Zobrazeno 1 - 10
of 29
pro vyhledávání: '"William E. Fondrie"'
Autor:
Melih Yilmaz, William E. Fondrie, Wout Bittremieux, Carlo F. Melendez, Rowan Nelson, Varun Ananth, Sewoong Oh, William Stafford Noble
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-13 (2024)
Abstract A fundamental challenge in mass spectrometry-based proteomics is the identification of the peptide that generated each acquired tandem mass spectrum. Approaches that leverage known peptide sequence databases cannot detect unexpected peptides
Externí odkaz:
https://doaj.org/article/35443eeb2e764bb7b7d31db7947a6e54
Autor:
Lisa M. Leung, William E. Fondrie, Yohei Doi, J. Kristie Johnson, Dudley K. Strickland, Robert K. Ernst, David R. Goodlett
Publikováno v:
Scientific Reports, Vol 7, Iss 1, Pp 1-10 (2017)
Abstract Rapid diagnostics that enable identification of infectious agents improve patient outcomes, antimicrobial stewardship, and length of hospital stay. Current methods for pathogen detection in the clinical laboratory include biological culture,
Externí odkaz:
https://doaj.org/article/156f61f087a64257a20eeb277fb83d6c
Quantitative measurements produced by tandem mass spectrometry proteomics experiments typically contain a large proportion of missing values. This missingness hinders reproducibility, reduces statistical power, and makes it difficult to compare acros
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::e6b5df67fa390a030134d0e3c735cfa7
https://doi.org/10.1101/2023.04.07.535980
https://doi.org/10.1101/2023.04.07.535980
Autor:
Lilian R. Heil, William E. Fondrie, Christopher D. McGann, Alexander J. Federation, William S. Noble, Michael J. MacCoss, Uri Keich
Publikováno v:
J Proteome Res
Advances in library-based methods for peptide detection from data-independent acquisition (DIA) mass spectrometry have made it possible to detect and quantify tens of thousands of peptides in a single mass spectrometry run. However, many of these met
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5f4da58e4fc545baf51de14656ea78e4
https://doi.org/10.1021/acs.jproteome.1c00895
https://doi.org/10.1021/acs.jproteome.1c00895
Autor:
Melih Yilmaz, William E. Fondrie, Wout Bittremieux, Rowan Nelson, Varun Ananth, Sewoong Oh, William Stafford Noble
A fundamental challenge for any mass spectrometry-based proteomics experiment is the identification of the peptide that generated each acquired tandem mass spectrum. Although approaches that leverage known peptide sequence databases are widely used a
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::8b623fad8e17f84cf22457fb43daa02d
https://doi.org/10.1101/2023.01.03.522621
https://doi.org/10.1101/2023.01.03.522621
Publikováno v:
Journal of proteome research
A key analysis task in mass spectrometry proteomics is matching the acquired tandem mass spectra to their originating peptides by sequence database searching or spectral library searching. Machine learning is an increasingly popular postprocessing ap
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a22f0987e0e97d27ac295fc278a05440
https://hdl.handle.net/10067/1935330151162165141
https://hdl.handle.net/10067/1935330151162165141
Autor:
Attila Kertesz-Farkas, Frank Lawrence Nii Adoquaye Acquaye, Kishankumar Bhimani, Jimmy K. Eng, William E. Fondrie, Charles Grant, Michael R. Hoopmann, Andy Lin, Yang Y. Lu, Robert L. Moritz, Michael J. MacCoss, William Stafford Noble
Publikováno v:
J Proteome Res
The Crux tandem mass spectrometry data analysis toolkit provides a collection of algorithms for analyzing bottom-up proteomics tandem mass spectrometry data. Many publications have described various individual components of Crux, but a comprehensive
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f13d84e302771bd345ffba29ac556b8c
https://doi.org/10.1101/2022.10.02.510538
https://doi.org/10.1101/2022.10.02.510538
A key analysis task in mass spectrometry proteomics is matching the acquired tandem mass spectra to their originating peptides by sequence database searching or spectral library searching. Machine learning is an increasingly popular post-processing a
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::69a78aa321b7ae1f372643dea45256dd
https://doi.org/10.1101/2022.09.30.510366
https://doi.org/10.1101/2022.09.30.510366
Data independent acquisition (DIA) mass spectrometry methods provide systematic and comprehensive quantification of the proteome; yet, relatively few open-source tools are available to analyze DIA proteomics experiments. Fewer still are tools that ca
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::27e0ad5a968d2519012a9d5131a44104
https://doi.org/10.1101/2022.09.30.510329
https://doi.org/10.1101/2022.09.30.510329
Publikováno v:
Journal of proteome research
The volume of proteomics and mass spectrometry data available in public repositories continues to grow at a rapid pace as more researchers embrace open science practices. Open access to the data behind scientific discoveries has become critical to va
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1488032c2e584c3bae64dbeb0d8d6f2d
https://doi.org/10.1021/acs.jproteome.1c00454
https://doi.org/10.1021/acs.jproteome.1c00454