User: morteza.khabiri

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Posts by morteza.khabiri

<prev • 6 results • page 1 of 1 • next >
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chipseq identified sequences
... HI All, I am not familiar with chip-seq data analysis. I would like to know why the chip-seq identified DNA sequences for one specific protein binding site has different lengths? for example the chipseq binding regions for protein A could be between 100-2000 bps? How the binding sites ranges determ ...
chip-seq written 6 days ago by morteza.khabiri0
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Answer: A: FIMO: scan motif on a DNA sequence
... Thanks .. It is very useful. But I meant the math behind motif discovery by having PWM and using HMM model. ...
written 17 days ago by morteza.khabiri0
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FIMO: scan motif on a DNA sequence
... Hi All, I am interested to understand how fimo (Find Individual Motif Occurrences ) works? In fact how PWM used as a prior information to find the probable motif occurrence in a DNA sequence? Unfortunately there is not enough description or computational method in FIMO original paper and I would be ...
genome statics alignment chip-seq written 17 days ago by morteza.khabiri0
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Split RNA-seq reads
... Hi all, I have 75bp RNA-seq reads. I would like to split it to 38*37 bp. Is somebody know how is the easiest way to do that? The reads files are in *.gz format and I don't want to unzip it. Thanks Morteza ...
rna-seq written 3 months ago by morteza.khabiri0 • updated 3 months ago by Pierre Lindenbaum103k
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Difference Between Gene Expression And Transcript Expression
... Hi All, I know there is a discussion regarding difference between gene and transcript expression at BioStar. However, I am still confused and I would like to open this discussion again. I have a RNA-seq data (analyzed by kallisto/Sleuth) which shows significant changes in gene expression at transcr ...
kallisto rna-seq written 5 months ago by morteza.khabiri0
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metagenomic profiling and population analysis
... Hi all I would like to do bacterial population metagenomic profiling and population analysis on the RNA-seq data. I have no idea how to this kind of analysis. Is there any suggestion or recommend paper to start with? Thanks Morteza ...
next-gen rna-seq written 9 months ago by morteza.khabiri0 • updated 9 months ago by Zev.Kronenberg11k

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