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Series GSE34794 Query DataSets for GSE34794
Status Public on Oct 10, 2012
Title Identification of Proteins Binding Coding and Non-coding Human RNAs using Protein Microarrays
Organism Homo sapiens
Experiment type Other
Summary We describe a refined approach to identify new human RNA-protein interactions. In vitro transcribed labeled RNA is bound to ~9,400 human recombinant proteins spotted on protein microarrays. This approach identified 137 RNA-protein interactions for 10 human coding and non-coding RNAs, including an interaction between Staufen 1 protein and TP53 mRNA that promoted the latter’s stability. RNA hybridization to protein microarrays allows rapid identification of human RNA-protein interactions on a large scale.
 
Overall design Sense and antisense strands for 10 RNA transcripts representing protein coding RNAs TP53, HRAS, MYC, BCL2 and non-coding sequences PWRN1, SOX2OT, OCC1, IGF2RNC, lncRBM26 and DLEU1 were in vitro transcribed, labeled with Cy5 and independently hybridized on human protein microarrays. The labeling process was optimized in order to achieve ~ 3 pmol dye per every microgram RNA with average efficacy of 1 dye molecule for approximately every 850 bp RNA to minimally influence RNA native structure and at the same time yield in signal intensities that were readily visualized.
 
Contributor(s) Webster DE
Citation(s) 23201690
Submission date Dec 30, 2011
Last update date Oct 11, 2022
Contact name Douglas Porter
Organization name Stanford
Department Dermatology
Lab Khavari
Street address 269 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platforms (1)
GPL13669 Invitrogen ProtoArray v5.0
Samples (20)
GSM855540 igf2rnc sense RNA
GSM855541 igf2rnc antisense RNA
GSM855542 occ1 sense RNA
Relations
BioProject PRJNA151039

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
GSE34794_RAW.tar 2.3 Mb (http)(custom) TAR
GSE34794_bcl2.gpr.gz 2.9 Mb (ftp)(http) GPR
GSE34794_dleu1.gpr.gz 2.8 Mb (ftp)(http) GPR
GSE34794_hras.gpr.gz 2.9 Mb (ftp)(http) GPR
GSE34794_igf2rnc_nc.gpr.gz 2.9 Mb (ftp)(http) GPR
GSE34794_lncrbm26.gpr.gz 2.8 Mb (ftp)(http) GPR
GSE34794_myc.gpr.gz 2.8 Mb (ftp)(http) GPR
GSE34794_occ1_nc.gpr.gz 2.8 Mb (ftp)(http) GPR
GSE34794_p53.gpr.gz 2.7 Mb (ftp)(http) GPR
GSE34794_pwrn.gpr.gz 2.5 Mb (ftp)(http) GPR
GSE34794_sox2ot.gpr.gz 2.8 Mb (ftp)(http) GPR
Processed data included within Sample table

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