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Forum: lincRNA analysis pipeline and relevant database

Here, I will collect some database and pipeline which might be useful for lncRNA analysis.

  1. lncMAP: http://bio-bigdata.hrbmu.edu.cn/LncMAP/index.jsp
  2. LncPipe - A Nextflow-based pipeline for identification and analysis of lncRNAs from RNA-Seq data
  3. Functional enrichment analysis based on long noncoding RNA associations
lncrna
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updated by Ram Ram • written by Shicheng Guo Shicheng Guo

Could you also post some databases where you can looks for lncRNA-miRNA interactions, lncRNA-protein interactions and also binding sites and motifs etc...

• 1 views • link
written by Vasu Vasu

You may find some resources here - lncrnablog.com

• 1 views • link
written by sangram_keshari sangram_keshari

1 answer

Hello, you can try to use ONCO.IO

ONCO.IO contains permanently updating manually curated direct lncRNA interactions, such as lncRNA-->miR (sponge interaction), TF-->lncRNA, miR--->lncRNa, lncRNA-->protein interaction full list is here

These interactions can use for a network creation.

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updated by Ram Ram • written by poyarkov.stanislav • poyarkov.stanislav

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