Ghent University Academic Bibliography

Journal Article
open access

Personalized Proteome: Comparing Proteogenomics and Open Variant Search Approaches for Single Amino Acid Variant Detection

Renee Salz, Robbin Bouwmeester (UGent) , Ralf Gabriels (UGent) , Sven Degroeve (UGent) , Lennart Martens (UGent) , Pieter-Jan Volders (UGent) and Peter A.C. ’t Hoen

(2021) Journal of Proteome Research.

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MegaGO : a fast yet powerful approach to assess functional gene ontology similarity across meta-omics data sets

Pieter Verschaffelt (UGent) , Tim Van Den Bossche (UGent) , Wassim Gabriel, Michał Burdukiewicz, Alessio Soggiu, Lennart Martens (UGent) , Bernhard Y. Renard, Henning Schiebenhoefer and Bart Mesuere (UGent)

(2021) JOURNAL OF PROTEOME RESEARCH. 20(4). p.2083-2088

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Unipept Desktop : a faster, more powerful metaproteomics results analysis tool

Pieter Verschaffelt (UGent) , Tim Van Den Bossche (UGent) , Lennart Martens (UGent) , Peter Dawyndt (UGent) and Bart Mesuere (UGent)

(2021) JOURNAL OF PROTEOME RESEARCH. 20(4). p.2005-2009

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Use of hybrid data-dependent and -independent acquisition spectral libraries empowers dual-proteome profiling

Patrick Willems (UGent) , Ursula Fels (UGent) , An Staes (UGent) , Kris Gevaert (UGent) and Petra Van Damme (UGent)

(2021) JOURNAL OF PROTEOME RESEARCH. 20(2). p.1165-1177

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ThermoRawFileParser : modular, scalable and cross-platform RAW file conversion

Niels Hulstaert (UGent) , Jim Shofstahl, Timo Sachsenberg, Mathias Walzer, Harald Barsnes, Lennart Martens (UGent) and Yasset Perez-Riverol

(2020) JOURNAL OF PROTEOME RESEARCH. 19(1). p.537-542

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Journal Article
A1
open access

Scop3P : a comprehensive resource of human phosphosites within their full context

Pathmanaban Ramasamy (UGent) , Demet Turan (UGent) , Natalia Tichshenko (UGent) , Niels Hulstaert (UGent) , Elien Vandermarliere (UGent) , Wim Vranken and Lennart Martens (UGent)

(2020) JOURNAL OF PROTEOME RESEARCH. 19(8). p.3478-3486

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Journal Article
A1
open access

COSS : a fast and user-friendly tool for spectral library searching

Genet Abay Shiferaw (UGent) , Elien Vandermarliere (UGent) , Niels Hulstaert (UGent) , Ralf Gabriels (UGent) , Lennart Martens (UGent) and Pieter-Jan Volders (UGent)

(2020) JOURNAL OF PROTEOME RESEARCH. 19(7). p.2786-2793

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Journal Article
A1
open access

Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for seamless end-to-end metaproteomics data analysis

Tim Van Den Bossche (UGent) , Pieter Verschaffelt (UGent) , Kay Schallert, Harald Barsnes, Peter Dawyndt (UGent) , Dirk Benndorf, Bernhard Y. Renard, Bart Mesuere (UGent) , Lennart Martens (UGent) and Thilo Muth

(2020) JOURNAL OF PROTEOME RESEARCH. 19(8). p.3562-3566

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hSWATH : unlocking SWATH’s full potential for an untargeted histone perspective

Laura De Clerck (UGent) , Sander Willems (UGent) , Roberta Noberini, Camilla Restellini, Bart Van Puyvelde (UGent) , Simon Daled (UGent) , Tiziana Bonaldi, Dieter Deforce (UGent) and Maarten Dhaenens (UGent)

(2019) JOURNAL OF PROTEOME RESEARCH. 18(11). p.3840-3849

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Unipept 4.0 : functional analysis of metaproteome data

Robbert Gurdeep Singh (UGent) , Alessandro Tanca, Antonio Palomba, Felix Van der Jeugt (UGent) , Pieter Verschaffelt (UGent) , Sergio Uzzau, Lennart Martens (UGent) , Peter Dawyndt (UGent) and Bart Mesuere (UGent)

(2019) JOURNAL OF PROTEOME RESEARCH. 18(2). p.606-615

Academic Bibliography

Personalized Proteome: Comparing Proteogenomics and Open Variant Search Approaches for Single Amino Acid Variant Detection

MegaGO : a fast yet powerful approach to assess functional gene ontology similarity across meta-omics data sets

Unipept Desktop : a faster, more powerful metaproteomics results analysis tool

Use of hybrid data-dependent and -independent acquisition spectral libraries empowers dual-proteome profiling

ThermoRawFileParser : modular, scalable and cross-platform RAW file conversion

Scop3P : a comprehensive resource of human phosphosites within their full context

COSS : a fast and user-friendly tool for spectral library searching

Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for seamless end-to-end metaproteomics data analysis

hSWATH : unlocking SWATH’s full potential for an untargeted histone perspective

Unipept 4.0 : functional analysis of metaproteome data

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