Forum: Bioinformatics
05-02-2012, 08:51 PM
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Replies: 7
Views: 2,981
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Forum: RNA Sequencing
04-18-2012, 07:58 AM
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Replies: 12
Views: 8,604
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Forum: Bioinformatics
04-18-2012, 07:32 AM
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Replies: 9
Views: 4,446
Hi detq182,
Why not delimit your fasta header...
Hi detq182,
Why not delimit your fasta header with a special character such as colon or vertical bar?
For example:
>header | supplemental-info
This way, you can embed many annotations adjacent...
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Forum: RNA Sequencing
04-16-2012, 08:49 PM
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Replies: 12
Views: 8,604
Hi Himanshu,
Glad it was helpful.
We obtained...
Hi Himanshu,
Glad it was helpful.
We obtained accession-to-EC mappings via biomart. If however such mappings do not exist for your model, you could use uniprot by running uniprot BLAST against your...
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Forum: RNA Sequencing
04-16-2012, 06:02 PM
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Replies: 12
Views: 8,604
Hi Himanshu,
We've done similar work ourselves....
Hi Himanshu,
We've done similar work ourselves.
What we did was map each differentially-expressed gene onto their respective Enzyme Commission accession (EC). Doing so was quite helpful because as...
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Forum: Bioinformatics
04-08-2012, 08:14 AM
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Replies: 4
Views: 2,164
Hi henry_by,
If I'm not mistaken, EBI has GO...
Hi henry_by,
If I'm not mistaken, EBI has GO annotations embedded in some fasta headers. You may want to look into creating a local blast-instance of these files and locally-blast your predicted...
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Forum: Illumina/Solexa
04-07-2012, 06:07 PM
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Replies: 16
Views: 6,941
Hi kmcarr,
What we noticed during some of our...
Hi kmcarr,
What we noticed during some of our multiplex-runs (single-end) was that the sequencing of the actual read was great... high quality scores, several million reads, etc. The indexes on the...
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Forum: Illumina/Solexa
04-05-2012, 08:28 AM
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Replies: 16
Views: 6,941
Hi uattsoancrik,
What I had meant to say in my...
Hi uattsoancrik,
What I had meant to say in my prior post was whether you see specific DNA patterns in the indexes which map to 'contaminated' samples.
In response to your question: We had the...
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Forum: Illumina/Solexa
04-04-2012, 10:10 PM
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Replies: 16
Views: 6,941
Hi uattsoancrik,
We had a similar problem to...
Hi uattsoancrik,
We had a similar problem to your original post; saw such results with some multiplexed samples on the GAIIx.
Just curious: the contaminated samples you mentioned originally... are...
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Forum: Bioinformatics
10-17-2011, 04:43 PM
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Replies: 11
Views: 2,544
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Forum: Bioinformatics
08-27-2011, 11:47 AM
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Replies: 5
Views: 3,935
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Forum: Illumina/Solexa
08-24-2011, 08:48 PM
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Replies: 2
Views: 3,814
Hi Angela,
We had a similar problem to what you...
Hi Angela,
We had a similar problem to what you outlined (we also ran a multiplexed run on the IIx, several actually). Was the sample concentration in lanes 3 and 6 the same across all other lanes,...
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