NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE1074 Query DataSets for GSE1074
Status Public on Mar 11, 2004
Title Strain-dependent effects of alcohol on early mouse embryos
Organism Mus musculus
Experiment type Expression profiling by array
Summary EXPERIMENT: Microarray expression profiles derived from the cranial neural folds (headfold) of neurulation-stage mouse embryos 3.0h after maternal alcohol exposure on 8 d.p.c.
ANIMAL MODEL: Pregnancies from 2 substrains of C57BL/6 mice that differ in relative risk of Fetal Alcohol Syndrome (FAS): C57BL/6J (B6J) high-risk condition, and C57BL/6NCrl (B6N) low-risk condition.
EXPOSURE: Dams dosed with ethanol (EtOH) by intraperitoneal injection at 2.9 g EtOH per kg body weight. Controls received vehicle (saline) alone. A third group of dams received EtOH + 4.0 mg/kg PK11195, a specific high-affinity ligand to the 18 KDa mitochondrial peripheral benzodiazepine receptor site.
INTERVAL: High blood alcohol content must be sustained in dams for several hours to invoke FAS and is traditionally accomplished by a double injection of EtOH 4.0h apart. Since these embryos were harvested for genetic analysis 1h before dams would have gotten the second alcohol injection, the interval represents a snapshot of the critical response, prior to the second maternal injection that invokes greater risk. Counter-exposure to PK11195 significantly lowers the adverse response of B6J embryos to EtOH.
PLATFORM: Two independent assays run. The first dataset (PE), run April 2002 – January 2003, used samples pooled from 2 litters (PE) and the platform was a two-channel MPS621 array (http://www.lifesciences.perkinelmer.com/). This platform has 4800 sequence-verified gene elements derived from over 50 different human cDNA libraries reflecting a variety of well-annotated cellular processes and disease pathways. The second dataset (AF), run between May 2005 – November 2005, used samples pooled from 1 litter and the platform was Affymetrix GeneChip® Mouse Genome 430A 2.0 Array (http://www.affymetrix.com/). The MG430A 2.0 platform has 45,102 oligonucleotide probe cells representing approximately 14,000 well-characterized genes in the draft mouse genome assembly. The corresponding GEO samples are GSM12218 - GSM12227 for the two-channel PE arrays, and GSM136067 - GSM136078 for the one-channel AF arrays.
Keywords = fetal alcohol syndrome
Keywords = alcohol-related birth defects
Keywords = EtOH
Keywords = PK11195
Keywords = embryo
Keywords = strain differences
Keywords: Ordered
 
Overall design Assay of early mouse embryos during pathogenesis of Fetal Alcohol Syndrome (FAS). Replicate RNA samples were arrayed by one-channel oligonucleotide (Affymetrix) or two-channel cDNA (Perkin-Elmer) platforms.
 
Contributor(s) Knudsen TB, Nemeth KR, Singh AV, Green ML
Citation(s) 17200951
Submission date Feb 26, 2004
Last update date Feb 11, 2019
Contact name Thomas B Knudsen
E-mail(s) singh.amarv@epamail.epa.gov
Phone 502-852-4128
Fax 502-852-4702
URL http://systemsanalysis.louisville.edu/
Organization name University of Louisville
Department Birth Defects Center
Lab Systems Analysis Laboratory
Street address 501 S Preston St
City Louisville
State/province KY
ZIP/Postal code 40202
Country USA
 
Platforms (2)
GPL560 Developmental Toxicity of the Mouse Embryo (DTME)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (24)
GSM12218 EtOH at 3.0h in C57BL/6J mice
GSM12219 EtOH at 3.0h in C57BL/6J mice
GSM12220 EtOH: PK11195 in C57BL/6J mice
Relations
BioProject PRJNA87169

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
GSE1074_RAW.tar 50.4 Mb (http)(custom) TAR (of CEL, GPR)
Raw data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap