Question: Mirna Pipeline Development
3
gravatar for Sara
8.3 years ago by
Sara60
Sara60 wrote:

Hi everyone,

I am new in bioinformatic! my questions may be seems stupid but please advise!

is there any standard pipeline for miRNA high seq data analysis?

How can I download data of miRNA seq from published study ( in human and illumina platform)? I would like develop my pipeline and I want to test some public data source

Thanks Sara

mirna • 2.3k views
ADD COMMENTlink written 8.3 years ago by Sara60
2
gravatar for Casey Bergman
8.3 years ago by
Casey Bergman18k
Athens, GA, USA
Casey Bergman18k wrote:

Here is a pipeline for miRNA detection from Solid color-space reads:

Here is another one that provides a web interface:

There are likely to be many others out there...

ADD COMMENTlink modified 8.3 years ago • written 8.3 years ago by Casey Bergman18k
1
gravatar for Nico
8.3 years ago by
Nico190
NYC
Nico190 wrote:

Public dataset will typically be posted on the NCBI databases GEO and/or SRA:

http://www.ncbi.nlm.nih.gov/geo/ http://www.ncbi.nlm.nih.gov/sra

You can also select a publication that you like (or that you'd like to reproduce) and use their data. In most cases, the paper provides the link and the accession number to the public database. For all microRNA-related information, miRBase is a good starting point: http://www.mirbase.org/

ADD COMMENTlink written 8.3 years ago by Nico190
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