Go Back   Science Forums Biology Forum Molecular Biology Forum Physics Chemistry Forum > Molecular Research Topics Forum > Bioinformatics
Register Search Today's Posts Mark Forums Read

Bioinformatics Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


promoter binding site searching-why both strands?

promoter binding site searching-why both strands? - Bioinformatics

promoter binding site searching-why both strands? - Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


Reply
 
LinkBack Thread Tools Display Modes
  #1  
Old 01-16-2007, 02:43 PM
gocha_ada's Avatar
Pipette Filler
Points: 1,508, Level: 23 Points: 1,508, Level: 23 Points: 1,508, Level: 23
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: Jan 2007
Posts: 2
Thanks: 0
Thanked 0 Times in 0 Posts
Question promoter binding site searching-why both strands?



Hello !!!

I want to analyse promoters of a few genes. I never done something like that before. I found several programms sutaible for me. Most of them search transcription factors on both strands. Could somebody explaine me why?

Thanks in adavance
Reply With Quote
  #2  
Old 02-01-2007, 06:15 AM
moleculardude's Avatar
M.D/Ph.D
 
Join Date: Jul 2006
Location: Melbourne Australia
Posts: 423
Thanks: 5
Thanked 10 Times in 8 Posts
Default Re: promoter binding site searching-why both strands?

Hello there Gocha_ada!

Both strands are very important for promoter evaluation. This is because many transcriptional factors including enhancer elements (DNA binding factors) have been shown to bind to the sense AND anti-sense strands!

This is true especially with enhancer elements which can function on both strands due to looping mechanisms even up to several kb away!

cheers
Moleculardude
Reply With Quote
  #3  
Old 02-02-2007, 02:06 AM
cyberpostdoc's Avatar
Pipette Filler
Points: 1,509, Level: 23 Points: 1,509, Level: 23 Points: 1,509, Level: 23
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: Feb 2007
Location: New Jersey
Posts: 21
Thanks: 0
Thanked 0 Times in 0 Posts
Default Re: promoter binding site searching-why both strands?

Yes, some transcription factors help to separate the two strand before transcription start, therefore, binding motif they recognize might be on both strands.
Reply With Quote
  #4  
Old 03-26-2008, 01:15 PM
Pipette Filler
Points: 624, Level: 12 Points: 624, Level: 12 Points: 624, Level: 12
Activity: 0% Activity: 0% Activity: 0%
 
Join Date: Mar 2008
Posts: 1
Thanks: 0
Thanked 0 Times in 0 Posts
Default Re: promoter binding site searching-why both strands?

HI..i want to develop a tool tht can find promoter binding sites in E.coli??i have found several programs for tht but i couldn't find the specific pattern with which i can develop a tool?? can u please suggest me how i can found those patterns???
Reply With Quote
Reply

Tags
binding , promoter , searchingwhy , site , strands


Thread Tools
Display Modes

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off
Trackbacks are On
Pingbacks are On
Refbacks are On

Forum Jump

Similar Threads
Thread Thread Starter Forum Replies Last Post
how to find transcription factors binding sites on a promoter kalai Bioinformatics 2 03-11-2009 07:09 AM
I need help wth glutamic acid binding site!!! amg55driver Biochemistry Forum 2 12-06-2008 02:30 AM
Transcription factors binding site searching-why both strands? gocha_ada Bioinformatics 1 01-16-2007 03:45 PM
Expression values -> binding site profile, how?? Gregor Warsow Microbiology Forum 0 09-18-2006 01:24 PM
TF Binding site database J. Mcelwee C Elegans Forum 0 07-13-2004 03:55 PM


All times are GMT. The time now is 05:46 PM.


Powered by vBulletin® Version 3.8.4
Copyright ©2000 - 2014, Jelsoft Enterprises Ltd.
Copyright 2005 - 2012 Molecular Station | All Rights Reserved
Page generated in 0.12671 seconds with 16 queries