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Forum: RNA Sequencing 10-20-2011, 03:20 AM
Replies: 0
Views: 1,231
Posted By johannes.helmuth
Question Constructing library of tissue-specific genes

Hi all,

first of all, I have to say this site is amazing with all its discussions going on. I found new impulses and great hints here for writing up my diploma thesis!

My question:
I am trying...
Forum: Bioinformatics 05-25-2011, 02:53 AM
Replies: 0
Views: 1,791
Posted By johannes.helmuth
DESeq analysis without replicates for 16 tissues


I am using DESeq to find differentially expressed genes in 16 tissues without any replicates.

Firstly I tried to set the conditions to 1x "X", 15x"N" and estimated the variance function...
Forum: RNA Sequencing 05-13-2011, 01:43 AM
Replies: 0
Views: 2,692
Posted By johannes.helmuth
Expression analysis on Human Body Map 2.0 (HiSeq2000)


I am trying to map Human Body Map 2.0 with TopHat v1.2.0 in default settings for 50bp PE and 75 bp reads.

For 50bp PE I used a mate inner distance of 210.

After running tophat and...
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