GeneWeaver: a web-based system for integrative functional genomics.
GeneWeaver: a web-based system for integrative functional genomics.
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DOI：
10.1093/nar/gkr968
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发表时间：
2012-01
影响因子：
14.9
通讯作者：
Chesler EJ
中科院分区：
文献类型：
--
作者：
Baker EJ;Jay JJ;Bubier JA;Langston MA;Chesler EJ
高通量基因组技术已经产生了大量关于基因和基因产物与生物学功能的关联的数据。研究人员发现，将他们的实验结果与已发表的全基因组关联研究、数量性状基因座、微阵列、RNA测序和突变体表型研究相结合，可以在不同的实验、物种、条件、行为或生物过程中识别基因功能关联。这些实验结果通常来自不同的数据存储库，出版补充或重建从主要数据存储。这就给生物学家留下了复杂和不可扩展的任务，即通过识别和收集相关研究、重新分析原始数据、统一基因标识符和对集成集应用专门的计算分析来整合数据。由Ontological Discovery Environment提供支持的免费提供的GeneWeaver（www.GeneWeaver.org）是一个基因组实验结果的策划库，具有用于动态整合这些数据集的附带工具集，使用户能够交互式地解决有关生物功能集及其与基因集的关系的问题。因此，大量独立发表的基因组结果可以被组织成由潜在的、推断的生物学关系驱动的新的概念框架，而不是预先存在的语义框架。一个经验的“本体论”是从用户定义的生物学研究领域的实验知识的集合中发现的。
High-throughput genome technologies have produced a wealth of data on the association of genes and gene products to biological functions. Investigators have discovered value in combining their experimental results with published genome-wide association studies, quantitative trait locus, microarray, RNA-sequencing and mutant phenotyping studies to identify gene-function associations across diverse experiments, species, conditions, behaviors or biological processes. These experimental results are typically derived from disparate data repositories, publication supplements or reconstructions from primary data stores. This leaves bench biologists with the complex and unscalable task of integrating data by identifying and gathering relevant studies, reanalyzing primary data, unifying gene identifiers and applying ad hoc computational analysis to the integrated set. The freely available GeneWeaver (http://www.GeneWeaver.org) powered by the Ontological Discovery Environment is a curated repository of genomic experimental results with an accompanying tool set for dynamic integration of these data sets, enabling users to interactively address questions about sets of biological functions and their relations to sets of genes. Thus, large numbers of independently published genomic results can be organized into new conceptual frameworks driven by the underlying, inferred biological relationships rather than a pre-existing semantic framework. An empirical ‘ontology’ is discovered from the aggregate of experimental knowledge around user-defined areas of biological inquiry.
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影响因子：
14.9
作者：
Blake JA;Bult CJ;Kadin JA;Richardson JE;Eppig JT;Mouse Genome Database Group
通讯作者：
Mouse Genome Database Group
影响因子：
14.9
作者：
Bruford, Elspeth A.;Lush, Michael J.;Wright, Mathew W.;Sneddon, Tam P.;Povey, Sue;Birney, Ewan
通讯作者：
Birney, Ewan
影响因子：
12.3
作者：
Smith CL;Goldsmith CA;Eppig JT
通讯作者：
Eppig JT
影响因子：
7
作者：
Nissenbaum, Jonathan;Devor, Marshall;Darvasi, Ariel
通讯作者：
Darvasi, Ariel
影响因子：
64.5
作者：
Mnaimneh, S;Davierwala, AP;Hughes, TR
通讯作者：
Hughes, TR