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Search: Posts Made By: beliefbio
Forum: Bioinformatics 05-14-2012, 09:38 AM
Replies: 0
Views: 1,723
Posted By beliefbio
Smile The standard way to normalize eQTL expression data?

Recently I found some papers normalized RNA-seq/Microarray gene expression matrix for following eQTL mapping like this:
First quantile normalize across samples, then centered and standardized for...
Forum: Bioinformatics 12-28-2010, 10:10 PM
Replies: 1
Views: 3,310
Posted By beliefbio
Question How to map SOLiD paired end reads by Bfast

1. I found that bfast localalign can't support -1 and -2 options. So I'm confused how it works in
http://seqanswers.com/forums/showthread.php?t=7100
My bfast version is 0.6.4e. Is -1 and -2 work...
Forum: Bioinformatics 12-07-2009, 03:04 AM
Replies: 3
Views: 2,086
Posted By beliefbio
Question reads mapping to overlapping genes?

:confused:
Many reads are mapped to positions where overlapping genes reside. So we overestimated the number of reads mapping to some genes. How to deal with this problem?
Thank you for your...
Forum: Bioinformatics 12-01-2009, 01:37 AM
Replies: 23
Views: 25,082
Posted By beliefbio
Thanks a lot svl!!

Thanks a lot svl!!
Forum: Bioinformatics 11-30-2009, 06:48 PM
Replies: 23
Views: 25,082
Posted By beliefbio
Smile how to study differential expression?

My data is got from 2 tissues by Illumina sequencing with 75nt reads. Are there any standard ways to study differential expression?
Is it necessary to calculate RPKM for each gene? If so what is...
Forum: Illumina/Solexa 11-27-2009, 06:43 PM
Replies: 2
Views: 1,973
Posted By beliefbio
Thanks so much!!

Thanks so much!!
Forum: Illumina/Solexa 11-26-2009, 07:12 AM
Replies: 2
Views: 1,973
Posted By beliefbio
Smile the meaning of Match Position for reads?

hi ^_^

In the s_N_export.txt file, If the Match Position for one read is x, should the other end position of this read be x+75 both for "F" forward and "R" reverse strand match? (75 is the read...
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