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Javier García, SBI group (on the left) receives the prize from Stephen Friend, President of Sage Bionetworks

Congratulations to the Structural Bioinformatics group of GRIB awarded in the Rheumatoid Arthritis Responder Challenge

The researchers of the Structural Bioinformatics group of GRIB, led by Baldo Oliva, recently participated in Subchallenge 2 of the RA Responder challenge in which participants had to identify individuals most likely to fail response to antiTNF therapy as defined by EULAR category.  The prediction of SBI group was done by using Gaussian processes for regression based on specific SNP dosages.The description of the SBI group method, as well as code, can be found here. The results of this work has been presentad at the Seventh Annual RECOMB/ISCB Conference.

The RA Responder Challege is one of the DREAM Challenges that pose fundamental questions about systems biology and translational medicine. Designed and run by a community of researchers from a variety of organizations, the challenges invite participants to propose solutions — fostering collaboration and building communities in the process.

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12/12/2014

El proyecto EMIF permitirá la reutilización eficiente de las fuentes de información biomédica

El proyecto "tiene como objetivo la creación de un espacio que permita la reutilizacion eficiente de las fuentes de información biomédica", explica Ferran Sanz, director del GRIB. Actualmente, "la gran cantidad de información relacionada con la salud de las personas abre posibilidades de avanzar en la investigación médica y en el desarrollo de nuevos tratamientos", indica; pero "estos datos se encuentran almacenados en repositorios dispersos, situados habitualmente de forma aislada en distintos sistemas, utilizando diferentes lenguajes de codificación e idiomas", añade. A través de EMIF se quiere promover la Plataforma Común de Información "que posibilite el acceso, la conexión y el análisis de fuentes de información clínica y de investigación biomédica, y la gestión de aspectos relativos al uso de estándares de datos, interoperabilidad semántica o aspectos legales, de ética y privacidad, para mejorar la práctica clínica en beneficio de los pacientes y de la población en general".

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El GRIB participa en el II Simposi en Bioinformàtica i Biologia Computacional

El GRIB participa en el II Simposi en Bioinformàtica i Biologia Computacional que es celebra avui 12 de desembre, de 9.00 a 18.30 hores, a la seu de l'Institut d'Estudis Catalans (C/ Carme, 47. Barcelona).

La jornada ha estat oberta per Roderic Guigó, catedràtic de genètica del Departament de Ciències Experimentals i de la Salut (CEXS) de la UPF i coordinador de la secció la Secció de Biologia Computacional de la Societat Catalana de Biologia de l'IEC, conjuntament amb Anna Ripoll, presidenta de Bioinformatics Barcelona (BiB).

El programa del simposi s'articula al voltant de quatre sessions,  a càrrec de rellevants ponents en els àmbits de la Jornada: John Overington, EBI-EMBL Cambridge (Regne Unit); David Posada, Universitat de Vigo, Alfonso Valencia, CNIO (Madrid) i Ramon Maspons, AQuAS (Barcelona), cadascun dels quals presentarà dos treballs seleccionats.

Aquesta és la segona trobada de bioinformàtics de Catalunya, i compta amb la col·laboració de Bioinformatics Barcelona (BiB), una nova plataforma de la qual  Ferran Sanz, director del GRIB (UPF-IMIM), n'és el director científic.

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02/12/2014

Come to the II Bioinformatics and Computational Biology Symposium on December the 12th

The II Bioinformatics and Computational Biology Symposium, jointly organized by the Societat Catalana de Biologia (SCB) and Bioinformatics Barcelona (BIB) will take place at the Institut d'Estudis Catalans on the 12th of December, 2014 with the participation of four great Keynote speakers and will select 8 abstracts for oral presentations.
The keynote speakers will be
John Overington (EBI-EMBL, Cambridge), David Posada (U de Vigo), Alfonso Valencia (CNIO, Madrid) and Ramon Maspons (AQuAS, Barcelona).

Please register before 10th of December 2014 

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European Medical Information Framework (EMIF) Colloquium - December 10th (18:00 - 20:00) at PRBB auditorium

The Colloquium will allow the EMIF partners, represented by 120 European scientists involved in the project, to explain the importance of real world data and the potential of EMIF in unlocking this information. The audience will consist of local stakeholders, pharmaceutical companies, the research
community and media.
The event will be held on December 10, between 18:00 - 20:00 at the Barcelona Biomedical Research Park (PRBB) auditorium. It will be followed by a networking drink on the PRBB terrace. There will be simultaneous interpretation available. Please register before December the 5th.

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LOD cloud

19/11/2014

DisGeNET inclòs en el diagrama Linking Open Data (LOD)

Actualment DisGeNET conté més de 300.000 associacions entre gairebé 17.000 gens humans i 13.000 malalties.

La plataforma per a l’anàlisi de les malalties humanes i els seus gens DisGeNET, desenvolupada pel Grup de recerca en Informàtica Biomèdica Integrativa del GRIB (IMIM-UPF) dirigit per Laura I. Furlong i Ferran Sanz, apareix per primera vegada en el diagrama de vinculació Linking Open Data (LOD).

Aquest tipus de diagrama mostra conjunts de dades en format Linked Data, que utilitza la World Wide Web (Web) per connectar dades estructurades i relacionades. El Linked Data és la millor manera d’exposar, compartir i connectar dades, informació i coneixement a la Web Semàntica.

La presència de DisGeNET en aquest diagrama és important perquè posa de manifest que la base de dades DisGeNET es publica d'acord amb els principis del Linked Data, i fa que sigui més visible i detectable pels usuaris del diagrama.

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13/11/2014

B·Debate simposi: Big Data in Biomedicine. Challenges and Opportunities

Prop de 200 bioinformàtics nacionals i internacionals han debatut al llarg de dos dies a CaixaForum Barcelona, els reptes i les oportunitats de les dades massives (big data) en biomedicina, convocats per B•Debate, la iniciativa de Biocat i l’Obra Social “la Caixa” per a promoure el debat científic.

Aquest esdeveniment, organitzat conjuntament per Bioinformatics Barcelona (BIB), l’European Bioinformatics Institute (EMBL-EBI), el GRIB (IMIM-UPF) i B·DEBATE, ha tingut com objectiu proporcionar un fòrum interdisciplinari adreçat a informàtics, bioinformàtics, així com  científics i professionals de la biomedicina.

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15/10/2014

The new voyage of the 'Argonautes'

Researchers of the Computational Genomics group of GRIB (IMIM-UPF) led by Eduardo Eyras, CRG, University of Buenos Aires and the Max Planck Institute in Gottingen have recently published a study in PNAS, reporting that Argonaute proteins play an important role in the regulation of genes in the cell nucleus. The published work describes how Argonaute proteins, besides their role in post-transcriptional regulation, can also affect gene expression during transcription, the cell process that makes mRNA from DNA.

Reference paper: Allo M, Agirre E, Bessonov S, Bertucci P, Gómez-Acuña L, Buggiano V, Bellora N, Singh B, Petrillo E, Blaustein M, Miñana B, Dujardin G, Pozzi B, Pelisch F, Bechara E, Agafonov D, Srebrow A, Lührmann R, Valcárcel J, Eyras E , Kornblihtt AR. Argonaute-1 binds transcriptional enhancers and controls constitutive and alternative splicing in human cells. PNAS, 2014

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28/10/2014

A study reveals a hitherto unknown protein affinity

The study, published today at Nature Communication, has been coordinated by the Computational Biophysics Group of GRIB led by Gianni de Fabritiis. This discovery is interesting both fundamentally and practically. From a practical standpoint, having a more complete understanding of such processes could help lead to better therapeutic strategies. Knowing how a mutation changes a natural interaction could lead to ways correct them. While the drugging of IDPs is still largely uncharted territory, it's possible that with lessons learned from our work and others a framework and methods can be built to tackle the challenge."We show that a modification to a disordered protein known as the Kinase Inducible Domain (KID) not only modulates what shapes it takes, but importantly the time it takes for the changes to happen", said De Fabritiis.

Reference: Stanley N, Esteban-Martín S, De Fabritiis G. Kinetic modulation of a disordered protein domain by phosphorylation. Nature Communication, 28th October 2014.

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29/10/2014

B·Debate Symposium: Big Data in Biomedicine. Challenges and Opportunities

The event, jointly organised by the GRIB (IMIM-UPF), B·DebateBioinformatics Barcelona (BIB),  European Bioinformatics Institute (EMBL-EBI), aims to provide a forum for professionals of computer science and bioinformatics communities and researchers of life sciences to discuss the needs of state-of-the-art life science data analysis and the challenges that they represent in terms of computational resources and data management systems.

An Open Symposium will take place on Wednesday 12 November at CaixaForum. Registration is open through this form
Program of the Open Symposium

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