The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics.
The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics.
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DOI：
10.1074/mcp.m117.068429
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发表时间：
2017-07
期刊：
影响因子：
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通讯作者：
Jones AR
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文献类型：
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作者：
Vizcaíno JA;Mayer G;Perkins S;Barsnes H;Vaudel M;Perez-Riverol Y;Ternent T;Uszkoreit J;Eisenacher M;Fischer L;Rappsilber J;Netz E;Walzer M;Kohlbacher O;Leitner A;Chalkley RJ;Ghali F;Martínez-Bartolomé S;Deutsch EW;Jones AR
蛋白质组学标准计划的第一个稳定版本MZIDENSML开放数据标准（1.1版）于2012年发布，捕获了胡椒和蛋白质识别软件的输出。 ，以及用于公共存储库的提交和下载格式。蛋白质组的练习已添加到新的特征：（1）在Pepperides上进行的统计数据对蛋白质组学的支持。此外，现在还可以改善对宠物，光谱文库搜索和蛋白质推理的从头测序的支持。经过了非常小的修改，以尽可能地简化从版本1.1的过渡到1.2版，但对格式规范，实现准则，受控词汇和验证软件有几种显着更新。 ，在为MZIDENTML 1.1设计的阅读软件中，在大多数情况下，我们预计这些开发项目将在没有适应性的情况下起作用。为实施标准的软件团队提供持续的稳定基础。
The first stable version of the Proteomics Standards Initiative mzIdentML open data standard (version 1.1) was published in 2012—capturing the outputs of peptide and protein identification software. In the intervening years, the standard has become well-supported in both commercial and open software, as well as a submission and download format for public repositories. Here we report a new release of mzIdentML (version 1.2) that is required to keep pace with emerging practice in proteome informatics. New features have been added to support: (1) scores associated with localization of modifications on peptides; (2) statistics performed at the level of peptides; (3) identification of cross-linked peptides; and (4) support for proteogenomics approaches. In addition, there is now improved support for the encoding of de novo sequencing of peptides, spectral library searches, and protein inference. As a key point, the underlying XML schema has only undergone very minor modifications to simplify as much as possible the transition from version 1.1 to version 1.2 for implementers, but there have been several notable updates to the format specification, implementation guidelines, controlled vocabularies and validation software. mzIdentML 1.2 can be described as backwards compatible, in that reading software designed for mzIdentML 1.1 should function in most cases without adaptation. We anticipate that these developments will provide a continued stable base for software teams working to implement the standard. All the related documentation is accessible at http://www.psidev.info/mzidentml.