التفاصيل البيبلوغرافية
| العنوان: |
Analysis of Tandem Mass Spectrometry Data with CONGA: Combining Open and Narrow Searches with Group-Wise Analysis. |
| المؤلفون: |
Freestone J; School of Mathematics and Statistics F07, University of Sydney, NSW 2006, Australia., Noble WS; Department of Genome Sciences, University of Washington, Seattle, Washington 98195, United States.; Paul G. Allen School of Computer Science and Engineering, University of Washington, Seattle, Washington 98195, United States., Keich U; School of Mathematics and Statistics F07, University of Sydney, NSW 2006, Australia. |
| المصدر: |
Journal of proteome research [J Proteome Res] 2024 Jun 07; Vol. 23 (6), pp. 1894-1906. Date of Electronic Publication: 2024 Apr 23. |
| نوع المنشور: |
Journal Article |
| اللغة: |
English |
| بيانات الدورية: |
Publisher: American Chemical Society Country of Publication: United States NLM ID: 101128775 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1535-3907 (Electronic) Linking ISSN: 15353893 NLM ISO Abbreviation: J Proteome Res Subsets: MEDLINE |
| أسماء مطبوعة: |
Original Publication: Washington, D.C. : American Chemical Society, c2002- |
| مواضيع طبية MeSH: |
Tandem Mass Spectrometry*/methods , Algorithms* , Protein Processing, Post-Translational* , Databases, Protein* , Proteomics*/methods, Peptides/analysis ; Peptides/chemistry ; Humans ; Software ; Amino Acid Sequence |
| مستخلص: |
Searching for tandem mass spectrometry proteomics data against a database is a well-established method for assigning peptide sequences to observed spectra but typically cannot identify peptides harboring unexpected post-translational modifications (PTMs). Open modification searching aims to address this problem by allowing a spectrum to match a peptide even if the spectrum's precursor mass differs from the peptide mass. However, expanding the search space in this way can lead to a loss of statistical power to detect peptides. We therefore developed a method, called CONGA (combining open and narrow searches with group-wise analysis), that takes into account results from both types of searches─a traditional "narrow window" search and an open modification search─while carrying out rigorous false discovery rate control. The result is an algorithm that provides the best of both worlds: the ability to detect unexpected PTMs without a concomitant loss of power to detect unmodified peptides. |
| فهرسة مساهمة: |
Keywords: FDR control; group-wise analysis; open search; peptide analysis |
| المشرفين على المادة: |
0 (Peptides) |
| تواريخ الأحداث: |
Date Created: 20240423 Date Completed: 20240607 Latest Revision: 20240607 |
| رمز التحديث: |
20240607 |
| DOI: |
10.1021/acs.jproteome.3c00399 |
| PMID: |
38652578 |
| قاعدة البيانات: |
MEDLINE |
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