发信人: Marble (小石头哥哥), 信区: Biology
标 题: Re: 请推荐promoter prediction的程序
发信站: The unknown SPACE (Mon Mar 17 18:15:21 2003), 站内信件

you can google these:
Audic/Claverie, TSSG, TSSW
TATA, NNPP
Autogene, PromoterScan, PromoterInspector
i have used some of them to analyze promoter region of
genes, and compare the prediction with data obtained
from mapping experiments.
my impression is that some of them worked pretty
well with TATA containing promoters (and i think their
algorithms should be primarily based upon such character),
though the training process might be somewhat different.
some of them might not be free anymore, or the website
not exist.
TSSG,TSSW: http://dot.imgen.bcm.tmc.edu:9331/gene-finder/gf.html
NNPP: http://www.fruitfly.org/seq_tools/promoter.html
PromoterScan: http://cbs.umn.edu/software/proscan/promoterscan.html
PromoterInspector:
http://genomatix.gsf.de/cgibin/promoterinspector/promoterinspector.pl
Eukaryotic Promoter Database
http://www.epd.isb-sib.ch

【 在 ldg (三十三块|老冬瓜－释) 的大作中提到: 】
: For prokaryote, esp. cyanobacteria
: Currently I have the complete sequence, and the position of start & stop codon
: is known.
: Anyone knows any good promoter prediction programs, besides NNPP?
: The more programs, the better, 'cause I'm going to make comparisons.


--
※ 来源:．The unknown SPACE bbs.mit.edu．[FROM: 128.118.]