New BCM Gene-Finder service:
==========================================================================
FGENED, FEXD and DSPL Recognition of Ivertebrate (Drosophila/Nematode) gene structure
==========================================================================
These three new program developed for analysis of Invertebrate sequences:
the programs are similar with Gene-finder programs that were developed earlier for
analysis of Human or Mammalian sequences. They work for Drosophila as well as for
Nematode sequences. You can receive instruction about sequence format from WWW page
FGENED -prediction of gene structure with assembling of potential exons
FEXD - prediction of 5'-, internal and 3'- potential exons
DSPL - prediction of splice sites
Analysis of uncharacterized sequences and help files are available
through WWW: http://dot.imgen.bcm.tmc.edu:9331/gene-finder/gf.html
or by sending your file containing a sequence
(the sequence format is described below) Weizmann Institute of Science Email services:
services at bioinformatics.weizmann.ac.il
(and soon will be available in University of Houston: service at bchs.uh.edu )
Examples: mail -s fgened services at bioinformatics.weizmann.ac.il < test.seq
or mail -s fgened service at bchs.uh.edu < test.seq
where test.seq a file with the sequence.
The same for FEXD and DSPL programs.
Questions:solovyev at cmb.bcm.tmc.edu
===============================================================
The other services are
===============================================================
FGENEH - search for Mammalian gene structure with exons assembling by dynamic programming
FEXH - search for 5'-, internal and 3'-exons
HEXON - search for internal exons
HSPL - search for splice sites
RNASPL - prediction exon-exon junctions in cDNA sequences
CDSB - prediction of Bacterial coding regions
HBR - recognition of human and bacterial sequences to test a library
for E. coli contamination by sequencing example clones
TSSG - recognition of human promoter regions (Ghosh/Prestridge motif data)
TSSW - recognition of human promoter regions (Weingender motif data base)
POLYAH - recognition of of 3'-end cleavage and polyadenilation region
of human mRNA precursors
FGENED - search for Invertebrate gene structure with exons assembling by dynamic programming
FEXD - search for Invertebrate 5'-, internal and 3'-exons
DSPL - search for Invertebrate splice sites
SSP - prediction of a-helix and b-strand in globular proteins
by segment-oriented approach.
NSSP - prediction of a-helix and b-strand segments in globular proteins
by nearest-neighbor algorithm.
