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MASH Native: a unified solution for native top-down proteomics data processing.
Larson, Eli J; Pergande, Melissa R; Moss, Michelle E; Rossler, Kalina J; Wenger, R Kent; Krichel, Boris; Josyer, Harini; Melby, Jake A; Roberts, David S; Pike, Kyndalanne; Shi, Zhuoxin; Chan, Hsin-Ju; Knight, Bridget; Rogers, Holden T; Brown, Kyle A; Ong, Irene M; Jeong, Kyowon; Marty, Michael T; McIlwain, Sean J; Ge, Ying.
Afiliação
  • 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.
  • Krichel B; Human Proteomics Program, School of Medicine and Public Health, 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 Cell and Regenerative Biology, 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 Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States.
  • Chan HJ; Department of Cell and Regenerative Biology, 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 Chemistry, University of Wisconsin-Madison, Madison, WI 53705, United States.
  • Jeong K; Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI 53705, United States.
  • Marty MT; University of Wisconsin Carbone Cancer Center, University of Wisconsin-Madison, Madison, WI 53705, United States.
  • McIlwain SJ; Department of Obstetrics and Gynecology, University of Wisconsin-Madison, Madison, WI 53705, United States.
  • Ge Y; Department of Applied Bioinformatics, University of Tübingen, Tübingen 72704, Germany.
Bioinformatics ; 39(6)2023 06 01.
Article em En | MEDLINE | ID: mdl-37294807
ABSTRACT
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.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Software / Proteômica Idioma: En Revista: Bioinformatics Assunto da revista: INFORMATICA MEDICA Ano de publicação: 2023 Tipo de documento: Article País de afiliação: Estados Unidos
Texto completo
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Software / Proteômica Idioma: En Revista: Bioinformatics Assunto da revista: INFORMATICA MEDICA Ano de publicação: 2023 Tipo de documento: Article País de afiliação: Estados Unidos