mzMD : visualization-oriented MS data storage and retrieval

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

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Author(s)

  • Runmin Yang
  • Jingjing Ma
  • Shu Zhang
  • Yu Zheng
  • Daming Zhu

Detail(s)

Original languageEnglish
Article numberbtac098
Pages (from-to)2333–2340
Journal / PublicationBioinformatics
Volume38
Issue number5
Online published16 Feb 2022
Publication statusPublished - 15 Apr 2022

Abstract

Motivation : Drawing peaks in a data window of an MS dataset happens at all time in MS data visualization applications. This asks to retrieve from an MS dataset some selected peaks in a data window whose image in a display window reflects the visual feature of all peaks in the data window. If an algorithm for this purpose is asked to output high-quality solutions in real time, then the most fundamental dependence of it is on the storage format of the MS dataset.
Results : We present mzMD, a new storage format of MS datasets and an algorithm to query this format of a storage system for a summary (a set of selected representative peaks) of a given data window. We propose a criterion Q-score to examine the quality of data window summaries. Experimental statistics on real MS datasets verified the high speed of mzMD in retrieving high-quality data window summaries. mzMD reported summaries of data windows whose Q-score outperforms those mzTree reported. The query speed of mzMD is the same as that of mzTree whereas its query speed stability is better than that of mzTree.

Research Area(s)

  • MASS-SPECTROMETRY, LC-MS/MS, PROTEOMICS, PLATFORM, FORMAT

Citation Format(s)

mzMD : visualization-oriented MS data storage and retrieval. / Yang, Runmin; Ma, Jingjing; Zhang, Shu; Zheng, Yu; Wang, Lusheng; Zhu, Daming.

In: Bioinformatics, Vol. 38, No. 5, btac098, 15.04.2022, p. 2333–2340.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review