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遗传性共济失调中下一代测序数据共享和分析标准:遗传性共济失调全球倡议下一代测序工作组的建议。

Standards of NGS Data Sharing and Analysis in Ataxias: Recommendations by the NGS Working Group of the Ataxia Global Initiative.

机构信息

Dr. John T. Macdonald Foundation Department of Human Genetics and John P. Hussman Institute for Human Genomics, University of Miami Miller School of Medicine, Miami, FL, USA.

Division Translational Genomics of Neurodegenerative Diseases, Hertie-Institute for Clinical Brain Research and Center of Neurology, University of Tübingen, Hoppe-Seyler-Strasse 3, Tübingen, Germany.

出版信息

Cerebellum. 2024 Apr;23(2):391-400. doi: 10.1007/s12311-023-01537-1. Epub 2023 Mar 4.

Abstract

The Ataxia Global Initiative (AGI) is a worldwide multi-stakeholder research platform to systematically enhance trial-readiness in degenerative ataxias. The next-generation sequencing (NGS) working group of the AGI aims to improve methods, platforms, and international standards for ataxia NGS analysis and data sharing, ultimately allowing to increase the number of genetically ataxia patients amenable for natural history and treatment trials. Despite extensive implementation of NGS for ataxia patients in clinical and research settings, the diagnostic gap remains sizeable, as approximately 50% of patients with hereditary ataxia remain genetically undiagnosed. One current shortcoming is the fragmentation of patients and NGS datasets on different analysis platforms and databases around the world. The AGI NGS working group in collaboration with the AGI associated research platforms-CAGC, GENESIS, and RD-Connect GPAP-provides clinicians and scientists access to user-friendly and adaptable interfaces to analyze genome-scale patient data. These platforms also foster collaboration within the ataxia community. These efforts and tools have led to the diagnosis of > 500 ataxia patients and the discovery of > 30 novel ataxia genes. Here, the AGI NGS working group presents their consensus recommendations for NGS data sharing initiatives in the ataxia field, focusing on harmonized NGS variant analysis and standardized clinical and metadata collection, combined with collaborative data and analysis tool sharing across platforms.

摘要

共济失调全球倡议 (AGI) 是一个全球性的多方利益相关者研究平台,旨在系统地提高退行性共济失调的试验准备水平。AGI 的下一代测序 (NGS) 工作组旨在改进用于共济失调 NGS 分析和数据共享的方法、平台和国际标准,最终能够增加适合自然病史和治疗试验的遗传性共济失调患者数量。尽管在临床和研究环境中广泛应用 NGS 对共济失调患者进行了研究,但诊断差距仍然很大,因为大约 50%的遗传性共济失调患者仍然无法通过基因检测确诊。目前存在的一个缺点是,全世界不同的分析平台和数据库中患者和 NGS 数据集的碎片化。AGI NGS 工作组与 AGI 相关的研究平台-CAGC、GENESIS 和 RD-Connect GPAP 合作,为临床医生和科学家提供了易于使用和可适应的接口来分析基因组规模的患者数据。这些平台还促进了共济失调社区内的合作。这些努力和工具已经导致了 500 多名共济失调患者的诊断和 30 多个新的共济失调基因的发现。在这里,AGI NGS 工作组提出了他们在共济失调领域的 NGS 数据共享倡议的共识建议,重点是协调一致的 NGS 变异分析和标准化的临床和元数据收集,同时在平台之间共享协作数据和分析工具。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1c54/10951009/58458d4ff906/12311_2023_1537_Fig1_HTML.jpg

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