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Series GSE52874 Query DataSets for GSE52874
Status Public on Dec 03, 2013
Title Microarray data from zebrafish embryos (ZFE) exposed (for 48-96 hr periods and assessed 8 days post-fertilization) to oil emulsions collected from GoM shoreline sites following the Deepwater Horizon blowout.
Organism Danio rerio
Experiment type Expression profiling by array
Summary Zebrafish embryos/larvae are a choice model system for studying early stages of vertebrate development and how these stages can be perturbed by environmental stressors. Petrochemical combustion products elicit developmental toxicity that is associated with transcriptome changes in zebrafish embryos (ZFE). We used microarrays to characterize transcriptome changes in ZFE that had been exposed in the laboratory to oil emulsions collected from the GoM shoreline, ~9 weeks after the Deepwater Horizon blowout.
 
Overall design ZFE were exposed to oil emulsions collected (July 1-4, 2010) at the GoM shoreline. ZFE were exposed to emulsions, consisting of varying amounts of alkanes, polynuclear aromatic hydrocarbons (PAHs), sand and seawater that had been “buttered” on the bottom of cups, in which ZFE were suspended in zebrafish medium. ZFE development was monitored by light microscopy.  Control ZFE were suspended in zebrafish medium without emulsions. Gross developmental abnormalities, including axial changes, altered swimming patterns and yolk sac and pericardial sac swelling were noted and photographed.   ZFE/larvae were collected after exposures ended, and placed in clean medium until 192 hr post-fertilization, when larvae were collected for RNA extraction and hybridization on Affymetrix zebrafish microarrays.
 
Contributor(s) Kleinow K, Bui A, Penn A, Xiao R, Perveen Z, Polk P
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Submission date Dec 02, 2013
Last update date Jan 25, 2018
Contact name Rui Xiao
E-mail(s) ruixiao85@gmail.com
Organization name Columbia University
Department Anesthesiology
Lab P&S 12-402
Street address 630 West 168th Street
City New York
State/province NY
ZIP/Postal code 10032
Country USA
 
Platforms (1)
GPL1319 [Zebrafish] Affymetrix Zebrafish Genome Array
Samples (3)
GSM1277378 ZebrafishEmbryos_Control
GSM1277379 ZebrafishEmbryos_GoM_0-48
GSM1277380 ZebrafishEmbryos_GoM_48-96
Relations
BioProject PRJNA230382

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
GSE52874_RAW.tar 6.6 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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