ProtExA: A tool for post-processing proteomics data providing differential expression metrics, co-expression networks and functional analytics
ProtExA: A tool for post-processing proteomics data providing differential expression metrics, co-expression networks and functional analytics
复制标题
DOI：
10.1016/j.csbj.2020.06.036
复制
发表时间：
2020-01-01
影响因子：
6
通讯作者：
Spyrou, George M.
中科院分区：
文献类型：
--
作者：
Minadakis, George;Sokratous, Kleitos;Spyrou, George M.
ProTExA是一种网络工具，为蛋白质和基因表达数据集的分析提供后处理工作流程。使用基于网络的生物信息学方法，ProTExA有助于差异表达分析和共表达网络分析以及途径和后途径分析。具体地，对于给定的一组跨样品的蛋白质-基因表达数据，ProTExA：（1）进行统计分析和过滤以突出差异表达的蛋白质-基因，（2）进行富集分析以鉴定得分最高的途径，（3）生成途径-途径和途径-基因网络（4）使用多种方法生成蛋白质和基因共表达网络，（5）应用聚类方法识别共表达蛋白质-基因的子网络。拟议的网络工具是一个简单但信息丰富的工具，有助于理解和利用蛋白质和基因表达数据集，特别是对于那些没有专门知识和当地资源的人来说，在合作和科学数据交换的背景下复制特定的分析。(C)2020作者（S）由Elsevier B. V.代表计算和结构生物技术研究网络出版。
ProTExA is a web-tool that provides a post-processing workflow for the analysis of protein and gene expression datasets. Using network-based bioinformatics approaches, ProTExA facilitates differential expression analysis and co-expression network analysis as well as pathway and post-pathway analysis. Specifically, for a given set of protein-gene expression data across samples, ProTExA: (1) performs statistical analysis and filtering to highlight the differentially expressed proteins-genes, (2) performs enrichment analysis to identify top-scored pathways, (3) generates pathway-to-pathway and pathway-to-gene networks (4) generates protein and gene co-expression networks using a variety of methodologies, and (5) applies clustering methodologies to identify sub-networks of co-expressed proteins-genes. The proposed web-tool is a simple yet informative tool, towards understanding and exploitation of protein and gene expression datasets, especially for those that do not have the expertise and local resources to replicate specific analyses in the context of collaborative and scientific data exchanging. (C) 2020 The Author(s). Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.