User: bn3301

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bn33010
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Posts by bn3301

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Common differentially expressed genes between two cell lines
... I am analysing an RNA-seq dataset with the below given design in DESeq2 | Sample-- | CellLine-- | Treatment | |--------|----------|-----------| | S1 | C1 | DMSO | | S2 | C1 | DMSO | | S3 | C1 | Drug | | S4 | C1 | Drug | | S5 | C2 ...
deseq2 written 7 weeks ago by bn33010 • updated 6 weeks ago by Michael Love22k
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DESeq2: Handling batch effects with only one control replicate coming from another batch
... I am using DESeq2 to analyse RNA seq data. I have 5 conditions each with two replicates and I am comparing these against controls again with 2 replicates. However the issue is that one of control replicates was sequenced earlier. Thus only this control replicate belongs to a different batch from al ...
deseq2 rna-seq written 7 months ago by bn33010 • updated 7 months ago by Michael Love22k
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DESeq2-No replicates-Utility of log2fold shrunk values?
... I am using DESeq2 to estimate fold changes between two conditions neither of which have any replicates. Will it be of any utility to use log2fold shrunken changes over the non-shrunken ones in this case? ...
rnaseq deseq2 written 13 months ago by bn33010 • updated 13 months ago by Michael Love22k

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