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Series GSE14434 Query DataSets for GSE14434
Status Public on Feb 08, 2009
Title U1 Adaptors: a new gene silencing technology
Organism Homo sapiens
Experiment type Expression profiling by array
Summary The goal of the microarray experiment was to do a head-to-head comparison of the U1 Adaptor technology with siRNA in terms of specificity at the genome-wide level. U1 Adaptors represent a novel gene silencing method that employs a mechanism of action distinct from antisense and RNA interference (RNAi). The U1 Adaptor is a bifunctional oligonucleotide having a “Target Domain” that is complementary to a site in the target gene's terminal exon and a “U1 Domain” that binds to the U1 small nuclear RNA (snRNA) component of the U1 small nuclear ribonucleoprotein (U1 snRNP) splicing factor. Tethering of U1 snRNP to the target pre-mRNA inhibits 3' end processing (i.e., polyA tail addition) leading to degradation of that RNA species within the nucleus thereby reducing mRNA levels. We demonstrate that U1 Adaptors can specifically inhibit both reporter and endogenous genes. Further, targeting the same gene either with multiple U1 Adaptors or with U1 Adaptors and small interfering RNAs (siRNAs), strongly enhances gene silencing, the latter as predicted from their distinct mechanisms of action. Such combinatorial targeting requires lower amounts of oligonucleotides to achieve potent silencing.
Overall design For each sample total RNA was prepared from 3 independent transfections and then were pooled and analyzed by QPCR and also by microarray.
Contributor(s) Goraczniak R, Behlke MA, Gunderson SI
Citation(s) 19219028
Submission date Jan 14, 2009
Last update date Mar 25, 2019
Contact name Samuel I Gunderson
E-mail(s) Gunderson@Biology.Rutgers.Edu
Phone 7324451016
Organization name Rutgers University
Department Molecular Biology & Biochemistry
Lab Nelson Biology Laboratories
Street address 604 Allison Road
City Piscataway
State/province NJ
ZIP/Postal code 08854
Country USA
Platforms (1)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
Samples (3)
GSM360314 R1=HeLa_M13_Aug5_2008
GSM360315 R2=HeLa_anti-PCSK9_siRNA_Aug5_2008
GSM360316 R3=HeLa_anti-PCSK9_Adaptor_Aug5_2008
BioProject PRJNA111767

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
GSE14434_R1_vs_R2.CHP.gz 1.0 Mb (ftp)(http) CHP
GSE14434_R1_vs_R3.CHP.gz 1.1 Mb (ftp)(http) CHP
GSE14434_RAW.tar 15.5 Mb (http)(custom) TAR (of CEL, CHP)
GSE14434_README.txt 2.5 Kb (ftp)(http) TXT
GSE14434_comparison.xls.gz 7.4 Mb (ftp)(http) XLS
Processed data provided as supplementary file
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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