CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction

[Image: see text] Coeluting peptides are still a major challenge for the identification and validation of MS/MS spectra, but carry great potential. To tackle these problems, we have developed the here presented CharmeRT workflow, combining a chimeric spectra identification strategy implemented as pa...

Descripción completa

Detalles Bibliográficos
Autores principales: Dorfer, Viktoria, Maltsev, Sergey, Winkler, Stephan, Mechtler, Karl
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2018
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6079931/
https://www.ncbi.nlm.nih.gov/pubmed/29863353
http://dx.doi.org/10.1021/acs.jproteome.7b00836
_version_ 1783345378989441024
author Dorfer, Viktoria
Maltsev, Sergey
Winkler, Stephan
Mechtler, Karl
author_facet Dorfer, Viktoria
Maltsev, Sergey
Winkler, Stephan
Mechtler, Karl
author_sort Dorfer, Viktoria
collection PubMed
description [Image: see text] Coeluting peptides are still a major challenge for the identification and validation of MS/MS spectra, but carry great potential. To tackle these problems, we have developed the here presented CharmeRT workflow, combining a chimeric spectra identification strategy implemented as part of the MS Amanda algorithm with the validation system Elutator, which incorporates a highly accurate retention time prediction algorithm. For high-resolution data sets this workflow identifies 38–64% chimeric spectra, which results in up to 63% more unique peptides compared to a conventional single search strategy.
format Online
Article
Text
id pubmed-6079931
institution National Center for Biotechnology Information
language English
publishDate 2018
publisher American Chemical Society
record_format MEDLINE/PubMed
spelling pubmed-60799312018-08-08 CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction Dorfer, Viktoria Maltsev, Sergey Winkler, Stephan Mechtler, Karl J Proteome Res [Image: see text] Coeluting peptides are still a major challenge for the identification and validation of MS/MS spectra, but carry great potential. To tackle these problems, we have developed the here presented CharmeRT workflow, combining a chimeric spectra identification strategy implemented as part of the MS Amanda algorithm with the validation system Elutator, which incorporates a highly accurate retention time prediction algorithm. For high-resolution data sets this workflow identifies 38–64% chimeric spectra, which results in up to 63% more unique peptides compared to a conventional single search strategy. American Chemical Society 2018-06-04 2018-08-03 /pmc/articles/PMC6079931/ /pubmed/29863353 http://dx.doi.org/10.1021/acs.jproteome.7b00836 Text en Copyright © 2018 American Chemical Society This is an open access article published under a Creative Commons Attribution (CC-BY) License (http://pubs.acs.org/page/policy/authorchoice_ccby_termsofuse.html) , which permits unrestricted use, distribution and reproduction in any medium, provided the author and source are cited.
spellingShingle Dorfer, Viktoria
Maltsev, Sergey
Winkler, Stephan
Mechtler, Karl
CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction
title CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction
title_full CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction
title_fullStr CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction
title_full_unstemmed CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction
title_short CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction
title_sort charmert: boosting peptide identifications by chimeric spectra identification and retention time prediction
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6079931/
https://www.ncbi.nlm.nih.gov/pubmed/29863353
http://dx.doi.org/10.1021/acs.jproteome.7b00836
work_keys_str_mv AT dorferviktoria charmertboostingpeptideidentificationsbychimericspectraidentificationandretentiontimeprediction
AT maltsevsergey charmertboostingpeptideidentificationsbychimericspectraidentificationandretentiontimeprediction
AT winklerstephan charmertboostingpeptideidentificationsbychimericspectraidentificationandretentiontimeprediction
AT mechtlerkarl charmertboostingpeptideidentificationsbychimericspectraidentificationandretentiontimeprediction

Ejemplares similares