Table 1 List of available operations of the CoPub Web Service
Name | Operation name | Input | Output | Description |
|---|---|---|---|---|
Get genes | Get _genes | Gene name, gene identifier | Biological identifier(s), with gene specific information | Each gene in CoPub belongs to an internal identifier (biological identifier). Get _genes converts the input gene to such a Biological identifier. This biological identifier serves as an input for subsequent operations. |
Get Keywords | Get _keywords | Keyword | Biological identifier(s), with keyword specific information | Retrieves for a set of keywords, the Biological identifiers to which these keywords belong in CoPub. These biological identifiers serve as an input for subsequent operations. |
Get references | Get _references | Biological identifier(s) | Literature references | Given a Biological identifier, retrieves all abstracts in which the term occurs. |
Get literature neighbours | Get _literature _neighbours | Biological identifier(s) | Literature neighbors | Given a Biological identifier, retrieves a list of keywords which are mentioned in the literature together with the input term. |
Get enriched keywords | Get _enriched _keywords | List of gene identifiers | List of enriched keywords | For a list of genes, this operation calculates a keyword overrepresentation. |
Get literature network | Get _literature _network | Biological identifier(s) | SVG / Cytoscape network | For a set of genes, the operation creates a network of genes. |
Get categories | Get _Categories | - | List of categories | Returns a list of categories of terms in CoPub |
Get chips | Get _chips | - | List of microarrays | Returns a list of available Affymetrix chip names in CoPub. |
Version | Version | - | Version of code and literature | Returns the version of the code and literature. |
Selftest | Selftest | - | Diagnostic information | - |