2019 Association of Biomolecular Resource Facilities Multi-Laboratory Data-Independent Acquisition Proteomics Study.

Q4 Biochemistry, Genetics and Molecular Biology

Journal of Biomolecular Techniques Pub Date : 2023-07-01 DOI:10.7171/3fc1f5fe.9b78d780

Joanna Kirkpatrick, Paul M Stemmer, Brian C Searle, Laura E Herring, LeRoy Martin, Mukul K Midha, Brett S Phinney, Baozhen Shan, Magnus Palmblad, Yan Wang, Pratik D Jagtap, Benjamin A Neely

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引用次数: 0

Abstract

Despite the advantages of fewer missing values by collecting fragment ion data on all analytes in the sample as well as the potential for deeper coverage, the adoption of data-independent acquisition (DIA) in proteomics core facility settings has been slow. The Association of Biomolecular Resource Facilities conducted a large interlaboratory study to evaluate DIA performance in proteomics laboratories with various instrumentation. Participants were supplied with generic methods and a uniform set of test samples. The resulting 49 DIA datasets act as benchmarks and have utility in education and tool development. The sample set consisted of a tryptic HeLa digest spiked with high or low levels of 4 exogenous proteins. Data are available in MassIVE MSV000086479. Additionally, we demonstrate how the data can be analyzed by focusing on 2 datasets using different library approaches and show the utility of select summary statistics. These data can be used by DIA newcomers, software developers, or DIA experts evaluating performance with different platforms, acquisition settings, and skill levels.

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2019年美国生物分子资源设施协会多实验室数据独立获取蛋白质组学研究。

尽管通过收集样品中所有分析物的片段离子数据具有较少缺失值的优势，并且具有更深入覆盖的潜力，但在蛋白质组学核心设施设置中采用数据独立采集(DIA)的速度很慢。生物分子资源设施协会进行了一项大型实验室间研究，以评估DIA在蛋白质组学实验室中使用各种仪器的性能。为参与者提供了通用方法和一套统一的测试样本。由此产生的49个DIA数据集作为基准，在教育和工具开发中具有实用价值。样品集由胰酶HeLa消化液加高或低水平的4种外源蛋白组成。海量MSV000086479中有数据。此外，我们将通过使用不同的库方法关注2个数据集来演示如何分析数据，并展示选择汇总统计的实用程序。这些数据可用于DIA新手、软件开发人员或DIA专家评估不同平台、获取设置和技能水平的性能。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Journal of Biomolecular Techniques Biochemistry, Genetics and Molecular Biology-Molecular Biology

CiteScore

2.50

自引率

0.00%

发文量

期刊介绍： The Journal of Biomolecular Techniques is a peer-reviewed publication issued five times a year by the Association of Biomolecular Resource Facilities. The Journal was established to promote the central role biotechnology plays in contemporary research activities, to disseminate information among biomolecular resource facilities, and to communicate the biotechnology research conducted by the Association’s Research Groups and members, as well as other investigators.