Yasset Perez-Riverol
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Explore the profile of Yasset Perez-Riverol including associated specialties, affiliations and a list of published articles.
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Recent Articles
1.
Thakur M, Brooksbank C, Finn R, Firth H, Foreman J, Freeberg M, et al.
Nucleic Acids Res
. 2024 Nov;
53(D1):D10-D19.
PMID: 39607697
The European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI...
2.
Klein J, Lam H, Mak T, Bittremieux W, Perez-Riverol Y, Gabriels R, et al.
Anal Chem
. 2024 Nov;
96(46):18491-18501.
PMID: 39514576
Mass spectral libraries are collections of reference spectra, usually associated with specific analytes from which the spectra were generated, that are used for further downstream analysis of new spectra. There...
3.
Perez-Riverol Y, Bandla C, Kundu D, Kamatchinathan S, Bai J, Hewapathirana S, et al.
Nucleic Acids Res
. 2024 Nov;
53(D1):D543-D553.
PMID: 39494541
The PRoteomics IDEntifications (PRIDE) database (https://www.ebi.ac.uk/pride/) is the world's leading mass spectrometry (MS)-based proteomics data repository and one of the founding members of the ProteomeXchange consortium. This manuscript summarizes the...
4.
Dai C, Pfeuffer J, Wang H, Zheng P, Kall L, Sachsenberg T, et al.
Nat Methods
. 2024 Jul;
21(9):1603-1607.
PMID: 38965444
The volume of public proteomics data is rapidly increasing, causing a computational challenge for large-scale reanalysis. Here, we introduce quantms ( https://quant,ms.org/ ), an open-source cloud-based pipeline for massively parallel...
5.
Ramsbottom K, Prakash A, Perez-Riverol Y, Camacho O, Sun Z, Kundu D, et al.
J Proteome Res
. 2024 May;
23(7):2518-2531.
PMID: 38810119
Phosphorylation is the most studied post-translational modification, and has multiple biological functions. In this study, we have reanalyzed publicly available mass spectrometry proteomics data sets enriched for phosphopeptides from Asian...
6.
Bai J, Kamatchinathan S, Kundu D, Bandla C, Vizcaino J, Perez-Riverol Y
Proteomics
. 2024 Mar;
24(21-22):e2400005.
PMID: 38556628
We here present a chatbot assistant infrastructure (https://www.ebi.ac.uk/pride/chatbot/) that simplifies user interactions with the PRIDE database's documentation and dataset search functionality. The framework utilizes multiple Large Language Models (LLM): llama2,...
7.
Pfeuffer J, Bielow C, Wein S, Jeong K, Netz E, Walter A, et al.
Nat Methods
. 2024 Feb;
21(3):365-367.
PMID: 38366242
No abstract available.
8.
Webel H, Perez-Riverol Y, Bach Nielsen A, Rasmussen S
Sci Data
. 2024 Jan;
11(1):112.
PMID: 38263211
Here we provide a curated, large scale, label free mass spectrometry-based proteomics data set derived from HeLa cell lines for general purpose machine learning and analysis. Data access and filtering...
9.
Thakur M, Buniello A, Brooksbank C, Gurwitz K, Hall M, Hartley M, et al.
Nucleic Acids Res
. 2023 Nov;
52(D1):D10-D17.
PMID: 38015445
The European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI...
10.
Jagtap P, Hoopmann M, Neely B, Harvey A, Kall L, Perez-Riverol Y, et al.
J Biomol Tech
. 2023 Nov;
34(3).
PMID: 37969874
Metaproteomics research using mass spectrometry data has emerged as a powerful strategy to understand the mechanisms underlying microbiome dynamics and the interaction of microbiomes with their immediate environment. Recent advances...