FAIRsharing record for: proBed

This FAIRsharing record describes: The Proteomics Informatics Working Group is developing standards for describing the results of identification and quantification processes for proteins, peptides, small molecules and protein modifications from mass spectrometry. This working group is developing proBed, a tab delimited text file format to report “proteogenomics” results, i.e. the identification and mapping of peptide/protein sequences back against a genome, to assist in annotation efforts. The original BED format is used to describe genome coordinate data across lines, for use on annotation tracks. In BED, data lines are defined as tab-separated plain text with 12 mandatory fields (columns). Of those, only the first three fields are required, and the other 9 are optional. The proBed format builds upon this original structure by extending the 12 original BED fields to include a further 13 fields to describe information primarily on peptide-spectrum matches (PSMs). The format can also accommodate peptides (as groups of PSMs).

本FAIRsharing记录描述如下：蛋白质组信息学工作组正在制定相关标准，用于描述基于质谱的蛋白质、肽段、小分子及蛋白质修饰的鉴定与定量分析结果。该工作组正在开发proBed格式，这是一种制表符分隔的文本文件格式，用于报告“蛋白质基因组学（proteogenomics）”分析结果——即肽段/蛋白质序列在基因组上的鉴定与定位，以辅助基因组注释工作。原始BED格式用于逐行描述基因组坐标数据，适配基因组注释轨道的使用场景。在BED格式中，数据行由制表符分隔的纯文本构成，共包含12个必填字段（列）；其中仅前3个字段为必填项，剩余9个字段均为可选字段。proBed格式以此原始结构为基础，在原有12个BED字段的基础上新增13个字段，主要用于描述肽段-质谱匹配（peptide-spectrum matches, PSMs）相关信息。该格式同时支持以肽段（作为PSM的集合）进行数据存储。