GEO DataSets

(Submitter supplied) The in vitro test battery of the European research consortium ESNATS (‘novel stem cell-based test systems’) has been used to screen for potential human developmental toxicants. As part of this effort, the migration of neural crest (MINC) assay has been used to evaluate chemical effects on neural crest function. It identified some drug-like compounds in addition to known environmental toxicants. The hits included the HSP90 inhibitor geldanamycin, the chemotherapeutic arsenic trioxide, the flame-retardant PBDE-99, the pesticide triadimefon and the histone deacetylase inhibitors valproic acid and trichostatin A. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

60 Samples

Download data: CEL, XLSX

(Submitter supplied) The first in vitro tests for developmental toxicity made use of rodent cells. Newer teratology tests, e.g. developed during the ESNATS project, use human cells and measure mechanistic endpoints (such as transcriptome changes). However, the toxicological implications of mechanistic parameters are hard to judge, without functional/morphological endpoints. To address this issue, we developed a new version of the human stem cell-based test STOP-tox(UKN). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

148 Samples

Download data: CEL

(Submitter supplied) Test systems to identify developmental toxicants are urgently needed. A combination of human stem cell technology and transcriptome analysis was used here to provide proof-of-concept that toxicants with a related mode of action can be identified, and grouped for read-across. We chose a test system of developmental toxicity, related to the generation of neuroectoderm from pluripotent stem cells (UKN1), and exposed cells for six days to benchmark concentration (BMC) of histone deacetylase inhibitors (HDACi) valproic acid, trichostatin-A, vorinostat, belinostat, panobinostat and entinostat. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

85 Samples

Download data: CEL

(Submitter supplied) The amino acid homocysteine increases in the serum when there is insufficient folic acid or vitamin B12, or with certain mutations in enzymes important in methionine metabolism. Elevated homocysteine is related to increased risk for cardiovascular and other diseases in adults and elevated maternal homocysteine increases the risk for certain congenital defects, especially those that result from abnormal development of the neural crest and neural tube. more...

Organism:

Gallus gallus

Type:

Expression profiling by array

Dataset:

GDS2646

Platform:

GPL3213

6 Samples

Download data: CEL

Analysis of cultured cardiac neural crest cells treated with homocysteine (HC). Elevated maternal HC increases the risk for congenital defects that result from abnormal development of the neural crest and neural tube. Results provide insight into the molecular basis of HC-induced dysmorphogenesis.

Organism:

Gallus gallus

Type:

Expression profiling by array, count, 2 agent sets

Platform:

GPL3213

Series:

GSE6868

6 Samples

Download data: CEL

(Submitter supplied) This series represents murine dorsal neural tube bisected along the midline with one half from each embryo used for control and the other half treated with 10-6M RA dissolved in ethanol for 6, 12, 24 or 48 h. For 6 h exposures, the explants were cultured overnight on fibronectin coated 35mm dishes (Biocoat, Becton Dickinson Labware, Bedford, MA) in DMEM with 10% horse serum in order to allow for sufficient outgrowth of neural crest cells. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS773

Platform:

GPL81

27 Samples

Download data: CEL, EXP

Expression profiling of cranial neural crest exposed to 1 uM retinoic acid (RA) at various lengths of time up to 48 hours. Neural crest obtained from 8.5 days postcoitum ICR embryos. Results provide insight into developmental pathways affected upon exposure to teratogenic concentrations of RA.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 2 agent, 4 time sets

Platform:

GPL81

Series:

GSE1588

27 Samples

Download data: CEL, EXP

(Submitter supplied) Developmental neurotoxicity (DNT) may be induced when chemicals disturb a key neurodevelopmental process, and many tests focus on this type of toxicity. Alternatively, DNT may occur when chemicals are cytotoxic only during a specific neurodevelopmental stage. The toxicant sensitivity is affected by the expression of toxicant targets and by resilience factors. Although cellular metabolism plays an important role, little is known how it changes during human neurogenesis, and how potential alterations affect toxicant sensitivity of mature vs. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

12 Samples

Download data: CEL

(Submitter supplied) Polyamidoamine (PAMAM) dendrimers have been investigated for the development of engineered nanomaterial drug delivery systems and other industrial uses. However, the major concern for their potential adverse effects on human neural progenitor cells remains unclear. In the present study, we employed human neural progenitor cells (hNPCs) to study the effects of G4-PAMAM dendrimers on neuronal differentiation.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17077

4 Samples

Download data: TXT

(Submitter supplied) To unravel the mechanisms of thalidomide developmental toxicity, we used microarrays to study transcriptomic changes induced by thalidomide during mouse embryonic stem cell (mESC) differentiation. C57BL/6 mESCs were allowed to differentiate spontaneously and global gene expression changes were studied using microarrays at at different time points after exposure to 0.25 mM thalidomide (THD).

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL16570

18 Samples

Download data: CEL

(Submitter supplied) In this study, we propose a novel method for inducing neuronal cells by briefly exposing them to small-molecule cocktails in a step-by-step manner. Global gene expression analysis with immunohistochemical staining and calcium flux assays reveal the generation of neurons from mouse embryonic fibroblasts (MEFs). In addition, time-lapse imaging of neural precursor-specific enhancer expression and global gene expression analyses show that the neurons are generated by passing through a neural crest-like precursor stage. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL10787

6 Samples

Download data: TXT

(Submitter supplied) To develop an in vitro model for developmental toxicity testing, we characterized gene expression changes during mouse embryonic stem cell (mESC) differentiation and their modulation by developmental toxicants. C57BL/6 mESCs were allowed to differentiate spontaneously and global gene expression changes were studied using microarrays at at different time points after embryoid body (EB) formation. Develpmental toxicants tested include 2.0 mM monobutyl phthalate (MBP), 0.25 mM thalidomide (THD), and 1.0 mM valproic acid (VPA).

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL16570

30 Samples

Download data: CEL

(Submitter supplied) The neural embryonic stem cell test (ESTn) is in vitro test that mimics early neural differentiation. The aim of this study was to define the biological domain of ESTn based on gene expression of selective markers for certain cell types, and to investigate the effects of two antidepressants, fluoxetine (FLX) and venlafaxine (VNX), on neural differentiation.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

49 Samples

Download data: XLSX

(Submitter supplied) Arsenic is a carcinogenic metalloid element found naturally in the environment; however human activities such as mining and pesticide use have led to increased concentrations in some areas. Silurana tropicalis eggs were exposed to sublethal concentrations of sodium arsenate (0, 0.5 and 1 ppm) for 3 days during embryogenesis. Four pooled of 10 larvae were sampled per treatment and analyzed for gene expression changes using a microarray approach.

Organism:

Xenopus tropicalis

Type:

Expression profiling by array

Platform:

GPL15626

16 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL10558 GPL8234

47 Samples

Download data

(Submitter supplied) LPAR1 (lysophosphatidic acid receptor 1) is identified in targeted siRNA screens which is required for the survival and maintenance of nueral crest stem cells (NCSC) as well as the growth and invasion of melanoma cells. To gain mechanistic insights into how LPAR signaling modulates melanoma cell growth, We conducted an Illumina genome-wide gene expression microarray experiment to profile melanoma cells treated with the autotaxin inhibitor, HA130. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

4 Samples

Download data: TXT

(Submitter supplied) To pinpoint developmental pathways that are up-regulated both in neural crest stem cells (NCSC) and in melanoma cells but not in melanocytes, we carried out computational analyses to compare gene expression profiles of human skin-derived NCSC, epidermal melanocytes and melanoma cells. Our aim was to preselect genes that exhibit high mRNA expression levels both in melanoma cells and in NCSC but low levels in melanocytes.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL8234

43 Samples

Download data: TXT

(Submitter supplied) Safety sciences and the identification chemical hazard have been seen as one of the most immediate practical applications of human pluripotent stem cell technology. Protocols for the generation of many desirable human cell types have been developed, but optimization of neuronal models for toxicological use has been astonishingly slow, and the wide, clinically- important field of peripheral neurotoxicity is still largely unexplored. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

20 Samples

Download data: CEL, CHP

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

Organism:

Gallus gallus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19005

513 Samples

Download data

(Submitter supplied) Neural crest cells migrate throughout the embryo, but how cells move in a directed and collective manner has remained unclear. Here, we perform the first single-cell transcriptome analysis of cranial neural crest cell migration at three progressive stages in chick and identify and establish hierarchical relationships between cell position and time-specific transcriptional signatures. We determine a novel transcriptional signature of the most invasive neural crest Trailblazer cells that is consistent during migration and enriched for approximately 900 genes. more...

Organism:

Gallus gallus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19005

501 Samples

Download data: TXT