监测基因本体论的变化及其对基因组数据分析的影响。

Monitoring changes in the Gene Ontology and their impact on genomic data analysis.

机构信息

Michael Smith Laboratories, 177 Michael Smith Laboratories, 2185 East Mall, University of British Columbia, Vancouver BC V6T1Z4.

Department of Psychiatry, 177 Michael Smith Laboratories, 2185 East Mall, University of British Columbia, Vancouver BC V6T1Z4.

出版信息

Gigascience. 2018 Aug 1;7(8):giy103. doi: 10.1093/gigascience/giy103.

DOI:10.1093/gigascience/giy103

PMID:30107399

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6113503/

Abstract

BACKGROUND

The Gene Ontology (GO) is one of the most widely used resources in molecular and cellular biology, largely through the use of "enrichment analysis." To facilitate informed use of GO, we present GOtrack (https://gotrack.msl.ubc.ca), which provides access to historical records and trends in the GO and GO annotations.

FINDINGS

GOtrack gives users access to gene- and term-level information on annotations for nine model organisms as well as an interactive tool that measures the stability of enrichment results over time for user-provided "hit lists" of genes. To document the effects of GO evolution on enrichment, we analyzed more than 2,500 published hit lists of human genes (most older than 9 years ); 53% of hit lists were considered to yield significantly stable enrichment results.

CONCLUSIONS

Because stability is far from assured for any individual hit list, GOtrack can lead to more informed and cautious application of GO to genomics research.

摘要

背景

基因本体论 (GO) 是分子和细胞生物学中使用最广泛的资源之一，主要通过使用“富集分析”。为了方便使用 GO，我们提供了 GOTrack（https://gotrack.msl.ubc.ca），它提供了对 GO 和 GO 注释的历史记录和趋势的访问。

发现

GOTrack 为用户提供了对九个模型生物的注释的基因和术语级信息，以及一个交互式工具，用于测量用户提供的“命中列表”中基因的富集结果随时间的稳定性。为了记录 GO 进化对富集的影响，我们分析了超过 2500 个已发表的人类基因命中列表（大多数早于 9 年）；53%的命中列表被认为产生了显著稳定的富集结果。