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Series GSE73070 Query DataSets for GSE73070
Status Public on Dec 14, 2015
Title RIP-Chip analysis of the C. elegans FOG-1 and FOG-3 proteins
Organism Caenorhabditis elegans
Experiment type Other
Summary FOG-1/CPEB and FOG-3/Tob are the terminal regulators of the sex determination in C. elegans germ cells. CPEB and Tob proteins are both translational regulators. To investigate how FOG-1 and FOG-3 regulate germ cell sex determination we sought to identify the target mRNAs. We used transgenic epitope tagged animals (3xMyc::FOG-1 and FOG-3::3xFLAG). To identify the mRNA targets of FOG-1/CPEB and FOG-3/Tob on a genome wide scale we used RNA immunoprecipitation followed by microarray analysis. We found 81 putative mRNA targets of FOG-1 and 722 putative targets of FOG-3. 76 target mRNAs were common to both FOG-1 and FOG-3.
 
Overall design FOG-1 RNA-coimmunoprecipitation (RIP) samples were prepared as follows. Parallel RIPs were performed with wild type animals as the control IP. Worm extracts were made from wildtype and 3xMyc::FOG-1 late L3/early L4 animals. Myc affinity gel was used to immunoprecipitate 3xMyc::FOG-1 from the extracts. RNA was extracted from the pellets and analyzed on Affymetrix microarrays. 7 biological replicates of both 3xMyc::FOG-1 and wildtype were used. FOG-3 RNA-coimmunoprecipitation (RIP) samples were prepared as follows. Parallel RIPs were performed with wild type animals as the control IP. Worm extracts were made from wildtype and FOG-3::3xFLAG late L3/early L4 animals. Myc affinity gel was used to immunoprecipitate FOG-3::3xFLAG from the extracts. RNA was extracted from the pellets and analyzed on Affymetrix microarrays. 7 biological replicates of both FOG-3::3xFLAG and wildtype were used.
 
Contributor(s) Noble D, Ortiz MA, Kimble JE
Citation(s) 26564160
Submission date Sep 15, 2015
Last update date Jul 06, 2016
Contact name Daniel Noble
E-mail(s) dcnoble@wisc.edu
Organization name University of Wisconsin-Madison
Street address 433 Babcock Dr
City Madison
State/province wi
ZIP/Postal code 53706
Country USA
 
Platforms (1)
GPL200 [Celegans] Affymetrix C. elegans Genome Array
Samples (40)
GSM1881698 Myc::FOG-1 - Myc IP - replicate 1
GSM1881699 Myc::FOG-1 - Myc IP - replicate 2
GSM1881700 Myc::FOG-1 - Myc IP - replicate 3
Relations
BioProject PRJNA295983

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Supplementary file Size Download File type/resource
GSE73070_RAW.tar 68.2 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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