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Bioinformatics

Sabine Dietmann & Patrick Lombard

Hierarchical clustering of genomic regions bound by pluripotency regulators

Bioinformatics is an interdisciplinary field which addresses biological questions with computational and statistical methods. A major activity in bioinformatics is to develop and adapt software tools to generate useful biological knowledge in close collaboration with experimentalists. Bioinformatics has become an integral part of many research projects in stem cell biology. It plays a role in the analysis and interpretation of gene and protein expression and regulation. It aids in sequencing and annotating transcription and chromatin factor binding sites and epigenetic profiles. It plays a role in the textual mining of biological literature and the development of biological and gene ontologies to organize and query biological data. Bioinformatics tools aid in the comparison of genetic and genomic data and more generally in the understanding of evolutionary aspects of molecular biology. At a more integrative level, it helps analyze and catalogue the biological pathways and networks that are an important part of systems biology. In structural biology, it aids in the simulation and modeling of DNA, RNA, and protein structures as well as molecular interactions. Services and Equipment Computational resources comprise an integrated storage and computing infrastructure, with additional access to wider University computing facilities. The facility provides terabyte-level distributed data storage with reciprocal back-up of information stored at different sites, a secure data-exchange and online results display facility, and server-based multi-core computing facilities for use by core bioinformaticians. Data-handling and downstream analyses are implemented via the combination of custom and thirdparty, open-source and commercial software. The provision of licenses for popular commercial bioinformatics software to SCI members is in development. Training Training for experimentalists is provided in PERL scripting, R/Bioconductor statistical computing and applications of open-source software platforms, such as Galaxy. Staff

Transcription factor network for PGC specification

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Sabine Dietmann Lila Diamante Patrick Lombard

Cambridge Stem Cell Institute Brochure 2012  
Cambridge Stem Cell Institute Brochure 2012