Is it possible to generate a list of epitopes identified as cross-reactive against different strains of the same species? Can I look at reactivity across genera?
On the 'Search' pull-down tab along the top on the IEDB home page, select B cell Search or T cell Search.
Under Epitope, click the Organism Finder to enter the source organism of interest. Select from list of common selections (click on the selection and hit Apply Selection).
If your organism is not in the list, type the genus/species under Find (Use NCBI taxonomy) and hit 'Search.' The Finder will locate your entry within the taxonomy tree and it will be highlighted in blue. Click on this and once the organism appears in the Current Selection box at the top, click Apply Selection.
Under the Immunization section, choose the Host Organism Finder to select host.
Expand the 1st Immunogen section and use Epitope Relation to select Taxonomic Sibling. Just below that under Type, select Organism from the pull-down menu.
Under the B or T cell Assay section, expand Antigen and use Epitope Relation = Epitope.
At the bottom of this page, hit 'Search' and this will generate a set of Search Result Summary tables.
Find Epitopes at the top of the table and see the value in blue showing the number of epitopes reported to be cross-reactive against different species/strains within the genus of the epitope's source organism.
The taxonomic sibling relationship will generate all organisms within a given taxonomic Family as siblings, thus you may see results within and across genera.
Click on the value in blue to see detailed information relating to epitope reference, structure, immunization processes and assays.
Results may include multiple pages and can be downloaded through the green Excel-based Export all results link.