User: xd_d

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xd_d90
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Posts by xd_d

<prev • 42 results • page 1 of 5 • next >
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Small dispersion values in differential expression analysis
... Hey everybody, I have read in many papers that small dispersion values are correspond to small normallized mean read counts. And high read counts with a high dispersion value. But when I see the graph of these realation ship, I observe a another result. For example here: https://app.dimensions.ai/d ...
chip-seq rna-seq sequencing written 5 months ago by xd_d90
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DeSeq-1 and edgeR
... Hello, i have a question to the exact test with the negative binomial distribition to identify differently expressed genes. I dont find a good explanation of these test. Not in the papers of edgeR or DeSeq-1(2010) Only explantion is: similar to Fisher-exact test. But thats say nothing... Have so ...
exact test rna-seq written 5 months ago by xd_d90 • updated 5 months ago by Kevin Blighe32k
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Answer: A: Help understanding MACS2 --extsize and --shift
... Is the --extsize equal the window size ? ...
written 15 months ago by xd_d90
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MACS2 , pvalue
... Hello all, have some one an example how to calculate the p-value in MACS2 to call significante Peaks ? ...
sequence chip-seq written 15 months ago by xd_d90 • updated 15 months ago by Chris Fields1.9k
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Comment: C: RNAseq, Noise , Signal
... Everbody speak about noise or background noise, but nobody can explain that ? ...
written 16 months ago by xd_d90
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RNAseq, Noise , Signal
... Hello all, I have a question about noise in RNA-seq. What did that mean ? I dont finde a good answer on this question. ...
rna-seq noise written 16 months ago by xd_d90 • updated 16 months ago by Devon Ryan86k
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Comment: C: RNAseq, poly(A) selection
... From the human, RNAseq from brain tumor. I use a annotation from GENCODE v25. including protein coding genes and genes of lncRNA. I use the intron coodinates to search significant peaks on the introns. And I found many.. ...
written 16 months ago by xd_d90
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RNAseq, poly(A) selection
... Hello all, I have analyze some poly(A) RNAseq data. And I often see that a lot of reads are within intronic region. Has anybody an idea, what these annotated Elements are. Maybe SINE or LINE Elements ? ...
next-gen rna-seq sequencing written 16 months ago by xd_d90 • updated 16 months ago by Cacau410
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Aberrant Splicing, alternative splicing
... Hello all, I have read that many cancers have tumor specific alternative splicing isforms. When can I say that are aberrant splicing events. Is every different alternative splicing pattern from normal tissue a cause of aberrant splicing ? ...
rna-seq cancer written 16 months ago by xd_d90
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ncRNA, RNAseq, totalRNA, long ncRNA
... Hello all, my question is: can i analyze the expression of lncRNA and long lncRNA with total RNA seq data and RNAseq data with poly(A) selection ? Have anybody experience with that ? ...
rna-seq written 16 months ago by xd_d90 • updated 15 months ago by Biostar ♦♦ 20

Latest awards to xd_d

Student 5 months ago, asked a question with at least 3 up-votes. For NGS overlapping reads
Popular Question 15 months ago, created a question with more than 1,000 views. For Picard vs samtools rmdup

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