A5003706895- Computational Drug Discovery Methods
- Bioinformatics and Genomic Networks
- Pharmacogenetics and Drug Metabolism
- Nutrition, Genetics, and Disease
- Genetics, Bioinformatics, and Biomedical Research
- Gene expression and cancer classification
- Microbial Natural Products and Biosynthesis
- Biomedical Text Mining and Ontologies
- Ubiquitin and proteasome pathways
- Melanoma and MAPK Pathways
- Advanced Proteomics Techniques and Applications
- Pharmaceutical Practices and Patient Outcomes
- Microbial Metabolic Engineering and Bioproduction
- Quality and Safety in Healthcare
- SARS-CoV-2 and COVID-19 Research
- Treatment of Major Depression
- Enzyme Structure and Function
- Synthesis and biological activity
- Health Systems, Economic Evaluations, Quality of Life
Thrombotargets (Spain)
2025
Chemo (Spain)
2025
Institute for Research in Biomedicine
2018-2023
Universitat Politècnica de Catalunya
2018-2022
The Columbia Cancer Target Discovery and Development (CTD2) Center is developing PANACEA, a resource comprising dose-responses RNA sequencing (RNA-seq) profiles of 25 cell lines perturbed with ∼400 clinical oncology drugs, to study tumor-specific drug mechanism action. Here, this serves as the basis for DREAM Challenge assessing accuracy sensitivity computational algorithms de novo polypharmacology predictions. Dose-response perturbational 32 kinase inhibitors are provided 21 teams who blind...
Biomedical data is accumulating at a fast pace and integrating it into unified framework major challenge, so that multiple views of given biological event can be considered simultaneously. Here we present the Bioteque, resource unprecedented size scope contains pre-calculated biomedical descriptors derived from gigantic knowledge graph, displaying more than 450 thousand entities 30 million relationships between them. The Bioteque integrates, harmonizes, formats collected over 150 sources,...
Biological data is accumulating at an unprecedented rate, escalating the role of data‐driven methods in computational drug discovery. This scenario favored by recent advances machine learning algorithms, which are optimized for huge datasets and consistently beat predictive performance previous art, rapidly approaching human expert reasoning. The urge to couple biological cutting‐edge has spurred developments integration knowledge representation, especially form heterogeneous, multiplex...
The integration of large-scale drug sensitivity screens and genome-wide experiments is changing the field pharmacogenomics, revealing molecular determinants response without need for previous knowledge about action. In particular, transcriptional signatures may guide repositioning, prioritize combinations, point to new therapeutic biomarkers. However, inherent complexity signatures, with thousands differentially expressed genes, makes them hard interpret, thus giving poor mechanistic...
SUMMARY The Columbia Cancer Target Discovery and Development (CTD 2 ) Center has developed PANACEA (PANcancer Analysis of Chemical Entity Activity), a collection dose-response curves perturbational profiles for 400 clinical oncology drugs in cell lines selected to optimally represent 19 cancer subtypes. This resource, study tumor-specific drug mechanism action, was instrumental hosting DREAM Challenge assess computational models de novo polypharmacology prediction. Dose-response 32 kinase...
p38α (encoded by MAPK14) is a protein kinase that regulates cellular responses to almost all types of environmental and intracellular stresses. Upon activation, phosphorylates many substrates both in the cytoplasm nucleus, allowing this pathway regulate wide variety processes. While role stress response has been widely investigated, its implication cell homeostasis less understood. To investigate signaling networks regulated proliferating cancer cells, we performed quantitative proteomic...
Until a vaccine becomes available, the current repertoire of drugs is our only therapeutic asset to fight SARS-CoV-2 outbreak. Indeed, emergency clinical trials have been launched assess effectiveness many marketed drugs, tackling decrease viral load through several mechanisms. Here, we present an online resource, based on small-molecule bioactivity signatures and natural language processing, expand portfolio compounds with potential treat COVID-19. By comparing set reported be potentially...
The Columbia Cancer Target Discovery and Development (CTD2) Center has developed PANACEA (PANcancer Analysis of Chemical Entity Activity), a collection dose-response curves perturbational profiles for 400 clinical oncology drugs in cell lines selected to optimally represent 19 cancer subtypes. This resource, study tumor-specific drug mechanism action, was instrumental hosting DREAM Challenge assess computational models de novo polypharmacology prediction. Dose-response 32 kinase inhibitors...
Abstract Background The integration of large-scale drug sensitivity screens and genome-wide experiments is changing the field pharmacogenomics, revealing molecular determinants response without need for previous knowledge about action. In particular, transcriptional signatures may guide repositioning, prioritize combinations point to new therapeutic biomarkers. However, inherent complexity signatures, with thousands differentially expressed genes, makes them hard interpret, thus giving poor...
Living a Big Data era in Biomedicine, there is an unmet need to systematically assess experimental observations the context of available information. This assessment would offer means for comprehensive and robust validation biomedical data results provide initial estimate potential novelty findings.Here we present BQsupports, web-based tool built upon Bioteque descriptors that analyzes quantifies current support given set observations. The relies on over 1000 distinct types descriptors,...
Abstract Biomedical data is accumulating at a fast pace and integrating it into unified framework major challenge, so that multiple views of given biological event can be considered simultaneously. Here we present the Bioteque, resource unprecedented size scope contains pre-calculated biomedical descriptors derived from gigantic knowledge graph, displaying more than 450 thousand entities 30 million relationships between them. The Bioteque integrates, harmonizes, formats collected over 150...
Abstract p38α (encoded by MAPK14 ) is a protein kinase that regulates cellular responses to almost all types of environmental and intracellular stresses. Upon activation, phosphorylates many substrates both in the cytoplasm nucleus, allowing this pathway regulate wide variety processes. While role stress response has been widely investigated, its implication cell homeostasis less understood. To investigate signaling networks regulated normally proliferating cancer cells, we performed...