Table 1.
Outline of features for GeneMesh and other web tools with MeSH analysis capabilities.
| Feature | GeneMesh | Gendoo | MeSHer | HuGE Navigator |
|---|---|---|---|---|
| Map gene(s) to MeSH categoriesa | Yes | Yes | Yes | Yes |
| Browse MeSH relationshipsb | Yes | Yes | Yes | Yes |
| Microarray platform independencec | Yes | Yes | - | Yes |
| Capable of analyzing a group of genesd | Yes | Yes | Yes | - |
| Significance analysis of MeSH categoriese | Yes | Yes | Yes | - |
| Significance analysis threshold is adjustablef | Yes | - | Yes | - |
| Expression data uploadg | Yes | - | - | - |
| Graphical display of expression data (e.g., heatmaps, tables) | Yes | - | - | - |
| MeSH output can be viewed by functional attributes (e.g., KEGG pathway, Gene Ontology, NCBI interaction)h | Yes | - | - | - |
| Web 2.0 design | Yes | - | - | - |
a Software identifies links between MeSH categories and genes
b Software offers a browser feature to navigate through gene associations and/or the MeSH framework
c Software analyzes based on gene name, symbol or ID as opposed to a sequence identifier associated with a specific microarray platform
d Software can analyze a group of input genes as opposed to a single gene
e Software performs a statistical analysis to identify significant MeSH categories for the input gene set
f Threshold for significance analysis can be adjusted to govern stringency
g Software will upload expression data together with the gene set
h Output is presented to facilitate browsing of other functional attributes, including KEGG pathway, Gene Ontology, and NCBI interactions