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Items tagged with "append term" (3)

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Taverna 1

Original Uploader

Paul Fisher

Add Mesh String to Biological Process (v2)

Created: 03/10/07 @ 18:36:28 | Last updated: 03/12/09 @ 16:42:48

License: Creative Commons Attribution-No Derivative Works 3.0 Unported License

This workflow is designed to add the following MeSH term to the end of a KEGG pathway name: AND "Metabolic Networks and Pathways" [MeSH Terms] Example input for this service is as follows: VEGF signaling pathway Hematopoietic cell lineage GnRH signaling pathway Type II diabetes mellitus

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Taverna 1

Original Uploader

Paul Fisher

Rank Phenotype Terms (v1)

Created: 10/08/09 @ 15:43:48

Credits: Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This 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 PubMed database. It also identified the total number of articles within pubmed so that a term enrichment score may be calculated. The workflow also takes in a document containing abstracts that are related to a particular phenotype. Scientiifc terms are then extracted from this text and given a weighting according to the number of terms that ...

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Tags (24):

abstracts
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append term
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authors
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concept
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cosine vector space
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data-driven
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enrichment
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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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information
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mining
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ncbi
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pathways
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phenotype
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pubmed
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ranking
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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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Files (1)

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Paul Fisher

Phenotype Term Counts (in Phenotype Corpus)

Created: 11/08/09 @ 13:34:42 | Last updated: 11/08/09 @ 13:58:28

Credits: Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This file contains a count of each phenotype term extracted from corpus of phenotype abstracts. Each value represents the number of articles in the phenotype corpus the term appears. The use of this file is to calculate a cosine vector score for correlating a given concept (e.g. pathway or gene) with a phenotype.

File type: Plain text

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