GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE80167 Query DataSets for GSE80167
Status Public on May 12, 2016
Title Global Mapping of Human RNA-RNA Interactions
Organism Homo sapiens
Experiment type Other
Summary We describe a new method enabling the global-scale mapping of RNA-RNA duplexes cross-linked in vivo, ‘LIGation of interacting RNA followed by high-throughput Sequencing’ (LIGR-Seq). Applying this method in human cells reveals a remarkable landscape of new RNA-RNA interactions involving all major classes of ncRNA, and mRNA. LIGR-Seq data reveal unexpected interactions between small nucleolar (sno)RNAs and mRNAs, including interactions involving the orphan C/D box snoRNA, SNORD83B, that control steady-state levels of its target mRNAs. LIGR-Seq thus represents a powerful approach for illuminating the functions of the myriad of uncharacterized RNAs that act via base-pairing interactions.
Overall design RNA-RNA interaction discovery in HEK293T cells in two replicates.
Contributor(s) Sharma E, Sterne-Weiler TH, O' Hanlon D, Blencowe BJ
Citation(s) 27184080
Submission date Apr 12, 2016
Last update date May 15, 2019
Contact name Timothy Sterne-Weiler
Organization name University of Toronto
Department The Donnelly Centre
Lab Blencowe Lab
Street address 160 College Street, Room 1030
City Toronto
State/province Ontario
ZIP/Postal code M5S 3E1
Country Canada
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (8)
GSM2113739 LIGR-Seq_AMT_Ligase_Rep1
GSM2113740 LIGR-Seq_AMT_no-Ligase_Rep1
GSM2113741 LIGR-Seq_no-AMT_Ligase_Rep1
BioProject PRJNA318165
SRA SRP073158

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE80167_RAW.tar 468.4 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap