Forum: Bioinformatics
02-24-2015, 12:59 PM
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Replies: 7
Views: 1,407
Thank you for the answers!
I will follow...
Thank you for the answers!
I will follow your suggestions to try to solve this issue.
Still regarding RNA-seq, in this same set of contigs I got some pairs of contigs that were annotated with...
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Forum: Bioinformatics
02-24-2015, 04:29 AM
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Replies: 7
Views: 1,407
First, I want to find the differentially...
First, I want to find the differentially expressed transcripts between two different conditions. Second, I want to assign to these transcripts gene ontology terms -- using blast2go or Argot2 -- to...
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Forum: Bioinformatics
02-23-2015, 06:35 PM
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Replies: 7
Views: 1,407
Hi alezhe!
Can CAP3 (or another assembler)...
Hi alezhe!
Can CAP3 (or another assembler) work in my case considering that these transcripts are non-overlapping? When I used "Blast 2 sequences" to align these transcripts, no significant...
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Forum: Bioinformatics
02-23-2015, 12:49 PM
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Replies: 7
Views: 1,407
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Forum: Bioinformatics
02-03-2015, 06:50 PM
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Replies: 5
Views: 1,377
Hi Brian and GenoMax!
The Blast alignments I...
Hi Brian and GenoMax!
The Blast alignments I posted are of the transcriptome to itself. Anyway, transcripts are from a tetraploid organism.
GenoMax, the sequences have been assembled by someone...
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Forum: Bioinformatics
02-03-2015, 04:06 PM
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Replies: 5
Views: 1,377
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Forum: Bioinformatics
02-02-2015, 12:34 PM
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Replies: 5
Views: 2,718
Kopi-o and GenoMax,
Thank you for your...
Kopi-o and GenoMax,
Thank you for your answers.
So, if I use a non-stranded protocol to generate my RNA-seq library and after sequencing and assembling I discover that some pairs of my...
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Forum: Bioinformatics
01-29-2015, 05:37 AM
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Replies: 5
Views: 2,718
Dear GenoMax,
In fact, other people prepared...
Dear GenoMax,
In fact, other people prepared the library. I am only the "bioinformatics guy"! But, anyway, they didn't follow a stranded library protocol. They used the TruSeq RNA Sample...
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Forum: Bioinformatics
01-28-2015, 06:05 AM
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Replies: 5
Views: 2,718
Blastx to associate GO term to transcripts
Hi everyone!
I think no one has replied me so far because I have made my question hard to understand. So, I'll try to simplify it now!
Let's suppose I have the following transcript assembled...
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Forum: Bioinformatics
01-21-2015, 12:35 PM
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Replies: 5
Views: 2,718
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Forum: General
10-27-2013, 05:15 PM
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Replies: 3
Views: 3,714
Hi Chipper! Thank you for your reply!
...
Hi Chipper! Thank you for your reply!
Actually my main concern is about the number of PCR cycles. It is known that the quantification of PCR products is unreliable if PCR reaches its saturation...
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Forum: General
10-26-2013, 12:53 PM
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Replies: 3
Views: 3,714
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