Question: miRNA Target database?
1
gravatar for Buffo
2.1 years ago by
Buffo1.4k
Buffo1.4k wrote:

Hi Everybody,

Somebody knows which is the most complete and updated database for looking miRNA gene-targets (validated targets)? I have tried miRWalk but some results makes me think that is incomplete or outdated. I have hundreds of miRNAs to assign function so I need that the data looks like GSEA files on miRwalk.

Thanks!

target mirna-seq mirna database • 1.3k views
ADD COMMENTlink modified 2.1 years ago by F3.4k • written 2.1 years ago by Buffo1.4k
1

You are looking for miRNA-mRNA pairs validated using experimental data? I expect that set to be rather limited.

ADD REPLYlink written 2.1 years ago by WouterDeCoster37k
1

Yes, it is, but target prediction is even worst and limited I think so.

ADD REPLYlink written 2.1 years ago by Buffo1.4k
1
gravatar for a.zielezinski
2.1 years ago by
a.zielezinski8.6k
a.zielezinski8.6k wrote:

You may want to look at the list of 70 miRNA target prediction resources.

The ranking list includes various information about each database, such as:

  1. list of features
  2. list of organisms
  3. last update
  4. citations per year
  5. popularity
  6. paper & url
ADD COMMENTlink modified 2.1 years ago • written 2.1 years ago by a.zielezinski8.6k
1
gravatar for Khader Shameer
2.1 years ago by
Manhattan, NY
Khader Shameer18k wrote:

Highly recommend miRTarBase - provides a variety of filtering options including validation status.

ADD COMMENTlink written 2.1 years ago by Khader Shameer18k

Yes, for my research it was the best, and also it has the last update upon all others databases.

ADD REPLYlink written 2.1 years ago by Buffo1.4k
0
gravatar for EagleEye
2.1 years ago by
EagleEye6.2k
Sweden
EagleEye6.2k wrote:

Have a look at

1) TargetExpress

2) miRbase

3) miRcode

ADD COMMENTlink modified 2.1 years ago • written 2.1 years ago by EagleEye6.2k
0
gravatar for lsp03yjh
2.1 years ago by
lsp03yjh740
China
lsp03yjh740 wrote:

You can try the starBase (http://starbase.sysu.edu.cn/) database, it has been updated to decode miRNA-mRNA, miRNA-lncRNA, miRNA-sncRNA, miRNA-circRNA, miRNA-pseudogene, protein-lncRNA inteactions from CLIP-Seq (HITS-CLIP, PAR-CLIP, iCLIP, CLASH) and degradome sequencing data.

starBase also decipher Pan-Cancer Analysis Networks of lncRNAs, miRNAs, ceRNAs and RNA-binding proteins (RBPs) by mining clinical and expression profiles of 14 cancer types (>6000 samples) from The Cancer Genome Atlas (TCGA) Data Portal.

ADD COMMENTlink written 2.1 years ago by lsp03yjh740
0
gravatar for F
2.1 years ago by
F3.4k
Iran
F3.4k wrote:

http://multimir.ucdenver.edu/

ADD COMMENTlink written 2.1 years ago by F3.4k
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