StarBase is a database for decoding
miRNA
MicroRNA (miRNA) are small, single-stranded, non-coding RNA molecules containing 21 to 23 nucleotides. Found in plants, animals and some viruses, miRNAs are involved in RNA silencing and post-transcriptional regulation of gene expression. miR ...
-
mRNA
In molecular biology, messenger ribonucleic acid (mRNA) is a single-stranded molecule of RNA that corresponds to the genetic sequence of a gene, and is read by a ribosome in the process of synthesizing a protein.
mRNA is created during the ...
, miRNA-lncRNA,
miRNA
MicroRNA (miRNA) are small, single-stranded, non-coding RNA molecules containing 21 to 23 nucleotides. Found in plants, animals and some viruses, miRNAs are involved in RNA silencing and post-transcriptional regulation of gene expression. miR ...
-
sncRNA, miRNA-circRNA,
miRNA-
pseudogene
Pseudogenes are nonfunctional segments of DNA that resemble functional genes. Most arise as superfluous copies of functional genes, either directly by DNA duplication or indirectly by reverse transcription of an mRNA transcript. Pseudogenes are ...
, protein-lncRNA, protein-ncRNA, protein-mRNA interactions, and ceRNA networks from
CLIP-Seq High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP, also known as CLIP-Seq) is a genome-wide means of mapping protein–RNA binding sites or RNA modification sites in vivo. HITS-CLIP was originally used to ...
(
HITS-CLIP High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP, also known as CLIP-Seq) is a genome-wide means of mapping protein–RNA binding sites or RNA modification sites in vivo. HITS-CLIP was originally used to ...
,
PAR-CLIP PAR-CLIP (photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation) is a biochemical method for identifying the binding sites of cellular RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs). ...
,
iCLIP
iCLIP (individual-nucleotide resolution CrossLinking and ImmunoPrecipitation) is a variant of the original CLIP method used for identifying protein-RNA interactions, which uses UV light to covalently bind proteins and RNA molecules to identify RN ...
, CLASH) and
degradome sequencing data.
StarBase provides miRFunction and ceRNAFunction web tools to predict the function of ncRNAs (miRNAs, lncRNAs, pseudogenes) and protein-coding genes from the miRNA and ceRNA
regulatory networks. StarBase also developed Pan-Cancer Analysis Platform to decipher
Pan-Cancer Analysis
Pan-cancer analysis aims to examine the similarities and differences among the genomic and cellular alterations found across diverse tumor types.
International efforts have performed pan-cancer analysis on exomes and the whole genomes of cancers, ...
Networks of lncRNAs, miRNAs, ceRNAs, and RNA-binding proteins (RBPs) by mining clinical and expression profiles of 14 cancer types (including more than six thousand samples) from
The Cancer Genome Atlas (TCGA)
The Cancer Genome Atlas (TCGA) is a project to catalogue the genomic alterations responsible for cancer using genome sequencing and bioinformatics. The overarching goal was to apply high-throughput genome analysis techniques to improve the abili ...
Data Portal.
See also
*
MicroRNA and microRNA target database This microRNA database and microRNA targets databases is a compilation of databases and web portals and servers used for microRNAs and their targets. MicroRNAs
MicroRNA (miRNA) are small, single-stranded, non-coding RNA molecules containing 21 ...
*
MicroRNA
MicroRNA (miRNA) are small, single-stranded, non-coding RNA molecules containing 21 to 23 nucleotides. Found in plants, animals and some viruses, miRNAs are involved in RNA silencing and post-transcriptional regulation of gene expression. m ...
*
Degradome sequencing
References
External links
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Genetics databases
RNA
MicroRNA
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