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2 Οκτ 2013 (πριν από 3 χρόνια και 8 μήνες)

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School of something

FACULTY OF OTHER

Institute of Molecular and Cellular Biology

FACULTY OF BIOLOGICAL SCIENCES

BHRC: bioinformatics technology
group


David R. Westhead (FBS)*, Andrew J. Bulpitt
(Computing)



Molecular biomedicine is becoming increasingly data rich


DNA microarrays


measure expression of >25000 genes in one
experiment and databases contain 1000s of experiments


New generation sequencing


My group is now dealing with experiments that produce almost a
human genome of sequence in one run (3 Giga bases)


New proteomic methods e.g. SILAC


Molecular biology groups generate this data but seldom have the
computer skills to handle it or the statistical skills to analyse it


The technology group will provide this service



Raison d’être


We are used to being flexible and dealing with new data types


DRW group expertise


Microarray data


High
-
throughput sequencing


particularly Chip
-
seq, RNA seq and
genomic sequence


Protein structure and interactions


AJB group expertise


Image analysis


But we will aim to be able to support other needs as well

What sort of data?


Here is a more extensive list of what the group could do

Genome sequence analysis

Gene expression analysis using sequencing and array methods

ChIP on chip and ChIP
-
seq

Sequence motif discovery

Copy number analysis

Annotation
-

comparative and ab initio techniques

Gene network analysis

Point mutations and SNPs

Comparative genome studies

Genome wide association studies

Protein structure prediction

Analysis of protein microarrays

High throughput mass spectrometry data

Protein
-
Protein docking

Protein Interaction

Simulation of cellular subsystems to analyze pathways and regulatory/signalling networks

Tools for automated literature searches

What sort of data/methods ?


We will provide


Expert advice on experimental design and data analysis


Expert advice and support for the development of grant application
proposals


Co
-
Investigator or researcher input into external grant activity


Education on bioinformatics tools and methods


Consultancy




We will provide


Support and provide expertise in using existing tools and software
packages


Expertise in scripting languages to develop analysis pipelines


Expertise in high volume data analysis and statistics, including novel
methods and bespoke analyses


Developing new interfaces for existing tools


Development of databases to store and host data


WWW developments

Technical support


How will funding work


BHRC funds 2 posts for 5 years


You will be able to apply for access to this resource


Level of demand is not clear at the moment


Longer term we aim to make the group self funding from grant
applications


You will include costs on your grant


Different levels of cost depending on the project and how much
support is needed


Funding and access to the group