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Pan-Cancer pattern of lncRNAs, miRNAs and their regulatory networks

lncRNA Pan-Cancer microRNA TCGA starBase

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#1 zhxq09

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Posted 06 February 2014 - 03:45 AM

Dysregulation of miRNAs and lncRNAs can contribute to tumor formation and progression. Little is known about the expression profiles of lncRNAs and miRNAs across diverse cancer types.

 

Pan-Cancer miRNA and lncRNA resources:

(1) panCancerMine: explore Pan-Cancer lncRNA, miRNA and their regulatory networks (ceRNA, coexpression) by mining expression profiles of miRNAs, lncRNAs and mRNAs across 14 cancer types (>6000 samples) from The Cancer Genome Atlas (TCGA) Data Portal and large-scale CLIP-Seq data.

 

(2)cancerMiner: is a comprehensive resource for discovery and prioritization of miRNA-mRNA target interactions and relationships in human cancer using molecular datasets from The Cancer Genome Atlas. 

 

overview of panCancerMine:

starBase_panCancer_overView.png

 

 

 

 

 



#2 zhxq09

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Posted 22 May 2014 - 11:57 PM

panCancerMine also provided Pan-Cancer Interactions between lncRNAs and RNA-Binding Proteins (RBPs), mRNAs and RBPs.
 
Correlation between RNA-Binding Proteins (RBPs) and targets across 14 cancer types (>6000 tumor and normal samples) using pearson correlation test (p-value<0.05).
 
For example:
(1)RBP-lncRNA:  FMRP:TUG1(lncRNA) interaction with significant correlation across 14 cancer types. 
(2)RBP-mRNA: TDP-43:CDK6 interaction with significant correlation across 9 cancer types.
 
TDP43.png






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