E-GEOD-49943 - Identification of Smaug target mRNAs in the early Drosophila embryo using RIP-Chip

Status
Released on 3 December 2013, last updated on 3 June 2014
Organism
Drosophila melanogaster
Samples (11)
Array (1)
Protocols (6)
Description
To identify Smaug’s target mRNAs on a genome-wide scale we used ribonucleoprotein (RNP) co-immunoprecipitation followed by microarray analysis of the co-purifying mRNAs (RIP-Chip). Extracts, prepared from wild-type embryos collected 0-3 hours post-egglaying, were immunoprecipitated with an anti-Smaug antibody (Smaug RIPs) while control immunoprecipitations using non-immune serum served as a negative control (control RIPs). Genome-wide transcript expression in wild-type embryos were also assessed and used as reference. There are 11 array experiments presented here: 1. gene expression profiling of total mRNA sample extracted from wild-type 0-3 hour embryos (3 technical replicates performed using a pooled input reference sample); 2. RNA co-immunoprecipitations of endogenous Smaug (Smaug RIPs) from wild-type 0-3 hour embryos (3 biological replicates and 1 technical replicates); 3. control RNA co-immunoprecipitations (control RIPs) from wild-type 0-3 hour embryos (3 biological replicates and 1 technical replicates).
Experiment type
transcription profiling by array 
Contacts
Howard D Lipshitz <howard.lipshitz@utoronto.ca>, Craig A Smibert, J T Westwood, Jason G Dumelie, John D Laver, Linan Chen, Matthew H Cheng, Najeeb U Siddiqui, Quaid D Morris, Xiao Li, Zhiyong Yang
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-49943.idf.txt
Sample and data relationshipE-GEOD-49943.sdrf.txt
Raw data (1)E-GEOD-49943.raw.1.zip
Processed data (1)E-GEOD-49943.processed.1.zip
Array designA-GEOD-13782.adf.txt
Links