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Usage of EST data for non-model species in proteomics


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#1 barnacleman

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Posted 30 September 2009 - 02:05 AM

Hi,

I am working on two dimensional gel electrophoresis-based proteomics on a non-model species (i.e. genome not sequenced).

Recently, a team generated the cDNA library of my studied species. May I know if I can use these EST information to help identifiy the proteins that could not be matched after MALDI TOF/TOF?

Thank you, appreciated.

#2 bob1

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Posted 30 September 2009 - 03:45 PM

Sure, there shouldn't be a problem with it, be aware that RNA doesn't always equal protein though.

#3 toejam

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Posted 01 October 2009 - 07:09 AM

i think you should consider codon usage as well. by doing a blastx you should be able to find it tho
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#4 barnacleman

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Posted 01 October 2009 - 09:05 PM

Sure, there shouldn't be a problem with it, be aware that RNA doesn't always equal protein though.


Hi, bob1

May I know what program should I use in order to carry out the search?

Thx again.




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