José Manuel Rodrı́guez

TurbOmics: a web-based platform for the analysis of metabolomics data using a multi-omics integrative approach

TurbOmics is a web-based platform that enables multi-omics integration of metabolomics, proteomics, and transcriptomics data, addressing limitations in metabolomics annotation and accessibility.

Integrative multi-layer workflow for quantitative analysis of post-translational modifications

The paper introduces a workflow for analyzing post-translational modifications using proteomics data, revealing new oxidative modifications in animal models.

APPRIS principal isoforms and MANE Select transcripts in clinical variant interpretation

The paper shows that APPRIS principal isoforms and MANE Select transcripts align well with main protein isoforms and are critical for clinical variant interpretation.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

The paper reports results from the CAFA3 challenge, showing improved computational protein function prediction and new annotations for over 1000 genes through experimental screens in C. albicans, P. aureginosa, and Drosophila.

Comprehensive quantification of the modified proteome reveals oxidative heart damage in mitochondrial heteroplasmy

The paper develops algorithms to comprehensively identify and quantify protein modifications, revealing oxidative damage in heart mitochondria due to mtDNA heteroplasmy.