User: cjgunase
cjgunase • 30
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- United States
- Last seen:
- 7 months, 3 weeks ago
- Joined:
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Posts by cjgunase
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... Hello,
We recently sequenced RNA-seq data and Whole genome bisulfite seq data on same mouse neuronal tissues (5 DNMT3a knockout and 5 WT).
I am interested in other similar publications which analyzed sequencing data (both RNA-seq and WGBS) on same tissues. If anyone knows recent publications in thi ...
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... so based on the diagram above should consider insert length(which is from BAM file) NOT the fragment length?
...
written 2.3 years ago by
cjgunase • 30
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... So if **Insert Length (N)** and read 1( r1) and read 2( r2).
(r1+r2 - N) should give the length overlapping bases. (+) lengths for overlap.
so we can plot a histogram of the frequency of overlapped base lengths. For high quality, this should be a right-skewed distribution.
...
written 2.3 years ago by
cjgunase • 30
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... sorry, I am confused. You said the to compare the fragment length with insert size. then how to check it is less than sum of two reads.
I am new to this so sorry if this is very simple thing that i am missing. ...
written 2.3 years ago by
cjgunase • 30
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... Hi All,
I am a newbie to sequencing technologies.
Is there a way to quantify the paired-end sequencing overlap. since completely overlapping the read pairs would be a waste of sequencing resources. A bit of overlap can be useful when doing the alignment but a small gap is optimal to maximize cover ...
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... Is analyzing microarray data is considered obsolete? are there recent publications using gene expression data to construct large gene regulatory networks ? ...
written 3.3 years ago by
cjgunase • 30
• updated
3.3 years ago by
genomicswolf • 20
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... Hi,
I am new to bioinformatics. and I am trying to display FASTAQ data in JBrowse. What steps do I need to follow to convert and display these data in Jbrowse ?
Thank you ...
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... These are micro array datasets. I have 20 response variables Y=(Y1,…,Y20), and 1600 predictor variables X=(X1,…,Y1600). There are 128 observations. I wanted to know which pairs of X can best predict each of Y.
So I generated all the combinations of (Yi,Xj,Xk) and did linear regressions for each co ...
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... Hello !
I am looking for good publications in gene regulatory networks domain for implementation. It can be sound statistical method for data analysis , or computational method for network inference etc. I want to develop software based on these finding and put on the web for free for any one to us ...
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