Hi kajot,
you can use this method that works with any annotation:
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Calculating PSI values for rat RNA-seq
Hi,
could someone recommend me something to calculate Percent Spliced-In (PSI) values for all the exons of rat in a paired-end RNA-seq experiment ?
I tried out MISO, but it seems to me that for exon-centric table of PSI values you have to provide it with a table of splicing events which AFAIK doesn't exist for rat.
I would love to use something simple that would base only on given RNA-seq run + official gene annotation like Ensembl.
Any ideas ? Thanks!Tags: None
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The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...-
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