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Research

The remit of the CCBI is computational biology in its broadest sense. Currently the research interests of the CCBI follow those of its members and associates but it is hoped in the future to set up groups that can provide centralised expertise in statistics, databases and software development to underpin research across the University: many labs need help in these areas but individually find it hard to maintain critical mass.

Current Projects

• Theoretical Neuroscience

• • Development of the nervous system. Principle areas of research include: spatial distribution of cells within the retina and other areas of the central nervous system; properties of spontaneous activity in the retina; formation of topographics maps.

• Cancer Genomics

• • Cancer Research UK funded projects on statistical analysis of microarray data, including expression arrays and arrayCGH. Identification of molecular signatures in tumours.

  • See also: CancerGRID

• Stochastic Computation

• • Development of computationally intensive methods for inference for stochastic processes. Principle areas of application include population genetics (linkage disequilibrium mapping, coalescent methods), and evolutionary biology.

• ENCODE Variation Analysis Group

• • We are part of the ENCODE project engaged in correlating patterns of DNA sequence variation with functionally annotated ENCODE regions.

• modENCODE project

• • NIH-funded project to integrate the data generated by the model organisms ENCODE project. The modENCODE project will generate high-resolution annotation for both the Drosophila melanogaster and C. elegans genomes. (Cambridge Systems Biology Centre and Department of Genetics)

• Natural Language Processing: FlySlip

• • BBSRC funded project to apply natural language processing techniques to improve literature curation for the FlyBase Drosophila model organism database (Computer Lab and Department of Genetics)

• Data Integration:FlyMine

• • Wellcome Trust funded data integration project for Drosophila and Anopheles genomics data (Department of Genetics and Department of Biochemistry). In addition there is a CMI-funded pilot project to incorporate human and mouse data with the CIMR.

• Comparative Genomics/ Developmental Biology: Haematopoietic Stem Cell Systems Biology

• • Application to the Wellcome Trust and the MRC for support to study the development of blood stem cells through gene expression analysis, comparative analysis across several complementary organisms as well as data curation and model building.

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