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How to characterise a protein "enzyme", and find evolutionary divergence into two distinct pathways?

pathway proteins enzymes protocol written 10 weeks ago by arpankbasak • 10

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2.4k

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Identify restriction sites of a cDNA sequence using a dictionary

python biopython restriction enzymes dictionary written 4.2 years ago by albamaria.muniesa • 0 • updated 4.2 years ago by Biojl • 1.6k

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Recent Replies

C: Converting a single line fasta transcriptome [no space between sequence and name by cpad0112 • 9.1k
with bash: Regex works only if there is 6 letter word (contig in this example), preceded by _ (u...
A: Gene set enrichment analysis with edgeR output by h.mon ♦ 19k
As you are using edgeR, you might want to consider CAMERA for gene-set enrichment testing, as it ...
C: Converting Ensembl gene id/gene id version to hgnc symbol using Biomart r packag by RamRS ♦ 17k
What is your R version?
C: Conservation between mouse and human genes: form ensembl gene id? by finswimmer ♦ 5.5k
Hello, does [BioMart][1] give you the information you need? - As `Database`choose `Ensembl Gen...
A: Performing GSEA using MSigDB gene sets in R by igor ♦ 6.6k
You can try the fgsea package, which is probably most similar to the original GSEA. It can be run...
C: Cufflink runtimes super long after mapping with STAR by grant.hovhannisyan • 1.1k
Long story short, my suggestion to speed up Star-cufflinks pipeline is to get rid of cufflinks an...
C: RSEM with ERCC spike-ins formatting issues, ERCC sequences never make it into th by grant.hovhannisyan • 1.1k
Sounds weird... than maybe try reinstalling rsem. Or just use `salmon` or `kallisto` on your fast...
C: gene_Id in ENCODE gene expression table by fusion.slope • 150
oh thanks a lot, I have scrolled a bit the file but did not go down enough to see the ENSEMBL gen...
C: gene_Id in ENCODE gene expression table by genomax ♦ 56k
I don't think those are HGNC ID's. They are things which did not have a gene name. > If no ge...
C: gene_Id in ENCODE gene expression table by RamRS ♦ 17k
See: https://www.biostars.org/p/309884/
C: gene_Id in ENCODE gene expression table by fusion.slope • 150
thanks a lot, i think alex already answered my question :) but to confirm i should check rsem out...
C: gene_Id in ENCODE gene expression table by genomax ♦ 56k
This is what [the explanation legend says][1]: Estimated expression levels from RSEM as a tsv fi...

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