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Bioinformatics Unit

Acting Unit Leader:



Jean-François Taly
Acting Head of the Bioinformatics Unit
CRG-Centre for Genomic Regulation
Room 460.01
Tel. +34 93 316 01 81

Short CV

 

2007. PhD in Structural Bioinformatics, National Instiute for Agronomic Research (INRA), Jouy-en-Josas, France
2008. Bioinformatician and Database developer, INRA, Jouy-en-Josas, France 
2009-2012. Postdoctoral researcher, Comparative Bioinformatics, CRG, Barcelona, Spain 
2012-2013. Bioinformatician, Core Facilities, CRG, Barcelona, Spain 
Sept 2013- Acting Head of the Bioinformatics Unit, CRG, Barcelona, Spain


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Overview

The Bioinformatics Core Facility aims to provide researchers at CRG, PRBB, and other external institutions with services of consultation, data analysis and management, software development, and access to computing resources. As further important commitment, the core will periodically organize courses and workshops in order to train biologists on the implementation of the main bioinformatics tools in their research.

The Unit is open to all researchers at the PRBB and also to external users anywhere in the world.

For further information please contact Jean-François Taly (phone: +34933160181).

FACILITY OVERVIEW

Starting in September 2009, the Bioinformatics Unit currently comprises six members. The team contributes to research projects by providing support and expertise in programming and advanced data analysis, focusing primarily on high-throughput genomics technologies including microarrays, genotyping, and next-generation sequencing.

SERVICES

The main goal of the unit is to set up a collaborative environment within CRG/PRBB and contribute to research projects providing support to scientists on several bioinformatics aspects.

Basic services:

  • Consultation on bioinformatics methods and resources
Assistance with the computational aspects of research by providing support and consultation in relation to data management, statistical data analysis, and interpretation of experimental data, focusing primarily on high-throughput genomics technologies.
  • Software evaluation, implementation, and training
Support on the evaluation and implementation of new bioinformatics software (gathering of users requirements, scheduling, implementation, validation, documentation, training, and end-users support).
  • Customization of bioinformatics resources
Local implementation of genome-related software (e.g. genomics browsers like Ensembl, UCSC, and GBrowse) and most common bioinformatics tools (Galaxy, EMBOSS, among others).
More information in our wiki.
Local implementation of genome-related software (e.g. genomics browsers like Ensembl, UCSC, and GBrowse) and most common bioinformatics tools (Galaxy, EMBOSS, among others).
 
Advanced services:
  • High-throughput data analysis of genomics, transcriptomics, and proteomics datasets;
  • Downstream analysis for the interpretation of gene lists, including gene set enrichment and over-representation of biological functions using Gene Ontology terms;
  • Identification of functional genomics elements, such as genes and regulatory sequences, through comparative genomics approaches;
  • Construction of ad-hoc databases and web interfaces to allow systematically storage, management, analysis, and search of biologically relevant information;
  • Development of bioinformatics scripts and more advanced pipelines to automate sequence analyses and genome annotation tasks

The unit will be also focused on the education of biologists in the analysis and interpretation of their experimental data through the provision of custom advice and training in bioinformatics as well as in the acquisition of basic programming skills.
More information in our wiki.

Publications in the CRG database

Doles J, Storer M, Cozzuto L, Roma G, Keyes WM..
Age-associated inflammation inhibits epidermal stem cell function
Genes & Development 26(19):2144-53. doi: 10.1101/gad.192294.112 (2012). abstract
Morey L, Pascual G, Cozzuto L, Roma G, Wutz A, Benitah SA, Di Croce L..
Nonoverlapping functions of the polycomb group cbx family of proteins in embryonic stem cells.
Cell Stem Cell 10(1):47-62. (2012).
Mihailovich M, Wurth L, Zambelli F, Abaza I, Militti C, Mancuso FM, Roma G, Pavesi G, Gebauer F..
Widespread generation of alternative UTRs contributes to sex-specific RNA binding by UNR".
RNA 2012 Jan;18(1):53-64. Epub 2011 Nov 18. (2012). abstract
Mancuso FM, Montfort M, Carreras A, Alibes A, Roma G..
"HumMeth27QCReport: an R package for quality control and primary analysis of Illumina Infinium methylation data".
BMC Res Notes. 4(1):546. [Epub ahead of print] (2011). abstract
Uribesalgo I, Buschbeck M, Gutiérrez A, Teichmann S, Demajo S, Kuebler B, Nomdedéu JF, Martín-Caballero J, Roma G, Benitah SA, Di Croce L.
E-box-independent regulation of transcription and differentiation by MYC.
Nature Cell Biology doi: 10.1038/ncb2355. (2011).

 
 
 

Unit Members

 

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