    Flicek, Paul
    Gabriel, Stacey B.
    Gibbs, Richard A.
    Knoppers, Bartha M.
    Lander, Eric S.
    Lehrach, Hans
    Mardis, Elaine R.
    McVean, Gil A.
    Nickerson, DebbieA.
    Peltonen, Leena
    Schafer, Alan J.
    Sherry, Stephen T.
    Wang, Jun
    Wilson, Richard K.
    Gibbs, Richard A.
    Deiros, David
    Metzker, Mike
    Muzny, Donna
    Reid, Jeff
    Wheeler, David
    Wang, Jun
    Li, Jingxiang
    Jian, Min
    Li, Guoqing
    Li, Ruiqiang
    Liang, Huiqing
    Tian, Geng
    Wang, Bo
    Wang, Jian
    Wang, Wei
    Yang, Huanming
    Zhang, Xiuqing
    Zheng, Huisong
    Lander, Eric S.
    Altshuler, David L.
    Ambrogio, Lauren
    Bloom, Toby
    Cibulskis, Kristian
    Fennell, Tim J.
    Gabriel, Stacey B.
    [J]. NATURE, 2010, 467 (7319) : 1061 - 1073
  • [2] GOBLET: The Global Organisation for Bioinformatics Learning, Education and Training
    Atwood, Teresa K.
    Bongcam-Rudloff, Erik
    Brazas, Michelle E.
    Corpas, Manuel
    Gaudet, Pascale
    Lewitter, Fran
    Mulder, Nicola
    Palagi, Patricia M.
    Schneider, Maria Victoria
    van Gelder, Celia W. G.
    [J]. PLOS COMPUTATIONAL BIOLOGY, 2015, 11 (04)
  • [3] Accurate whole human genome sequencing using reversible terminator chemistry
    Bentley, David R.
    Balasubramanian, Shankar
    Swerdlow, Harold P.
    Smith, Geoffrey P.
    Milton, John
    Brown, Clive G.
    Hall, Kevin P.
    Evers, Dirk J.
    Barnes, Colin L.
    Bignell, Helen R.
    Boutell, Jonathan M.
    Bryant, Jason
    Carter, Richard J.
    Cheetham, R. Keira
    Cox, Anthony J.
    Ellis, Darren J.
    Flatbush, Michael R.
    Gormley, Niall A.
    Humphray, Sean J.
    Irving, Leslie J.
    Karbelashvili, Mirian S.
    Kirk, Scott M.
    Li, Heng
    Liu, Xiaohai
    Maisinger, Klaus S.
    Murray, Lisa J.
    Obradovic, Bojan
    Ost, Tobias
    Parkinson, Michael L.
    Pratt, Mark R.
    Rasolonjatovo, Isabelle M. J.
    Reed, Mark T.
    Rigatti, Roberto
    Rodighiero, Chiara
    Ross, Mark T.
    Sabot, Andrea
    Sankar, Subramanian V.
    Scally, Aylwyn
    Schroth, Gary P.
    Smith, Mark E.
    Smith, Vincent P.
    Spiridou, Anastassia
    Torrance, Peta E.
    Tzonev, Svilen S.
    Vermaas, Eric H.
    Walter, Klaudia
    Wu, Xiaolin
    Zhang, Lu
    Alam, Mohammed D.
    Anastasi, Carole
    [J]. NATURE, 2008, 456 (7218) : 53 - 59
  • [4] Bioinformatics Education-Perspectives and Challenges out of Africa
    Bishop, Ozlem Tastan
    Adebiyi, Ezekiel F.
    Alzohairy, Ahmed M.
    Everett, Dean
    Ghedira, Kais
    Ghouila, Amel
    Kumuthini, Judit
    Mulder, Nicola J.
    Panji, Sumir
    Patterton, Hugh-G.
    [J]. BRIEFINGS IN BIOINFORMATICS, 2015, 16 (02) : 355 - 364
  • [5] JMS: An Open Source Workflow Management System and Web-Based Cluster Front-End for High Performance Computing
    Brown, David K.
    Penkler, David L.
    Musyoka, Thommas M.
    Bishop, Ozlem Tastan
    [J]. PLOS ONE, 2015, 10 (08):
  • [6] Genomics for the world
    Bustamante, Carlos D.
    Burchard, Esteban Gonzalez
    De La Vega, Francisco M.
    [J]. NATURE, 2011, 475 (7355) : 163 - 165
  • [7] Genome-wide association study of ancestry-specific TB risk in the South African Coloured population
    Chimusa, Emile R.
    Zaitlen, Noah
    Daya, Michelle
    Moeller, Marlo
    van Helden, Paul D.
    Mulder, Nicola J.
    Price, Alkes L.
    Hoal, Eileen G.
    [J]. HUMAN MOLECULAR GENETICS, 2014, 23 (03) : 796 - 809
  • [8] PAPER Genomic sovereignty and the African promise: mining the African genome for the benefit of Africa
    de Vries, Jantina
    Pepper, Michael
    [J]. JOURNAL OF MEDICAL ETHICS, 2012, 38 (08) : 474 - 478
  • [9] An autosomal dominant major gene confers predisposition to pulmonary tuberculosis in adults
    El Baghdadi, Jamila
    Orlova, Marianna
    Alter, Andrea
    Ranque, Brigitte
    Chentoufi, Mohamed
    Lazrak, Faouzia
    Archane, Moulay Idriss
    Casanova, Jean-Laurent
    Benslimane, Abdellah
    Schurr, Erwin
    Abel, Laurent
    [J]. JOURNAL OF EXPERIMENTAL MEDICINE, 2006, 203 (07) : 1679 - 1684