Question: How to get human miRNA length file?
0
gravatar for k.kathirvel93
2.0 years ago by
k.kathirvel93210
India
k.kathirvel93210 wrote:

Hi all,

I am working in miRNA-seq data analysis. Now am trying to count RPKM from raw read counts. For this I need a complete human miRNAs length with name. Where I can get? Thanks in advance

ADD COMMENTlink modified 2.0 years ago by michael.ante3.6k • written 2.0 years ago by k.kathirvel93210
0
gravatar for michael.ante
2.0 years ago by
michael.ante3.6k
Austria/Vienna
michael.ante3.6k wrote:

Hi,

Where did you get the counts from. If it was a gtf/gff or bed file, you can use it to extract the length. Otherwise, you can use for instance biomart or RFAM to get the information you need.

Nevertheless, you should think of using a different normalisation method, since miRNAs' length is usually a fraction of a kilo-Base, boosting the RPKM to high values even for a few reads. See for instance here.

ADD COMMENTlink written 2.0 years ago by michael.ante3.6k
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