管道(软件)
蛋白质组
可视化
定量蛋白质组学
计算机科学
接口(物质)
蛋白质组学
生物
小桶
数据可视化
计算生物学
资源(消歧)
数据库
生物信息学
数据挖掘
转录组
程序设计语言
生物化学
最大气泡压力法
基因表达
计算机网络
气泡
基因
并行计算
作者
Tobias Schmidt,Patroklos Samaras,Martin Frejno,Siegfried Gessulat,Maximilian Barnert,Harald Kienegger,Helmut Krcmar,Judith Schlegl,Hans‐Christian Ehrlich,Stephan Aiche,Bernhard Küster,Mathias Wilhelm
摘要
ProteomicsDB (https://www.ProteomicsDB.org) is a protein-centric in-memory database for the exploration of large collections of quantitative mass spectrometry-based proteomics data. ProteomicsDB was first released in 2014 to enable the interactive exploration of the first draft of the human proteome. To date, it contains quantitative data from 78 projects totalling over 19k LC–MS/MS experiments. A standardized analysis pipeline enables comparisons between multiple datasets to facilitate the exploration of protein expression across hundreds of tissues, body fluids and cell lines. We recently extended the data model to enable the storage and integrated visualization of other quantitative omics data. This includes transcriptomics data from e.g. NCBI GEO, protein–protein interaction information from STRING, functional annotations from KEGG, drug-sensitivity/selectivity data from several public sources and reference mass spectra from the ProteomeTools project. The extended functionality transforms ProteomicsDB into a multi-purpose resource connecting quantification and meta-data for each protein. The rich user interface helps researchers to navigate all data sources in either a protein-centric or multi-protein-centric manner. Several options are available to download data manually, while our application programming interface enables accessing quantitative data systematically.
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