GEO DataSets

(Submitter supplied) Cells respond to changes in environment by shifting their gene expression profile to deal with the new conditions. The cellular response to changes in metal homeostasis is an important example of this. Transition metals such as iron, zinc, and copper are essential micronutrients but other metals such as cadmium are simply toxic. The cell must maintain metal concentrations in a window that supports efficient metabolic function but must also protect against the damaging effects of high concentrations of these metals. more...

Organism:

Drosophila melanogaster

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL6629

3 Samples

Download data: BAR, CEL

(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) Only a small number of genes are known direct targets of the zinc-responsive transcription factor MTF1; therefore, the aim of this study was to gain a more complete understanding of the MTF-1 regulated zinc-responsive component of the transcriptome. A targeted siRNA was used to deplete MTF1 expression in the human intestinal cell line Caco-2. We predicted that the response to zinc of direct MTF1 target genes would be abrogated by MTF1 knockdown. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

12 Samples

Download data: TXT

(Submitter supplied) Kc167 Cells were plated at 0.5x106/ml and grown at 23.50C. They were treated with 20-HE (Sigma) at a final concentration of 5x10-7M. The reference sample was total RNA isolated at 0 hr. after treatment. The experimental samples were total RNA isolated from cells treated for 1, 3, 6, 12, 24, and 48 hours.

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Platform:

GPL6912

32 Samples

Download data

(Submitter supplied) We used the DamID method to systematically identify the binding sites of Ecdysone Receptor and its heterodimeric partner USP across the whole genome in Drosophila Kc cells. We find that the EcR sites are a subset of the USP sites and that only a proportion are ecdysone regulated from an accompanying ecdysone profiling study. The role of EcR/USP in the ecdysone network appears to be coordinated by the recruitment of many transcription factors as well as signaling molecules. more...

Organism:

Drosophila melanogaster

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL1447

12 Samples

Download data

(Submitter supplied) In this study, we compared MTF-1 CUT&RUN of cadmium resistant MDA-MB-231 cells vs untreated controls.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

4 Samples

Download data: BED, BW

(Submitter supplied) In this study, we compared RNA-seq of cadmium resistant MDA-MB-231 cells vs untreated controls.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

4 Samples

Download data: TXT

(Submitter supplied) In this study, we compared ATAC-seq of cadmium resistant MDA-MB-231 cells vs untreated controls.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

4 Samples

Download data: BW

(Submitter supplied) Division of labor is a central feature of cellular organization. Consequently, gene regulation and intermediary metabolism are generally believed to be conducted by strictly separate classes of proteins. Here, we show that inosine monophosphate dehydrogenase (IMPDH), the central enzyme in guanine nucleotide biosynthesis, moonlights as a gene-specific transcription factor. Nuclear exclusion during S phase coordinates IMPDH’s transcriptional activities with the cell cycle. more...

Organism:

Drosophila melanogaster

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL6629

7 Samples

Download data: BAR, BED, CEL, SGR

(Submitter supplied) [original title] Binding site turnover produces pervasive quantitative changes in transcription factor binding between closely related Drosophila species. We demonstrate extensive quantitative changes in binding of six factors that control early embryonic patterning between two closely related Drosophila species

Organism:

Drosophila melanogaster; Drosophila yakuba

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL9061 GPL10061

20 Samples

Download data: GFF, TXT

(Submitter supplied) In future high-throughput transcriptomic studies, we propose that the use of cell lines nullizygous for important targets of environmental chemicals will greatly facilitate the interpretation of regulated genes. To provide proof of this concept, we generated transcript profiles from wild-type and MTF-1-null cells exposed to zinc (Zn) and six putative activators of MTF-1 generated using TempO-Seq targeted sequencing of ~3000 human genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

48 Samples

Download data: TXT

(Submitter supplied) Purpose: Analyze transcriptome changes in response to metal treatment in wildtype and sensitized genetic backgrounds. Methods: Zinc or manganese chloride supplementation of wildtype or mutant Drosophila S2R+ cultured cells, followed by RNA extraction. Results: Zinc chloride supplementation induces transcriptional responses in wildtype, ia-2 mutant, and ZnT63C mutant cells. Conclusions: Wildtype S2R+ cells have a transcriptional response to mild zinc chloride supplementation and the zinc response is greater (in degree and in number of genes) in genetically sensitized cell backgrounds that perturb zinc mobilization.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13304

18 Samples

Download data: CSV

(Submitter supplied) We are investigating the response of human lymphoblastoid cells to low-dose exposure of environmental metals We used microarrays to detail the global programme of gene expression upon response to low-dose metals Keywords: dose

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS4915 GDS4916

Platform:

GPL6244

8 Samples

Download data: CEL

Analysis of TK6 lymphoblastoid cells treated with 0.1 uM cadmium chloride for 24 hours. Results provide insight into the molecular impact resulting from exposure to an environmentally relevant dose of cadmium.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 agent sets

Platform:

GPL6244

Series:

GSE20320

4 Samples

Download data: CEL

Analysis of TK6 lymphoblastoid cells treated with 0.1 uM sodium arsenite for 24 hours. Results provide insight into the molecular impact resulting from exposure to an environmentally relevant dose of arsenic.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 agent sets

Platform:

GPL6244

Series:

GSE20320

4 Samples

Download data: CEL