Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Mapping RNA-RNA interactome and RNA structures in vivo

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Mus musculus

PROVIDER: GSE81388 | GEO | 2016/06/23

SECONDARY ACCESSION(S): PRJNA321429

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Mapping RNA-RNA interactome and RNA structures in vivo

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-06-23 | E-GEOD-81388 | biostudies-arrayexpress

Mapping the chemotherapy-induced RNA interactome in Glioblastoma

Project description:This SuperSeries is composed of the SubSeries listed below.

2019-04-24 | GSE98128 | GEO

In vivo atlas of RNA secondary structures recognized by ADARs

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-03-25 | GSE136327 | GEO

In Vivo Mapping of Notch Pathway Activity in Normal and Stress Hematopoiesis

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-07-01 | E-GEOD-46726 | biostudies-arrayexpress

Dynamic landscape of RNA structures in vivo reveals principles of post-transcriptional regulation

Project description:This SuperSeries is composed of the SubSeries listed below.

2015-03-18 | GSE64169 | GEO

T cell Activation is Regulated by Assembly of an RNA-binding Interactome Centered on the U2AF Heterodimer that Includes ILF2, SRRM2, and SYNCRIP

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-11-04 | E-GEOD-62923 | biostudies-arrayexpress

Transcription forms and remodels supercoiling domains unfolding large scale chromatin structures

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-02-17 | E-GEOD-43451 | biostudies-arrayexpress

Mapping RNA-RNA interactome and RNA structures in vivo with MARIO

Project description:Many biological processes are regulated by RNA-RNA interactions 1, nonetheless it remains formidable to analyze the entire RNA interactome. We developed a method, MARIO (MApping Rna-rna Interactions in vivO), to map protein-assisted RNA-RNA interactions in vivo. By circumventing the selection for a specific RNA-binding protein 2-5, our approach vastly expands the identifiable portion of the RNA interactome. Using this technology, we mapped the RNA interactome in mouse embryonic stem cells, which was composed of 46,780 RNA-RNA interactions. The RNA interactome was a scale-free network, with several lincRNAs and mRNAs emerging as hubs. We validated an interaction between two hubs, Malat1 and Slc2a3 using single molecule RNA fluorescence in situ hybridization. Base pairing was observed at the interaction sites of long RNAs, and was particularly strong in transposonRNA-mRNA and lincRNA-mRNA interactions. This reveals a new type of regulatory sequences acting in trans. Consistent with their hypothesized roles, the RNA interaction sites were more evolutionarily conserved than other regions of the transcripts. MARIO also provided new information on RNA structures, by simultaneously revealing the footprint of single stranded regions and the spatially proximal sites of each RNA. The unbiased mapping of the protein-assisted RNA interactome with minimum perturbation of cell physiology will greatly expand our capacity to investigate RNA functions. Three (3) ESC samples with different treatment (different digestion size and/or crosslinking method) and one (1) MEF sample were included to test our new approach for RNA-interactome mapping and the different samples were analyzed to show RNA interactome differences between them.

2016-06-23 | E-GEOD-61489 | biostudies-arrayexpress

Linking Proteomic and Transcriptional Data through the Interactome and Epigenome Reveals a Map of Oncogene-induced Signaling

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-01-01 | E-GEOD-36902 | biostudies-arrayexpress