GRIB. Research Unit on Biomedical Informatics





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The ESTIV Best Poster Award at Eurotox2014 goes to Chemotargets

Chemotargets, the spin-off of the Systems Pharmacology group of GRIB (IMIM-UPF), has been awarded with the European Society for Toxicology In Vitro (ESTIV) Best Poster Award at the conference Eurotox2014 held in Edinburgh (Scotland) last September.

The poster entitled "Computational prediction of off-target related risks of molecules: cardiotoxicity, hepatotoxicity, and reproductive toxicity" was done in collaboration with the pharmaceutical company Sanofi. The work shows how the prediction of the pharmacological profile of a molecule, made using the software CTlink developed at Chemotargets, allows for identifying relationships between unintended protein interactions (off-target) and different modes of toxicity.

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Parts of the genome without a known function may play a key role in the birth of new proteins

Researchers of the Evolutionary Genomics group of GRIB (IMIM-UPF) and the Universitat Politècnica de Catalunya (UPC) have recently published a study in eLife showing that RNA called non-coding (IncRNA) plays an important role in the evolution of new proteins, some of which could have important cell functions yet to be discovered.

We have confirmed that in all six species that were studied –human beings, mice, fish, flies, yeast and a plant– many of the IncRNAs were associated to ribosomes and seemed to be ready to translate RNA into proteins. This suggests that they could act as a repository for the synthesis of new proteins” explains Mar Albà, ICREA professor and leader of the Evolutionary Genomics grup.

Article Ref.: Ruiz-Orera J, Messeguer X, Subirana JA, Alba MM. Long non-coding RNAs as a source of new peptides. eLife, 2014;3: e03523

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Last project

Open PHACTS

The Open Pharmacological Concepts Triple Store project (Open PHACTS) will develop an open access innovation platform, called Open Pharmacological Space (OPS), via a semantic web approach. OPS will be comprised of data, vocabularies and infrastructure needed to accelerate drug- oriented research. The aim is to develop an enabling resource for drug discovery projects which is open to all users and freely available in the public domain. This european project is funded by IMI and has been recently extended until 2016.

http://www.openphacts.org/

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Last publications

  • Hoadley KA, Yau C, Wolf DM, Cherniack AD, Tamborero D, Ng S, Leiserson MD, Niu B, McLellan MD, Uzunangelov V, Zhang J, Kandoth C, Akbani R, Shen H, Omberg L, Chu A, Margolin AA, Van't Veer LJ, Lopez-Bigas N, Laird PW, Raphael BJ, Ding L, Robertson AG, Byers LA, Mills GB, Weinstein JN, Van Waes C, Chen Z, Collisson EA; Cancer Genome Atlas Research Network, Benz CC, Perou CM, Stuart JM. Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin. Cell, 2014; 14; 158(4):929-44. PMID: 25109877 . DOI: 10.1016/j.cell.2014.06.049.
  • Schroeder MP, Rubio-Perez C, Tamborero D, Gonzalez-Perez A, Lopez-Bigas N. OncodriveROLE classifies cancer driver genes in loss of function and activating mode of action. Bioinformatics, 2014; 30(17):i549-i555. PMID: 25161246 . DOI: 10.1093/bioinformatics/btu467.
  • Gobbi A, Iorio F, Dawson KJ, Wedge DC, Tamborero D, Alexandrov LB, Lopez-Bigas N, Garnett MJ, Jurman G, Saez-Rodriguez J. Fast randomization of large genomic datasets while preserving alteration counts. Bioinformatics, 2014; 30(17):i617-i623 . PMID: 25161255 .
  • Vento-Tormo R, Rodríguez-Ubreva J, Di Lisio L, Islam AB, Urquiza JM, Hernando H, López-Bigas N, Shannon-Lowe C, Martínez N, Montes-Moreno S, Piris MA, Ballestar E. NF-KappaB directly mediates epigenetic deregulation of common microRNAs in Epstein-Barr virus-mediated transformation of B-cells and in lymphomas. Nucleic Acids Res, 2014 . PMID: 25200074 .

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