I am currently employed by GlaxoSmithKline (GSK). As a consequence, the workflows developed previously to this employment (before 5th September 2011) may no longer be supported.

Other contact details:

Not specified

Interests:

Workflows
QTL analysis
Microarrays
Biological pathway analysis
In silico automation
Epilepsy
Alzheimers
Genome Sequencing
Disease gene identification

Field/Industry: Bioinformatics

Occupation/Role(s): Bioinformatics Scientist

Organisation(s):

Not specified

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Creator

Paul Fisher

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Trichuriasis induced Colitis

Created: 2011-02-16 12:49:21 | Last updated: 2011-02-16 15:26:36

This pack contains the workflows and data relating to Trichuriasis induced colitis.

5 items in this pack

Comments: 0 | Viewed: 87 times | Downloaded: 38 times

Tags:

annotation
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chromosome
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controlled vocabulary
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cosine vector space
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data integration
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data-driven
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dresden
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efetch
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enrichment
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ensembl
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entity recognition
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esearch
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evidence
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gene expression
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gene identifier
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genotype
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kegg
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Kegg Pathways
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KeggID
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literature
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loci
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locus
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medline
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microarray
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mining
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pathway
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pathway-driven
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phenotype
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pubmed
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qtl
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quanitative
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ranking
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re-use
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significance
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term
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term extraction
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terms
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text
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text mining
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text mining; term extraction; entity recognition
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trait
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trichuris muris

Creator

Paul Fisher

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Text Mining Workflows

Created: 2010-12-08 11:55:03 | Last updated: 2011-02-01 11:33:11

This pack contains workflows to navigate from candidate Quantitative Trait genes and pathways to a given phenotype.

5 items in this pack

Comments: 0 | Viewed: 199 times | Downloaded: 62 times

Tags:

concept profile
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cosine vector space
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data-driven
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efetch
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entity recognition
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esearch
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gene
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gene identifier
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geneid
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genes
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genotype
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kegg
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Kegg Pathways
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KeggID
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literature
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loci
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locus
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ncbi
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pathway
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pathway-driven
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pathways
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phenotype
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pubmed
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qtl
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quanitative
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ranking
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space
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term
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term extraction
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terms
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text
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text mining
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text mining; term extraction; entity recognition
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trait
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vector

Creator

Paul Fisher

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Open Data: Bilateral Perisylvian Polymicrogyria

Created: 2010-11-16 16:20:43 | Last updated: 2011-09-23 10:55:08

This pack contains freely accessible data for scientific researchers to try and identify key genes linked to Bilateral Perisylvian Polymicrogyria. For those who want more information about this condition before they download the data, please see this link, which describes the condition and traits: http://omim.org/entry/300388?search=bilateral%20perisylvian%20polymicrogyria The results conatined within this pack are the output from running a scientific workflow that identifies candidate genes...

7 items in this pack

Comments: 0 | Viewed: 274 times | Downloaded: 47 times

Tags:

bilateral perisylvian polymicrogyria
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bioinformatics
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chromosome
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cosine vector space
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data-driven
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epilepsy
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genotype
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homo sapiens
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human
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Kegg Pathways
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phenotype
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text mining; term extraction; entity recognition
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trait

Creator

Paul Fisher

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Genotype to Pathway

Created: 2009-08-11 14:44:16 | Last updated: 2009-08-11 14:52:12

This pack is for investigating links between the genotype of an organisms to possible pathways. This constitutes half of the pathway-driven approach, genotype to pathway, and pathway to phenotype.

18 items in this pack

Comments: 0 | Viewed: 175 times | Downloaded: 46 times

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Creator

Paul Fisher

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Pathway to Phenotype using Text Mining

Created: 2009-08-10 13:01:47 | Last updated: 2009-08-11 14:51:31

This pack contains a list of workflows and result files obtained from the analysis of candidate pathways believed to play a role in resistance to African Trypanosomiasis in the mouse model organism.

12 items in this pack

Comments: 0 | Viewed: 296 times | Downloaded: 81 times

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Creator

Paul Fisher

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Towards Genotype-Phenotype Correlations

Created: 2009-04-08 13:14:54 | Last updated: 2009-08-11 14:50:01

It is increasingly common to combine Microarray and Quantitative Trait Loci data to aid the search for candidate genes responsible for phenotypic variation. Workflows provide a means of systematically processing large datasets, and represent a framework for the re-use and the explicit declaration of experimental methods. In this pack is a paper which describes the issues facing the manual analysis of microarray and QTL data for the discovery of candidate genes underlying complex phenotypes.&n...

20 items in this pack

Comments: 0 | Viewed: 304 times | Downloaded: 80 times

Tags: