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Forum: Epigenetics 11-02-2018, 05:35 PM
Replies: 6
Views: 26,533
Posted By rnaNGS
TransmiR (http://www.cuilab.cn/transmir) is a...

TransmiR (http://www.cuilab.cn/transmir) is a transcription factor-microRNA regulation database.
TransmiR v2.0 has been published in the Nucleic Acids Research Database Issue.
Forum: RNA Sequencing 10-15-2018, 05:00 AM
Replies: 0
Views: 2,520
Posted By rnaNGS
CLIP-seq database: PAR-CLIP, HITS-CLIP, iCLIP, eCLIP, irCLIP for RBP binding sites

Recent advances in high-throughput sequencing of immunoprecipitated RNAs after cross-linking (CLIP-Seq) provide powerful ways to identify biologically relevant miRNA-target and RNA-binding...
Forum: Bioinformatics 09-01-2017, 02:17 AM
Replies: 5
Views: 3,974
Posted By rnaNGS
RMBase v2.0 (http://rna.sysu.edu.cn/rmbase/) has...

RMBase v2.0 (http://rna.sysu.edu.cn/rmbase/) has been developed, RMBase v2.0 is freely available at http://rna.sysu.edu.cn/rmbase/
Forum: RNA Sequencing 08-21-2017, 04:53 AM
Replies: 0
Views: 2,119
Posted By rnaNGS
RNA Modification Database and The Map of RNA Modifications

We have developed RMBase v2.0 (http://rna.sysu.edu.cn/rmbase/) to decode the map of RNA modifications (>100 different modification types) , as well as their relationships with microRNA binding...
Forum: RNA Sequencing 02-25-2017, 01:30 AM
Replies: 6
Views: 5,574
Posted By rnaNGS
The RNA code comes into focus

two feature papers published in nature journal about RNA modifications.
(1) An epigenetics gold rush: new controls for gene expression...
Forum: RNA Sequencing 02-13-2017, 04:13 PM
Replies: 0
Views: 2,070
Posted By rnaNGS
oncoNcRNA: ncRNAs (lncRNAs, miRNAs) with Oncogenic Potentials in Human Cancers

We had released oncoNcRNA (http://rna.sysu.edu.cn/onconcrna/), a web portal for explore various ncRNAs (lncRNAs, miRNAs, piRNAs, snoRNAs, tRNAs) with oncogenic potentials in 64 human cancer types...
Forum: RNA Sequencing 12-17-2016, 09:00 PM
Replies: 6
Views: 5,574
Posted By rnaNGS
RNA modifications and neuronal functions, sex determination

two papers published in nature journal discovered RNA modifications modulate neuronal functions and sex determination in Drosophila.
(1) Lence T et al. m(6)A modulates neuronal functions and sex...
Forum: Bioinformatics 09-20-2016, 01:48 AM
Replies: 5
Views: 3,974
Posted By rnaNGS
RNA modification Database and RNA-Binding Protein Binding Sites

Recently, we integrated thousands of RNA-Binding Proteins (RBP) binding sites identified from CLIP-Seq experiments and performed relationship analysis of RBP binding regions and RNA modifications....
Forum: Bioinformatics 11-10-2015, 12:46 AM
Replies: 5
Views: 3,974
Posted By rnaNGS
about 101,780 novel m6A modification sites from 4...

about 101,780 novel m6A modification sites from 4 studies (m6A-CLIP, m6A-Seq technologies) have been added into RMBase (http://rna.sysu.edu.cn/rmbase/m6Amod.php).
Forum: RNA Sequencing 10-28-2015, 03:45 AM
Replies: 6
Views: 5,574
Posted By rnaNGS
101,780 novel m6A sites from 4 studies (m6A-CLIP,...

101,780 novel m6A sites from 4 studies (m6A-CLIP, m6A-Seq technologies) have been added into RMBase.
Forum: Bioinformatics 10-16-2015, 12:27 AM
Replies: 5
Views: 3,974
Posted By rnaNGS
RNA modification Database and The landscape of RNA modifications from RNA-seq

We're pleased to announce the release of the RMBase (http://rna.sysu.edu.cn/rmbase/index.php) (RNA Modification Base) for decoding the landscape of RNA modifications identified from 404...
Forum: Bioinformatics 05-18-2015, 03:49 AM
Replies: 13
Views: 5,799
Posted By rnaNGS
a new paper...

a new paper (http://journal.frontiersin.org/Journal/10.3389/fbioe.2014.00088/abstract), by analyzing millions of RNA-binding protein (RBP) binding sites from 117 CLIP-Seq datasets generated by 50...
Forum: RNA Sequencing 04-20-2015, 06:05 PM
Replies: 9
Views: 4,595
Posted By rnaNGS
Protein-lncRNA Interactions by Integrating Large-Scale CLIP-Seq and RNA-Seq data

a new paper (http://journal.frontiersin.org/Journal/10.3389/fbioe.2014.00088/abstract), by analyzing millions of RNA-binding protein (RBP) binding sites from 117 CLIP-Seq datasets generated by 50...
Forum: Bioinformatics 01-15-2015, 02:14 AM
Replies: 0
Views: 954
Posted By rnaNGS
Discovering protein–lncRNA interactions from large-scale CLIP-Seq and RNA-Seq data

Long non-coding RNAs (lncRNAs) are emerging as important regulatory molecules in developmental, physiological, and pathological processes. However, the precise mechanism and functions of most of...
Forum: RNA Sequencing 04-21-2014, 03:07 AM
Replies: 9
Views: 4,595
Posted By rnaNGS
The overview of Pan-Cancer protein-lncRNA,...

The overview of Pan-Cancer protein-lncRNA, protein-ncRNA and protein-mRNA interactions
http://starbase.sysu.edu.cn/images/starBase_panCancer_overView.png
Forum: Bioinformatics 03-19-2014, 11:06 PM
Replies: 13
Views: 5,799
Posted By rnaNGS
Yes, you are right. starBase just only identified...

Yes, you are right. starBase just only identified a little of lncRNAs from TCGA level 3 datasets. TCGA level 3 data almost all are protein-coding genes.
Forum: RNA Sequencing 03-03-2014, 02:31 AM
Replies: 9
Views: 4,595
Posted By rnaNGS
RBPome special issue

Genome Biology published RBPome special issue that present a collection of Research, Method, Software, Review, Research Highlight and Editorial articles focusing on the theme of ‘the RBPome’, a term...
Forum: RNA Sequencing 02-11-2014, 08:58 PM
Replies: 1
Views: 1,977
Posted By rnaNGS
Overview: starBase Pan-Cancer Analysis of...

Overview: starBase Pan-Cancer Analysis of lncRNAs, miRNAs, ceRNAs, RBPs
http://starbase.sysu.edu.cn/images/starBase_panCancer_overView.png (http://starbase.sysu.edu.cn/panCancer.php)
Forum: RNA Sequencing 02-06-2014, 08:38 PM
Replies: 1
Views: 1,977
Posted By rnaNGS
cancer expression patterns of lncRNAs, miRNAs, ceRNAs from 14 cancer types

starBase panCancerMine (http://starbase.sysu.edu.cn/panCancer.php) platform were developed to explore Pan-Cancer patterns of lncRNAs, miRNAs, ceRNAs, RNA-binding proteins (RBPs) and mRNAs from The...
Forum: Bioinformatics 01-20-2014, 12:00 AM
Replies: 6
Views: 3,603
Posted By rnaNGS
The multilayered complexity of ceRNA crosstalk and competition

A review paper about ceRNAs and their functions has been published in Nature Journal.

Tay Y, Rinn J, Pandolfi PP. The multilayered complexity of ceRNA crosstalk and competition. Nature. 2014 Jan...
Forum: Bioinformatics 12-04-2013, 06:16 PM
Replies: 6
Views: 3,603
Posted By rnaNGS
HMGA2 functions as a ceRNA to promote lung cancer progression

A Nature paper has described ceRNA interactions between HMGA2 and TGFBR3. They show that Hmga2 promotes lung cancer progression in mouse and human cells by operating as a competing endogenous RNA...
Forum: Epigenetics 11-12-2013, 09:01 PM
Replies: 6
Views: 26,533
Posted By rnaNGS
two new databases (1) TFBSshape...

two new databases
(1) TFBSshape (http://rohslab.cmb.usc.edu/TFBSshape/): a motif database for DNA shape features of transcription factor binding sites.
(2) BloodChIP...
Forum: Bioinformatics 11-12-2013, 08:33 AM
Replies: 1
Views: 1,944
Posted By rnaNGS
HITS-CLIP (PAR-CLIP, CLIP-Seq, iCLIP, CLASH) datasets.

You can download HITS-CLIP (PAR-CLIP, CLIP-Seq, iCLIP, CLASH) data from starBase (http://starbase.sysu.edu.cn/) download center (http://starbase.sysu.edu.cn/download.php).
It provides 108 HITS-CLIP...
Forum: Bioinformatics 09-26-2013, 11:21 PM
Replies: 3
Views: 1,524
Posted By rnaNGS
chipBase (http://rna.sysu.edu.cn/chipbase/) is a...

chipBase (http://rna.sysu.edu.cn/chipbase/) is a database for decoding the transcriptional regulation of mRNAs and ncRNAs from ChIP-Seq data.

ChIPBase includes millions of peaks that were...
Forum: RNA Sequencing 09-26-2013, 03:18 AM
Replies: 0
Views: 5,743
Posted By rnaNGS
decoding miRNA-ncRNA, miRNA-ceRNA and protein-RNA interactions from CLIP-Seq data

starBase (http://starbase.sysu.edu.cn/) is an integrated platform that can be use for decoding miRNA-mRNA, miRNA-lncRNA (http://starbase.sysu.edu.cn/mirLncRNA.php), miRNA-circRNA...
Showing results 1 to 25 of 43

 


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