(Web Homology ALErt Service) will automatically keep NIH scientists
informed of relevant new entries in these ever-growing DNA and protein
be largely familiar to those who use Porpoise to keep up-to-date
with the scientific literature. Like Porpoise, Whales is a web-based
resource that allows NIH scientists to define profilesin this
case, text terms or sequences. Once a week, these profiles will
be searched automatically against new entries in the Genbank, Genpept,
SwissProt, and PDB databases; the results will be returned via e-mail.
two profile modes: text mode and homology search mode. In text mode,
you can define a text string such as "tyrosine & kinase,"
or an authors name ("Wilson, I.A."), or even a protein
size ("between 340 and 350" amino acids) or molecular
weight ("greater than 60,000"). You can also specify an
organism such as Mus musculus.
profile is compared against the text and reference data in the headers
of new sequence entries. You can configure the weekly e-mail message
to contain just sequence names, accession numbers, some selected
fields, or even the entire sequence entry, at your choice.
search mode, you enter your own nucleotide or protein sequence,
which is then compared using Blast or Fasta with each weeks
new sequences. Your sequence should ideally be in Fasta format,
but most other formats will be converted automatically. Short peptides,
such as those produced from mass-spec analysis of protein digests,
can also be entered, and the Fasta program will then look for (potentially
noncontiguous) matches of all the peptides in the database sequences.
WHALES is possible only from computers on the NIH network and from
Parachute. All search results are returned to the e-mail address
associated with each persons unique e-mail alias in the NIH
developed by Helix Systems staff at CIT (Peter
FitzGerald and myself). For more information, see the Whales
help pages, or call GO-CIT, or e-mail to WHALES.