GEO DataSets

Analysis of hearts from embryos treated for up to 12 hours with retinoic acid (RA) or 2,3,7,8 tetrachlorodibenzo-p-dioxin (TCDD). Zebrafish embryos treated with RA or TCDD develop cardiac malformation and heart failure.

Organism:

Danio rerio

Type:

Expression profiling by array, transformed count, 4 agent, 4 time sets

Platform:

GPL1319

Series:

GSE9020

48 Samples

Download data: CEL, EXP

(Submitter supplied) Retinoic acid (RA) and 2,3,7,8-tetrachlorodibenzo-p-dioxin activate distinct ligand-dependent transcription factors, and both cause cardiac malformation and heart failure in zebrafish embryos. We hypothesized that they cause this response by hyperactivating a common set of genes critical for heart development. To test this, we used microarrays to measure transcripts changes in hearts isolated from zebrafish embryos 1,2,4 and 12 h after exposure to 1μM RA. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Dataset:

GDS2965

Platform:

GPL1319

48 Samples

Download data: CEL, EXP

(Submitter supplied) Oxidative stress is an important mechanism of chemical toxicity, contributing to teratogenesis as well as to cardiovascular and neurodegenerative diseases. Developing animals may be especially sensitive to chemicals causing oxidative stress. To assess the response to chemicals at different stages of development, zebrafish (Danio rerio) embryos at 1, 2, 3, 4, 5, and 6 days post-fertilization (dpf) were exposed to 0.1% dimethyl sulfoxide (DMSO), 2 nM 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD), or 10 uM tert-butylhydroquinone (tBHQ) for 6 hr. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL2878

12 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of embryonic zebrafish injected with a control morpholino or a morpholino that causes exclusion of TNNT2 exon 13.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL6457

4 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus; Human immunodeficiency virus 1; Human gammaherpesvirus 8; Rattus norvegicus; JC polyomavirus; Betapolyomavirus hominis; Danio rerio; Homo sapiens; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Betapolyomavirus macacae

Type:

Non-coding RNA profiling by array; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL15720 GPL10658 GPL7724

36 Samples

Download data: TXT

(Submitter supplied) Although many drugs and environmental chemicals are teratogenic, the mechanisms by which most toxicants disrupt embryonic development are not well understood. microRNAs (miRNAs), single-stranded RNA molecules of ~22 nt that regulate protein expression by inhibiting mRNA translation and promoting mRNA sequestration or degradation, are important regulators of a variety of cellular processes including embryonic development and cellular differentiation. more...

Organism:

Danio rerio

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL10658

12 Samples

Download data: TXT

(Submitter supplied) Although many drugs and environmental chemicals are teratogenic, the mechanisms by which most toxicants disrupt embryonic development are not well understood. microRNAs (miRNAs), single-stranded RNA molecules of ~22 nt that regulate protein expression by inhibiting mRNA translation and promoting mRNA sequestration or degradation, are important regulators of a variety of cellular processes including embryonic development and cellular differentiation. more...

Organism:

Mus musculus; JC polyomavirus; Human immunodeficiency virus 1; Human gammaherpesvirus 8; Rattus norvegicus; Betapolyomavirus hominis; Danio rerio; Homo sapiens; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Betapolyomavirus macacae

Type:

Non-coding RNA profiling by array

Platforms:

GPL7724 GPL15720

24 Samples

Download data: TXT

(Submitter supplied) Exposure to environmental contaminants can disrupt normal development of the early vertebrate skeleton. 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) impairs craniofacial skeletal development across many vertebrate species and its effects are especially prominent in early life stages of fish. TCDD activates the aryl hydrocarbon receptor (AHR), a transcription factor that mediates most if not all TCDD responses. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

24 Samples

Download data: CEL

(Submitter supplied) Transcriptmic profiling of cardiac tissues in AHR2 knockdown and control zebrafish (Danio rerio) embryos exposed to BaP, FL amd BaP+FL at 2,6,12, and 18 hours post dosing

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL18725

109 Samples

Download data: TXT

(Submitter supplied) Pregnant C57Bl6N mice were treated with 0 (corn oil), 1.5, 3.0, or 6.0 ug/kg TCDD on gd14.5. Fetal hearts were collected on gd17.5. Hearts from each litter were pooled onto one chip. 4 replicates of each condition were run on affymetrix MG_U74Av2 chips, using standard affymetrix protocols and controls. Keywords: dose-response, 3 doses plus corn oil control, 4 replicates

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS1302

Platform:

GPL81

20 Samples

Download data: CEL

Analysis of gestational day (GD) 17.5 fetal hearts isolated from pregnant C57BL/6Ns treated at GD 14.5 with up to 6.0 ug/kg 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD). TCDD, a cardiovascular teratogen, inhibits cardiomyocyte proliferation, a process that peaks between GD 14.5 to 17.5.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 agent, 4 dose sets

Platform:

GPL81

Series:

GSE2812

20 Samples

Download data: CEL

(Submitter supplied) The purpose of this experiment is to understand which transcripts are differentially expressed following exposure to TCDD. We used microarrays to understand global changes in gene signal intensity

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

12 Samples

Download data: CEL, XLS

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:

GPL21741 GPL24776

62 Samples

Download data: BEDGRAPH, BW, NARROWPEAK, TXT

(Submitter supplied) The MTF-1 transcription factor is considered to be a master regulator of zinc homoestasis. We previously characterized a constitutively nuclear, dominant-negative zebrafish MTF-1/eGFP fusion protein (dnMTF-1). In this study, in vitro transcribed dnMTF-1 mRNA was microinjected into zebrafish embryos (2-cell stage), with controls consisting of zebrafish embryos (2-cell stage) microinjected with in vitro transcribed enhanced green fluorescent protein (eGFP) mRNA. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL11077

16 Samples

Download data: TXT

(Submitter supplied) We have designed a zebrafish genomic microarray to identify DNA-protein interactions in the proximal promoter regions of over 11,000 zebrafish genes. Using these microarrays, together with chromatin immunoprecipitation with an antibody directed against tri-methylated lysine 4 of Histone H3, we demonstrate the feasibility of this method in zebrafish. This approach will allow investigators to determine the genomic binding locations of DNA interacting proteins during development and expedite the assembly of the genetic networks that regulate embryogenesis. more...

Organism:

Danio rerio

Type:

Genome binding/occupancy profiling by genome tiling array

Platforms:

GPL3766 GPL3767

6 Samples

Download data

(Submitter supplied) Ethanol is a well-known teratogen. While this teratogenic potential is well-characterized clinically, the mechanisms through which ethanol exposure results in developmental defects remain unclear. Here we use the zebrafish model to elucidate eye-specific mechanisms that may underlie ethanol-mediated microphthalmia (reduced eye size), using time-series microarray analysis of gene expression of eye tissues of embryos exposed to 1.5% ethanol vs. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Dataset:

GDS5357

Platform:

GPL1319

9 Samples

Download data: CEL, CHP

Analysis of eyes from 24-48 hour post-fertilization embryos exposed to 1.5% ethanol. Ethanol exposure during retinal neurogenesis associated with microphthalmic defects. Results provide insight into molecular mechanisms underlying ethanol exposure-mediated developmental retinal defects.

Organism:

Danio rerio

Type:

Expression profiling by array, count, 2 agent, 5 time sets

Platform:

GPL1319

Series:

GSE51427

9 Samples

Download data: CEL, CHP

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL17210

81 Samples

Download data: CALLS, PAIR

(Submitter supplied) Juvenile zebrafish were fed Biodiet starter (4% body weight per day) for 42 d with TCDD added at 0 ppb, 0.1 ppb, 1 ppb, 10 ppb or 100 ppb. Fish were collected, sexed, weighed and length measured at 0, 7, 14, 28 or 42 d for TCDD assessment, histopathologic and microarray analysis. Microarray experiments were conducted using 0 and 100 ppb-TCDD treated male and female sexed zebrafish at 7, 14, 28 and 42 d. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL17210

63 Samples

Download data: CALLS, PAIR

(Submitter supplied) Juvenile zebrafish were fed Biodiet starter (4% body weight per day) for 42 d with TCDD added at 0 ppb, 0.1 ppb, 1 ppb, 10 ppb or 100 ppb. Fish were collected, sexed, weighed and length measured at 0, 7, 14, 28 or 42 d for TCDD assessment, histopathologic and microarray analysis. Microarray experiments were conducted in TCDD-treated (at 0, 0.1, 1, 10 and 100 ppb) for male and female sexed zebrafish at 28 d. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL17210

36 Samples

Download data: CALLS, PAIR