FW: Corra questions?
Mi-Youn Brusniak
Dear Dayle,
What email address did you use to contact me? You said the mail you tried to send to me bounced back.
Would you please confirm that you have received this email.
1. Source code and installation guide.
http://tools.proteomecenter.org/Corra/corra.html or http://sourceforge.net/projects/corra/files/
to download Corrav3.1.
When you unzip Corrav3.1, you will go Corra/doc/ and you will see both Corra Installation Guide.doc and CorraUserGuide.doc files.
2. Corra data acquisition.
We had worked out for best way to acquiring data for Corra analysis is making sure you have 60000 resolution for MS1 scan (please acquire data profiled mode) and 2-3MS2 scan per MS1 scan. This will give enough MS1 data profiled point.
3. Corra google groups.
I posted similar answers to your question in Corra google group in the past. I would recommend to join the group. I am cc the group name.
4. Support from ISB
We have a very talented colleague named Micheleen Harris, who has been working with Corra and other project in ISB.
Thanks to center grant in ISB, Micheleen has been supporting Corra application for various biological sample applications.
If you have further questions, we encourage to use Corra discussion group but if you would like to have more tight collaboration with us, please contact me and Micheleen.
Thank you for interested in using Corra pipeline and feel free to contact us if you need further assistant.
Mi-Youn
From: Information Proteome Center [mailto:in...@proteomecenter.org]
Sent: Tuesday, March 15, 2011 9:42 AM
Subject: FW: Corra questions?
-----Original Message-----
From: Dayle Sampson [mailto:dayle....@qut.edu.au]
Sent: Mon 3/14/2011 11:23 PM
To: Information Proteome Center
Subject: Corra questions?
Hi Guys, I was chasing Mi-Youn K. Brusniak's contact details as I have the following questions regarding Corra. All the emails I send keep getting bounced back. I'm hoping you might be able to forward this onto her or to someone who understands the software Corra....
I'm looking into some label free quantitation techniques. I've had a chat to our IT guy who setup the TPP here at IHBI which we are currently using. He's having trouble figuring out how to set up Corra and has requested more details on installation? The Corra tutorial doesn't really discuss installation, can you please help?
In terms of the software itself.. From what I've read it's an MS1-based quant method. So with this in mind what is the best way to present data to Corra. Should I perform a full MS1 scan without switching to MS2 acquisition on a slower instrument? My concern is that I won't have enough data points along the MS1 TIC to get accurate quant if I switch to MS/MS scans throughout the experiment. How does Corra deal with this situation? Perhaps after finding regions of interest I could return and do a MS/MS scan on the precursor masses that Corra finds. Is this appropriate use of the software?
Kind regards,
Dayle Sampson | PhD Candidate | Tissue Repair and Regeneration Program | Institute of Health and Biomedical Innovation
Queensland University of Technology | 60 Musk Ave, Kelvin Grove QLD 4059 Australia
t: +61 7 3138 6228 | e: samp...@qut.edu.au | w: www.ihbi.qut.edu.<blocked::blocked::http://www.ihbi.qut.edu.au/> au<blocked::blocked::http://www.ihbi.qut.edu.au/>