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MASH Native: a unified solution for native top-down proteomics data processing.

التفاصيل البيبلوغرافية
العنوان: MASH Native: a unified solution for native top-down proteomics data processing.
المؤلفون: Larson EJ; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Pergande MR; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States., Moss ME; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States., Rossler KJ; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States., Wenger RK; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States.; Human Proteomics Program, School of Medicine and Public Health, University of Wisconsin-Madison, Madison, WI 53705, United States., Krichel B; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States., Josyer H; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States., Melby JA; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Roberts DS; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Pike K; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Shi Z; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States., Chan HJ; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Knight B; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Rogers HT; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Brown KA; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States., Ong IM; Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI 53705, United States.; University of Wisconsin Carbone Cancer Center, University of Wisconsin-Madison, Madison, WI 53705, United States.; Department of Obstetrics and Gynecology, University of Wisconsin-Madison, Madison, WI 53705, United States., Jeong K; Department of Applied Bioinformatics, University of Tübingen, Tübingen 72704, Germany., Marty MT; Department of Chemistry and Biochemistry, University of Arizona, Tucson, AZ 85719, United States., McIlwain SJ; Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI 53705, United States.; University of Wisconsin Carbone Cancer Center, University of Wisconsin-Madison, Madison, WI 53705, United States., Ge Y; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States.; Department of Cell and Regenerative Biology, University of Wisconsin-Madison, Madison, WI 53705, United States.; Human Proteomics Program, School of Medicine and Public Health, University of Wisconsin-Madison, Madison, WI 53705, United States.
المصدر: Bioinformatics (Oxford, England) [Bioinformatics] 2023 Jun 01; Vol. 39 (6).
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Video-Audio Media
اللغة: English
بيانات الدورية: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Oxford : Oxford University Press, c1998-
مواضيع طبية MeSH: Proteomics*/methods , Software*, Databases, Factual ; DNA-Binding Proteins ; Mass Spectrometry
مستخلص: Motivation: Native top-down proteomics (nTDP) integrates native mass spectrometry (nMS) with top-down proteomics (TDP) to provide comprehensive analysis of protein complexes together with proteoform identification and characterization. Despite significant advances in nMS and TDP software developments, a unified and user-friendly software package for analysis of nTDP data remains lacking.
Results: We have developed MASH Native to provide a unified solution for nTDP to process complex datasets with database searching capabilities in a user-friendly interface. MASH Native supports various data formats and incorporates multiple options for deconvolution, database searching, and spectral summing to provide a "one-stop shop" for characterizing both native protein complexes and proteoforms.
Availability and Implementation: The MASH Native app, video tutorials, written tutorials, and additional documentation are freely available for download at https://labs.wisc.edu/gelab/MASH_Explorer/MASHSoftware.php. All data files shown in user tutorials are included with the MASH Native software in the download .zip file.
(© The Author(s) 2023. Published by Oxford University Press.)
التعليقات: Update of: bioRxiv. 2023 Jan 03;:. (PMID: 36711733)
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معلومات مُعتمدة: T32 HL007936 United States HL NHLBI NIH HHS; R01 GM125085 United States NH NIH HHS; T32 HL110853 United States HL NHLBI NIH HHS; R01 GM125085 United States GM NIGMS NIH HHS; UL1 TR002373 United States TR NCATS NIH HHS; KL2 TR002374 United States TR NCATS NIH HHS
المشرفين على المادة: 0 (DNA-Binding Proteins)
تواريخ الأحداث: Date Created: 20230609 Date Completed: 20230622 Latest Revision: 20231102
رمز التحديث: 20231215
مُعرف محوري في PubMed: PMC10283151
DOI: 10.1093/bioinformatics/btad359
PMID: 37294807
قاعدة البيانات: MEDLINE
الوصف
تدمد:1367-4811
DOI:10.1093/bioinformatics/btad359