User: fl

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fl0
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Posts by fl

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Answer: A: Approaches for DESeq2 analysis with one factor and many levels
... Thank you, Michael. ...
written 9 weeks ago by fl0
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Approaches for DESeq2 analysis with one factor and many levels
... Hello, I am interested in using DESeq2 to analyze a bulk RNA-seq dataset with one factor and 12 levels (control and treatments), and 4 biological replicates per level. I was wondering how using one or multiple input sample tables would influence the genes that are found to be differentially express ...
deseq2 written 9 weeks ago by fl0
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Comment: C: RNA-seq data analysis with two species using DESeq2
... I'm not surprised that species explains most of the variance. However, I was wondering if there are underlying problems with using DESeq2 for this type of cross-species analysis. The system involves two closely related species with females that perform specialized behaviors, and "behavior4" in "sp2" ...
written 4 months ago by fl0
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RNA-seq data analysis with two species using DESeq2
... Hello, I'm working on a gene expression analysis with two non-model species. I followed the same field collecting and RNA preservation protocol for all samples and generated 24 libraries that were pooled and sequenced across three lanes. I'm following the steps below for differential expression ana ...
deseq2 written 4 months ago by fl0 • updated 4 months ago by Simon Anders3.5k
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Comment: C: Interpreting results of sample-to-sample PCA/clustering and changing assignment
... Thank you, Michael! ...
written 5 months ago by fl0
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Interpreting results of sample-to-sample PCA/clustering and changing assignment of condition levels
... Hello, I have a dataset consisting of 16 pooled libraries sequenced on three lanes (2x125bp, 350bp fragment size, 40M reads per library). I isolated RNA from the same type of tissue across different individuals. There are three levels for one condition ("behavior"), and 4-6 biological replicates pe ...
deseq2 written 5 months ago by fl0

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