The Collaborative African Genomics Network (CAfGEN): Applying Genomic technologies to probe host factors important to the progression of HIV and HIV-tuberculosis infection in sub-Saharan Africa.
The Collaborative African Genomics Network (CAfGEN): Applying Genomic technologies to probe host factors important to the progression of HIV and HIV-tuberculosis infection in sub-Saharan Africa.
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DOI：
10.12688/aasopenres.12832.2
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发表时间：
2018-01-01
影响因子：
--
通讯作者：
Matshaba, Mogomotsi
中科院分区：
文献类型：
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作者：
Mboowa, Gerald;Mwesigwa, Savannah;Matshaba, Mogomotsi
背景：在这里，我们描述了非洲人类遗传与健康 (H3Africa) 联盟的非洲基因组学合作网络 (CAfGEN) 如何利用基因组学来探测对撒哈拉以南非洲地区 HIV 和 HIV 结核病 (TB) 合并感染进展至关重要的宿主遗传因素。 H3Africa 的构想是促进基因组学技术的应用，以改善整个非洲的健康状况。方法：CAfGEN 是一个 H3Africa 合作中心，由博茨瓦纳大学的专业知识组成；麦克雷雷大学；博茨瓦纳、乌干达和斯威士兰的贝勒医学院儿童临床卓越中心 (COE)；以及德克萨斯州贝勒医学院。 COE 为社区参与、参与者招募和样本收集提供临床专业知识，而三所大学设置则促进基因组样本的处理和管理，并提供基础设施和培训机会来维持基因组学研究。结果：该项目的重点是利用全外显子组测序来识别导致儿童极端艾滋病毒疾病进展表型的遗传变异，并利用RNA测序和整合基因组学来识别与艾滋病毒阳性儿童中结核病进展相关的宿主遗传因素。这些队列是使用 COE 的电子病历开发的，具有非常良好的表型，并提供了前所未有的机会，可以在独特的临床病程和疾病病理生理学的背景下，评估通过与成人不同途径感染艾滋病毒的个体的遗传因素。结论：我们的方法提供了培养一批训练有素、高技能、驻扎在非洲大陆的基因组科学家的前景。为了确保非洲基因组学研究的长期可持续性，CAfGEN 为非洲大陆的广泛基因组学能力和基础设施发展做出了贡献，为其机构的基因组学研究生项目奠定了基础，并通过与政府和学术界合作促成的创新社区参与形式，继续积极促进基因组学研究，以支持基因组学政策的制定。
Background: Here, we describe how the Collaborative African Genomics Network ( CAfGEN) of the Human Heredity and Health in Africa (H3Africa) consortium is using genomics to probe host genetic factors important to the progression of HIV and HIV-tuberculosis (TB) coinfection in sub-Saharan Africa. The H3Africa was conceived to facilitate the application of genomics technologies to improve health across Africa.. Methods: CAfGEN is an H3Africa collaborative centre comprising expertise from the University of Botswana; Makerere University; Baylor College of Medicine Children's Clinical Centers of Excellence (COEs) in Botswana, Uganda, and Swaziland; as well as Baylor College of Medicine, Texas. The COEs provide clinical expertise for community engagement, participant recruitment and sample collection while the three University settings facilitate processing and management of genomic samples and provide infrastructure and training opportunities to sustain genomics research. Results: The project has focused on utilizing whole-exome sequencing to identify genetic variants contributing to extreme HIV disease progression phenotypes in children, as well as RNA sequencing and integrated genomics to identify host genetic factors associated with TB disease progression among HIV-positive children. These cohorts, developed using the COEs' electronic medical records, are exceptionally well-phenotyped and present an unprecedented opportunity to assess genetic factors in individuals whose HIV was acquired by a different route than their adult counterparts in the context of a unique clinical course and disease pathophysiology. Conclusions: Our approach offers the prospect of developing a critical mass of well-trained, highly-skilled, continent-based African genomic scientists. To ensure long term genomics research sustainability in Africa, CAfGEN contributes to a wide range of genomics capacity and infrastructure development on the continent, has laid a foundation for genomics graduate programs at its institutions, and continues to actively promote genomics research through innovative forms of community engagement brokered by partnerships with governments and academia to support genomics policy formulation.