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Information


Unique identifier OMICS_02796
Name doRiNA
Restrictions to use None
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/DoRiNA

Publications for doRiNA

doRiNA citations

 (14)
library_books

Distinct and Modular Organization of Protein Interacting Sites in Long Non coding RNAs

2018
Front Mol Biosci
PMCID: 5893854
PMID: 29670884
DOI: 10.3389/fmolb.2018.00027

[…] s been reported recently by Wang and group (Wang et al., ) (Figure , Supplementary Figures , ).We further observed that AGO proteins across the three datasets, namely; Clipdb-PARalyzer, starBase, and doRiNA showed to have a positional preference in protein coding and lncRNA transcripts (Figures , ). When we examined the mapping for the three datasets in protein coding transcripts, we observed that […]

library_books

BEAM web server: a tool for structural RNA motif discovery

2017
Bioinformatics
PMCID: 5860439
PMID: 29095974
DOI: 10.1093/bioinformatics/btx704

[…] asets the application was tested, along with about a hundred unique datasets, with CLIP-Seq data for SLBP () (stem-loop binding protein)-interacting RNAs (GSE62154), LIN28A (; ) targets and the other DoRiNA () datasets, for which all the significant motifs retrieved were presented in the original work (). In some datasets, we analysed more than 35K RNA sequences in a single run. In particular SLBP […]

library_books

Discriminating between HuR and TTP binding sites using the k spectrum kernel method

2017
PLoS One
PMCID: 5363848
PMID: 28333956
DOI: 10.1371/journal.pone.0174052

[…] f detected in all three experiments. We utilized the conservative data-set for computational analysis such as identifying motifs. We obtained the data set as a BED file mapped to the hg19 genome from doRiNA []. Mukherjee et al. [] carried out PAR-CLIP [] experiments to identify the genome-wide binding sites for TTP. Reads were mapped to the genome and binding sites identified []. It is worth notin […]

library_books

A Brief Review of RNA–Protein Interaction Database Resources

2017
Noncoding RNA
PMCID: 5832006
PMID: 29657278
DOI: 10.3390/ncrna3010006

[…] doRiNA [] is a database of RNA interactions in the post-transcriptional regulation, developed at Max Planck Institute for Biology of Ageing (Cologne, Germany) and Max Delbrück Centre for Molecular Med […]

library_books

Tiny giants of gene regulation: experimental strategies for microRNA functional studies

2016
PMCID: 4949569
PMID: 26950183
DOI: 10.1002/wdev.223

[…] arious CLIPseq experiments. Additionally, several databases and analysis environments have been created to integrate and annotate published CLIPseq data, including CLIPZ, starBase and starBase v2.0, doRiNA, and TarBase 6.0 which has recently been updated to DIANA‐TarBase v7.0. CLIP approaches are undoubtedly the current state‐of‐the‐art technologies for mapping miRNA–target binding events, and […]

library_books

Cis acting elements in its 3′ UTR mediate post transcriptional regulation of KRAS

2016
Oncotarget
PMCID: 4914247
PMID: 26930719
DOI: 10.18632/oncotarget.7599

[…] in pAPA1. To examine the repressive potential of this 300-bp region, we aligned predicted miRNA complementary sites from TargetScan [] and PicTar [], as well as validated RBP binding motifs from the doRiNA database to the 300-bp KRAS 3′ UTR fragment. We then generated a series of additional reporters that contained these predicted binding motifs within the 300-bp region (Figure ).When we compared […]

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doRiNA institution(s)
Computational RNA Biology Group, Max Planck Institute for Biology of Ageing, Cologne, Germany

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