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GEO help: Mouse over screen elements for information. |
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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
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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
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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.
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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
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Phone |
502-852-4128
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Fax |
502-852-4702
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URL |
http://systemsanalysis.louisville.edu/
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Organization name |
University of Louisville
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Department |
Birth Defects Center
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Lab |
Systems Analysis Laboratory
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Street address |
501 S Preston St
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City |
Louisville |
State/province |
KY |
ZIP/Postal code |
40202 |
Country |
USA |
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Platforms (2) |
GPL560 |
Developmental Toxicity of the Mouse Embryo (DTME) |
GPL1261 |
[Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array |
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Samples (24)
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GSM12221 |
EtOH: PK11195 in C57BL/6J mice |
GSM12222 |
EtOH: Ro5-4864 in C57BL/6J mice |
GSM12223 |
EtOH: Ro5-4864 in C57BL/6J mice |
GSM12224 |
EtOH: C57BL/6N headfold at 3.0h |
GSM12225 |
EtOH: C57BL/6N headfold at 3.0h |
GSM12226 |
EtOH: PK11195 in C57BL/6N mice |
GSM12227 |
EtOH: PK11195 in C57BL/6N mice |
GSM12228 |
EtOH: Ro5-4864 in C57BL/6N mice |
GSM12229 |
EtOH: Ro5-4864 in C57BL/6N mice |
GSM136067 |
B6J embryo, saline control-6J-SAL-1 |
GSM136068 |
B6J embryo, saline control-6J-SAL-2 |
GSM136069 |
B6J embryo, alcohol exposure-6J-EtOH-1 |
GSM136070 |
B6J embryo, alcohol exposure-6J-EtOH-2 |
GSM136071 |
B6J embryo, alcohol & PK11195-6J-CoT-1 |
GSM136072 |
B6J embryo, alcohol & PK11195-6J-CoT-2 |
GSM136073 |
B6N embryo, saline control-6N-SAL-1 |
GSM136074 |
B6N embryo, saline control-6N-SAL-2 |
GSM136075 |
B6N embryo, alcohol exposure-6N-EtOH-1 |
GSM136076 |
B6N embryo, alcohol exposure-6N-EtOH-2 |
GSM136077 |
B6N embryo, alcohol-PK11195 counterexposure-6N-CoT-1 |
GSM136078 |
B6N embryo, alcohol-PK11195 counterexposure-6N-CoT-2 |
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Relations |
BioProject |
PRJNA87169 |
Supplementary file |
Size |
Download |
File type/resource |
GSE1074_RAW.tar |
50.4 Mb |
(http)(custom) |
TAR (of CEL, GPR) |
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