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7/6/2013

Open PHACTS apps get developer community buzzing

Experts from across Europe and beyond gathered in London at the end of April for the public release of the OpenPHACTS application programming interface (API) during the project’s Community Workshop. The API allows researchers to access and query the vast amounts of data compiled by the Open PHACTS project, creating their own, customised apps to do so if needed. The workshop featured demonstrations of two apps based on the API. PharmaTrek  developed by researchers of GRIB provides with an intuitive tool to explore the reams of target-protein interaction data that are publicly availabl e. Meanwhile, the ChemBioNavigator  app allows users to rapidly and easily compare the physicochemical properties of a molecule set.

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21/05/2013

UPF held an international course on Translational Bioinformatics

This 1-week course followed the series of multidisciplinary and innovative training activities organised by the project INBIOMEDvision and was held on the 22-26th of April at the Barcelona Supercomputing Centre (Spain) facilities at the lively University zone located uptown of Barcelona. The course was targeted to post graduate students with interest in the different integrative and translational research approaches in the field of Bioinformatics.

A group of 30 students from 10 different countries were selected to take part in the course based on personal motivation and previous study and research background with a special focus on translational and integrative studies.

The course was jointly organised with the Pompeu Fabra University (UPF), the Bioinformatics Barcelona (BIB), Barcelona Supercomputing Center (BSC), the Spanish Technological Platform for Innovative Medicines (PTEMI), and the Spanish Institute of Bioinformatics (INB). The organising and selection commitee was chaired by Dr. Laura I. Furlong (GRIB, IMIM-UPF), and other members were Prof. Ferran Sanz and Dr. Núria López-Bigas (GRIB, IMIM-UPF).

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9/5/13

PharmaTrek, a polypharmacology browser now released

PharmaTrek, a web-based tool developed by M.Carmen Carrascosa, member of the Chemogenomics group of GRIB (IMIM/ UPF) led by Jordi Mestres, within the framework of the EU funded project Open PHACTS, is officially released.  Try it out now: http://www.pharmatrek.org

This tool offers a totally new way of questioning pharmacology databases in a more interactive manner. Please, have a look at the demo video.

Publication Reference: Carrascosa MC, Massaguer OL, Mestres J. PharmaTrek: A Semantic Web Explorer for Open Innovation in Multitarget Drug Discovery. Mol Inf, 2012; 31 (8):537-541. DOI 10.1002/minf.201200070.

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Today, thesis defence of Núria Radó i Trilla at 11:00: "Low-complexity regions in proteins as a source of evolutionary innovation"

Today at 11:00 in the aula 473.10 of PRBB Nuria Radó i Trilla,  member of the Evolutionary Genomics group of GRIB (IMIM-UPF), will defend her thesis: "Low-complexity regions in proteins as a source of evolutionary innovation". All of you are invited to this event.

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Alba Jené Thesis

Thesis defence of Alba Jené "Integrative study of the regulatory and epigenomic programs involved in cancer development"

On April 29th at 11:00 at Sala Ramón y Cajal (ground floor) in the PRBB, Alba Jené, member of the Biomedical Genomics group of GRIB (IMIM-UPF) will defend her thesis: "Integrative study of the regulatory and epigenomic programs involved in cancer development"

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eTOX project extension approved until 2016

The review of the eTOX extension proposal (ENSO) was very positively evaluated by IMI JU and an extension until 2016 has been approved. The accomplishments of the eTOX team were highlighted as recommendable and the reviewers also considered it impressive that the eTOX consortium has generated such a large number of high quality publications. The extension will build upon early successes by expanding the acquisition of additional toxicology data inputs (species, types of trials, etc) and allowing access to more public databases. For this purpose four new partners: Fraunhofer ITEM (Germany), Erasmus Medical Center (Holland), University of Leicester (UK) and Universidad Politécnica de Valencia (Spain),  will join the consortium, allowing for greater linking between experimental animal and biochemical studies with human outcomes.

eTOX project is funded by the Innovative Medicines Initiative Joint Undertaking (IMI-JU) and coordinated by the GRIB.

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A GRIB project granted in the last call of breast cancer research by the Sandra Ibarra Foundation

The project "Elucidating the Network of Breast Cancer" by Eduardo Eyras, head of the Regulatory  Genomics Group of GRIB (IMIM-UPF) has been granted by the Sandra Ibarra Foundation of Solidarity Against Cancer. The project aims to carry out an exhaustive analysis of the splicing alterations in breast cancer that can remodel the network of protein-protein interactions. This work will contribute with signatures for breast cancer that may have not been detected before, will provide new knowledge about the role of splicing in breast cancer, and will serve to establish potential new lines of research to find novel therapeutic venues.

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26/3/2013

Open PHACTS develops prototype app

The Open PHACTS   project has developed a prototype of an iPhone app that provides rapid access to information on compounds of interest to drug developers. A video demonstration   of the app on YouTube shows how simply typing the name of a drug into the app delivers information on its chemical structure, function, pharmacology, and latest news relating to it. The app is not yet available as it is still in the early stages of development. Meanwhile, the project team points out that ‘the aim is to show that the next generation of drug discovery APIs [application programming interfaces] make app development so much easier’.

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26/3/2013

eTOX in the spotlight in special issue of Molecular Informatics

IMI’s drug toxicity project eTOX features in a special issue of the journal Molecular Informatics dedicated to advances in computational technology, a field where eTOX is making significant progress with its computer-based tools and models to predict drug toxicity. The challenges in the field are set out in a guest editorial by eTOX team member Thomas Steger-Hartmann of Bayer. The issue itself includes two contributions from eTOX. One article of the GRIB members Montserrat Cases, Manuel Pastor and Ferran Sanz presents the eTOX public library, which is described as ‘a useful resource for affording the in silico toxicity prediction of novel drug candidates’. A second article signed by researchers of the partner AstraZeneca, discusses the challenge of screening potential drugs for unintended side effects.

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24/01/2013

GRIB organise a Translational and Integrative Bioinformatics Postgraduate course in Barcelona

LAST WEEK to apply! (deadline 22nd of March)

The course will take place from 22nd to 26th of April 2013 at Barcelona Supercomputing Center and provides insight on the different integrative and translational research approaches in the field of Bioinformatics. The students will meet internationally renowned experts in the field and gain knowledge about the current challenges and opportunities in the emerging field of translational bioinformatics. The course is targeted to graduate students with background on: Bioinformatics, Medical Informatics, Medicine, Biology, Chemistry, Biochemistry, Pharmacy, Mathematics, Physics, Biomedical Engineering or related areas and is organized by the european FP7 project INBIOMEDvision led by the GRIB.

Click here for application form and other details

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