The mission of the Sequence Analysis & Consulting Service
) is to bring visualization, networking, computional
and bioinformatic tools to the UCSF research community.
These tools provide methods for characterization and interpretion
of genomic data, including nucleic acid and protein sequence analysis,
pharmacogenomics and data mining.
As part of the UCSF Resource
for Biocomputing, Visualization, and Informatics (RBVI)
SACS provides its services primarily on a recharge basis to UCSF researchers.
Collaborations may also be possible.
SACS has three TMD predictions program (HMMTOP, Memsat
and TMHMM) available for use through a SACS web interfaces.
These programs are open to the general public. The user supplies a fasta file for their
protein of interest and the selected program makes a TMD prediction which is then
displayed by TOPO2.
The TOPO2 can be used to generate a more sophisticated
image of the predication by entering the generated prediction into its web interface by hand
and then selecting from it numerous options to highlight residues of interest.
The image on the left is from a basic TOPO2 image of a TMHMM prediction for MXR (ABCG2).