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Showing 9 results. Use the filters on the left and the search box below to refine the results.
Category: Workflow Tag: data integration User: Paul Fisher

Workflow Pathways and Gene annotations for QTL region (2)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the Pig, Sus scrofa. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG pathway ...

Created: 2009-11-20 | Last updated: 2009-11-20

Credits: User Paul Fisher

Attributions: Workflow Pathways and Gene annotations for QTL region

Workflow Get graphs (2)

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Thiw workflow simply returns all the Ondex graphs that are present on a given server (where the web service is)

Created: 2009-11-05

Credits: User Paul Fisher

Workflow Get Graphs of Name (1)

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This workflow gets the Ondex graphs relating to a specified name

Created: 2009-02-27

Credits: User Paul Fisher

Workflow Get Concepts (1)

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This workflow gets all the concepts in an Ondex graph, using a given graph id

Created: 2009-02-27

Credits: User Paul Fisher

Workflow Get relations (1)

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This workflow gets all the realtions from a given Ondex graph

Created: 2009-02-27

Credits: User Paul Fisher

Workflow Get Evidence Types (1)

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This workflow gets all the evidence types within a specified Ondex graph

Created: 2009-02-27

Credits: User Paul Fisher

Workflow Get CVs (1)

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This workflow lets users retrive all controlled vocabularies for a given Ondex graph

Created: 2009-02-27

Credits: User Paul Fisher

Workflow Pathways and Gene annotations forQTL region (2)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in Human, Homo sapiens. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG pathway ...

Created: 2011-03-17 | Last updated: 2011-08-30

Credits: User Paul Fisher

Attributions: Workflow Pathways and Gene annotations for QTL region

Workflow Pathway and Gene to Pubmed (2)

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This workflow takes in a list of gene names and KEGG pathway descriptions, and searches the PubMed database for corresponding articles. Any matches to the genes are then retrieved (abstracts only). These abstracts are then used to calculate a cosine vector space between two sets of corpora (gene and phenotype, or pathway and phenotype). The workflow counts the number of articles in the pubmed database in which each term occurs, and identifies the total number of articles in the entire PubMe...

Created: 2011-02-10 | Last updated: 2011-02-18

Credits: User Paul Fisher

Attributions: Workflow Cosine vector space Workflow Extract Scientific Terms Workflow Rank Phenotype Terms Workflow Cosine vector space Workflow Rank Phenotype Terms Workflow Pathway to Pubmed Workflow Extract Scientific Terms Workflow Gene to Pubmed

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