The Gene List Analysis Tool can be accessed directly from the PANTHER home page (www.pantherdb.org) (Figure 3). There are several options for users to input a list of genes (and optionally quantitative data) for analysis. The PANTHER database uses some database identifiers as the primary IDs for each gene, and they are the most common option for input file (e.g., a UniProt identifier, an Entrez Gene identifier, or even a gene symbol). The PANTHER database also maps identifiers from a number of different sources for 82 different organisms using the UniProt IDmapping mechanism, and the identifiers in the user’s list are automatically mapped to the primary IDs in the PANTHER database (Figure 1). A total list of the supported IDs can be found in Box 1. A report is generated that lists not only the mapping of each gene, but also the identifiers that could not be mapped, if any. Since each gene in the PANTHER database belongs to a phylogenetic tree that is annotated with GO and PANTHER ontology terms and pathways, the mapped IDs from the gene list
