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GENOTEXT: GENOmics conTEXT

GENOTEXT (GENOmics conTEXT) is an automated sytem that determines the experimental context of samples and data sets in the NCBI Gene Expression Omnibus. It extracts the contextual identifiers and annotations of samples and models these annotations using the largest available compendium of biomedical vocabularies, the Unified Medical Language System. The program and its results are pending publication. The following software is available. A program in Perl. A program in Java. A program in Java. Career Dev...

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GENOTEXT: GENOmics conTEXT | genotext.stanford.edu Reviews
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GENOTEXT (GENOmics conTEXT) is an automated sytem that determines the experimental context of samples and data sets in the NCBI Gene Expression Omnibus. It extracts the contextual identifiers and annotations of samples and models these annotations using the largest available compendium of biomedical vocabularies, the Unified Medical Language System. The program and its results are pending publication. The following software is available. A program in Perl. A program in Java. A program in Java. Career Dev...
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GENOTEXT: GENOmics conTEXT | genotext.stanford.edu Reviews

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GENOTEXT (GENOmics conTEXT) is an automated sytem that determines the experimental context of samples and data sets in the NCBI Gene Expression Omnibus. It extracts the contextual identifiers and annotations of samples and models these annotations using the largest available compendium of biomedical vocabularies, the Unified Medical Language System. The program and its results are pending publication. The following software is available. A program in Perl. A program in Java. A program in Java. Career Dev...

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GENOTEXT Citations

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Updated October 1, 2004.

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Downloading GENOTEXT

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The following software is available from this project. These programs are not meant to be downloaded and run; each will need modifications for ones own computer system and database structure. That iterates through GSE .soft files in a directory, extracts seven free-text annotations of each sample and series, and stores these in a MySQL database. That iterates through the mappings and removes many (but not all! That were manually determined to be incorrect. And its data file. Column 6 indicates whether th...

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GENOTEXT Gallery

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Hierarchical clustering of 448 GEO data sets, by treating each as a vector representing the presence or absence of a mapping from that data set to each UMLS concept, then calculating binary distance between data sets and clustering using complete linkage. A total of 6,612 samples are represented in these data sets. The numeral 1 indicates a cluster with 33 data sets all from the Alliance for Cellular Signaling. To download a version of this figure that you can use to zoom in and search, click here for.

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GENOTEXT: GENOmics conTEXT

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GENOTEXT (GENOmics conTEXT) is an automated sytem that determines the experimental context of samples and data sets in the NCBI Gene Expression Omnibus. It extracts the contextual identifiers and annotations of samples and models these annotations using the largest available compendium of biomedical vocabularies, the Unified Medical Language System. The program and its results are pending publication. The following software is available. A program in Perl. A program in Java. A program in Java. Career Dev...

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GENOTEXT: GENOmics conTEXT

GENOTEXT (GENOmics conTEXT) is an automated sytem that determines the experimental context of samples and data sets in the NCBI Gene Expression Omnibus. It extracts the contextual identifiers and annotations of samples and models these annotations using the largest available compendium of biomedical vocabularies, the Unified Medical Language System. The program and its results are pending publication. The following software is available. A program in Perl. A program in Java. A program in Java. Career Dev...

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