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Caption: Location of some of the tumours analysed in The Cancer Genome Atlas

Major milestone reached in effort to identify cancers’ genetic roots

The project Cancer Genome Atlas details genetic mutations driving cancer in 27 papers published on 5 April in Cell Press journals. One of the studies is led by Washington University and has the participation of the head of the  Computational RNA Biology group of GRIB,  Eduardo Eyras

An international team coordinated by the National Institutes of Health (NIH) have reached a major milestone in describing the genetic landscape of cancer. The researchers have completed the genetic sequencing and analyses of more than 11,000 tumours from patients, spanning 33 types of cancer. These are part of The Cancer Genome Atlas (TCGA) project, launched in 2005 to pursue the genetic basis of cancer.

Eduardo Eyras  has participated in the study of the splicing alterations in tumours. "These analyses reveal that a significant number of mutations studied previously were poorly classified, and it could be more relevant than was thought to understand cancer and for the identification of therapeutic strategies", describes Eyras.

Article Ref.: Jayasinghe RG, Cao S, Gao O, Wendl MC, Vo NS, Reynolds SM, Zhao Y, Climente-González H, Chai S, Wang F, Varghese R, Huang M, Liang WW, Wyczalkowski MA, Sengupta S, Li Z, Payne SH, Fenyö D, Miner JH, Walter MJ. The Cancer Genome Atlas Research Network, Vincent B, Eyras E, Chen K, Shmulevich I, Chen F, Ding L. Systematic Analysis of Splice-Site-Creating Mutations in Cancer. Cell Rep, 2018; 23(1): 270-281.e3. DOI: 10.1016/j.celrep.2018.03.052.

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Estructura proteica d'una petita proteïna (stannin) https://en.wikipedia.org/wiki/File:1zza.png

Nou pas per entendre l’origen dels gens

Com es van crear els blocs bàsics que serveixen per construir qualsevol ésser viu, els gens? És la pregunta que un recent estudi liderat per investigadors del Grup de Genómica Evolutiva del GRIB led by Mar Albà ha intentat resoldre.

El treball, que acaba de publicar la revista Nature Ecology and Evolution, ha permès identificar, mitjançant tècniques de seqüenciació massiva, una gran quantitat de proteïnes noves en el genoma del ratolí. "Aquest treball mostra que un procés anàleg a la formació de gens nous que va tenir lloc al principi de la vida continua actiu avui en dia", explica la Dra. Mar Albà, "queda molta feina per fer per entendre completament l'impacte dels gens de novo en l'evolució recent, però cada vegada tenim més evidència del fet que tenen un pes important". 

Article de referència

Jorge Ruiz-Orera, Pol Grau-Verdaguer, José Luis Villanueva-Cañas, Xavier Messeguer, M.Mar Albà. Translation of neutrally evolving peptides provides a basis for de novo gene evolution. Nature Ecology and Evolution, 19 Jan 2018.

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Last project

eTRANSAFE

The project eTRANSAFE: Enhancing Translational Safety Assessment through Integrative Knowledge Management, aims to develop an advanced data integration infrastructure together with innovative computational methods to improve the security in drug development process. The project is funded by the Innovative Medicines Initiative (IMI 2) together with the pharmaceutical industry for the period 2017-2022 and is coordinated by the GRIB. 

http://www.etransafe.eu/

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Last publications

  • Kaczor AA, Bartuzi D, Stepniewski TM, Matosiuk D, Selent J. Protein-Protein Docking in Drug Design and Discovery. Methods Mol Biol, 2018; 1762:285-305. PMID: 29594778 . DOI: 10.1007/978-1-4939-7756-7_15.
  • Jayasinghe RG, Cao S, Gao O, Wendl MC, Vo NS, Reynolds SM, Zhao Y, Climente-González H, Chai S, Wang F, Varghese R, Huang M, Liang WW, Wyczalkowski MA, Sengupta S, Li Z, Payne SH, Fenyö D, Miner JH, Walter MJ. The Cancer Genome Atlas Research Network, Vincent B, Eyras E, Chen K, Shmulevich I, Chen F, Ding L. Systematic Analysis of Splice-Site-Creating Mutations in Cancer. Cell Rep, 2018; 23(1): 270-281.e3. PMID: 29617666 . DOI: 10.1016/j.celrep.2018.03.052.
  • Cuadrado A, Manda G, Hassan A, Alcaraz MJ, Barbas C, Daiber A, Ghezzi P, León R, López MG, Oliva B, Pajares M, Rojo AI, Robledinos-Antón N, Valverde AM, Guney E, Schmidt HHHW. Transcription Factor NRF2 as a Therapeutic Target for Chronic Diseases: A Systems Medicine Approach. Pharmacol Rev, 2018; 70(2): 348-383. PMID: 29507103 . DOI: 10.1124/pr.117.014753.
  • Trincado JL, Entizne JC, Hysenaj G, Singh B, Skalic M, Elliott DJ, Eyras E. SUPPA2: fast, accurate, and uncertainty-aware differential splicing analysis across multiple conditions. Genome Biol, 2018; 19(1):40. PMID: 29571299 . DOI: 10.1186/s13059-018-1417-1.

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