GEO DataSets

(Submitter supplied) Histone acetylation is involved in the regulation of gene expression in plants and eukaryotes. Histone deacetylases (HDACs) are enzymes that catalyze the removal of acetyl groups from histones, which is associated with the repression of gene expression. To study the role of histone acetylation in the regulation of gene expression during seed germination, trichostatin A (TSA), a specific inhibitor of histone deacetylase, was used to treat imbibing Arabidopsis thaliana seeds. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platforms:

GPL198 GPL71

7 Samples

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(Submitter supplied) Histone acetylation is involved in the regulation of gene expression in plants and eukaryotes. Histone deacetylases (HDACs) are enzymes that catalyze the removal of acetyl groups from histones, which is associated with the repression of gene expression. To study the role of histone acetylation in the regulation of gene expression during seed germination, trichostatin A (TSA), a specific inhibitor of histone deacetylase, was used to treat imbibing Arabidopsis thaliana seeds. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

3 Samples

Download data

(Submitter supplied) Histone acetylation is involved in the regulation of gene expression in plants and eukaryotes. Histone deacetylases (HDACs) are enzymes that catalyze the removal of acetyl groups from histones, which is associated with the repression of gene expression. To study the role of histone acetylation in the regulation of gene expression during seed germination, trichostatin A (TSA), a specific inhibitor of histone deacetylase, was used to treat imbibing Arabidopsis thaliana seeds. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS2559

Platform:

GPL71

4 Samples

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Analysis of seeds imbibed for 3 days in the presence of trichostatin A, a specific inhibitor of histone deacetylase. Results provide insight into the role of histone acetylation in the regulation of gene expression during seed germination.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 2 agent sets

Platform:

GPL71

Series:

GSE3783

4 Samples

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(Submitter supplied) Analysis of the transcriptome of dry hda9-1 mutant seeds with those of Col wild-type seeds, using Affymetrix GeneChip Arabidopsis ATH1 Genome Array. The hda9-1 mutant has reduced primary seed dormancy. We used microarrays to dissect which genes are differentially expressed in the hda9-1 mutant to study the mechanisms how HDA9 affects seed dormancy and germination

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

6 Samples

Download data: CEL

(Submitter supplied) our analysis uncovered the role of histone deacetylation in light-regulated seed germination process and identified that HDA15-PIF1 as a key repression module directing the transcription network of seed germination

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

6 Samples

Download data: TXT

(Submitter supplied) We report on the identification of nitric-oxide regulated H3K9/14ac sites in Arabidopsis. For this purpose liquid grown Arabidopsis seedlings were treated with the natural NO-donor S-nitrosoglutathione (GSNO), GSNO in combination with the NO-scavenger cPTIO, GSH (control) or TSA (positive control). Material was crosslinked and harvested 3h and 16h after onset of the treatments. Then, quantitative analysis of the H3K9/14ac patterns across these treatment was performed using DiffBind. more...

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17639

40 Samples

Download data: BED, CSV

(Submitter supplied) Cardiac hypertrophy is characterized by an increase in heart size and profound gene expression changes. Pharmacological histone deacetylase (HDAC) inhibitors attenuate pathological cardiac remodeling and hypertrophic gene expression. Published literature has linked enzymes that mediates histone acetylation to pathogenesis, however, the role of histone acetylation to define hypertrophic gene regulatory events are not well understood. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11002

4 Samples

Download data: BED, TXT

(Submitter supplied) In eukaryotic cells, DNA is tightly packed in the nucleus in chromatin which has histones as its main protein component. Histones are subject to a large number of distinct post-translational modifications, whose sequential or combinatorial action affects genome function. Here, we report the identification of acetylation at lysine 36 in histone H3 (H3K36ac) as a modification in Arabidopsis thaliana. H3K36ac was found to be an evolutionary conserved modification in seed plants. It is highly enriched in euchromatin and very low in heterochromatin. Genome-wide ChIP-seq experiments revealed that H3K36ac is generally found at the 5’ end of genes. Independently of gene length, H3K36ac covers about 500 bp, about two to three nucleosomes, immediately downstream of the transcriptional start. H3K36ac overlaps with H3K4me3 and the H2A.Z histone variant. The histone acetyl transferase GCN5 and the histone deacetylase HDA19 are required for normal steady state levels of H3K36ac in plants. There is negative crosstalk between H3K36ac and H3K36me3, mediated by the histone methyl transferase SDG8 and GCN5. H3K36ac levels are associated with transcriptional activity but show no linear relation. Instead, H3K36ac is a binary indicator of transcription

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13222

29 Samples

Download data: BW

(Submitter supplied) In order to dtermine the role of histone actylation in gene expresssion, E. histolytica 200:NIH trophozoites were treated with the HDAC inhibitor Trichostatin A, or grown in short chain fatty acids, which have been shown to alter histone actylation patterns in Entamoeba species. Keywords: Expression

Organism:

Entamoeba histolytica

Type:

Expression profiling by array

Platform:

GPL4622

8 Samples

Download data: CEL

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

Organism:

Schistosoma mansoni

Type:

Expression profiling by array

Platform:

GPL22001

18 Samples

Download data: TXT

(Submitter supplied) HDACs inhibitors induces mortality in the parasite Schistosoma mansoni (schistosomula and adult worms), and became an interesting drug class for the development of new drugs to treat schistosomiasis. In order to understand the effect of histone hyperacetylation on the parasite, we tested the effect of the HDAC inhibitor Trichostatin A on schistosomula gene expression.

Organism:

Schistosoma mansoni

Type:

Expression profiling by array

Platform:

GPL22001

6 Samples

Download data: TXT

(Submitter supplied) HDACs inhibitors induces mortality in the parasite Schistosoma mansoni (schistosomula and adult worms), and became an interesting drug class for the development of new drugs to treat schistosomiasis. In order to understand the effect of histone hyperacetylation on the parasite, we tested the effect of the HDAC inhibitor Trichostatin A on schistosomula gene expression.

Organism:

Schistosoma mansoni

Type:

Expression profiling by array

Platform:

GPL22001

6 Samples

Download data: TXT

(Submitter supplied) HDACs inhibitors induces mortality in the parasite Schistosoma mansoni (schistosomula and adult worms), and became an interesting drug class for the development of new drugs to treat schistosomiasis. In order to understand the effect of histone hyperacetylation on the parasite, we tested the effect of the HDAC inhibitor Trichostatin A on schistosomula gene expression.

Organism:

Schistosoma mansoni

Type:

Expression profiling by array

Platform:

GPL22001

6 Samples

Download data: TXT

(Submitter supplied) Transmission of the malaria parasite Plasmodium falciparum from the human to the mosquito is mediated by the intraerythrocytic gametocytes, which, once taken up during a blood meal, become activated to initiate sexual reproduction. Because gametocytes are the only parasite stages able to establish an infection in the mosquito, they are crucial for spreading the tropical disease. During gametocyte maturation, different repertoires of genes are switched on and off in a well-coordinated sequence, pointing to regulatory mechanisms of gene expression. more...

Organism:

Plasmodium falciparum

Type:

Expression profiling by array

Platform:

GPL15130

12 Samples

Download data: TXT

(Submitter supplied) Expression profiling the response to inhibition of DNA methylation and histone deacetylation. Comparison of expression in HepG2 cells treated with 5-aza-dC, Trichostatin A, both, or none (control) to change methylation and acetylation status. Background:DNA methylation and histone deacetylation are epigenetic mechanisms that play major roles in eukaryotic gene regulation. We hypothesize that many genes in the human hepatoma cell line HepG2 are regulated by DNA methylation and histone deacetylation. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2213

Platform:

GPL570

16 Samples

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Analysis of HepG2 hepatoma cells following treatment with 5-aza-2'-deoxycytidine (5-aza-dC) to inhibit DNA methylation, or trichostatin A (TSA) to inhibit histone deacetylation, or both. Results identify epigentically regulated genes in hepatoma cells.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 4 agent sets

Platform:

GPL570

Series:

GSE5230

16 Samples

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(Submitter supplied) Testing the hypothesis that cytosine methylation and histone deacetylation regulate an overlapping set of genes. Keywords: other

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Datasets:

GDS919 GDS920

Platforms:

GPL1381 GPL1382

13 Samples

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Analysis of 16 day old Columbia plantlets grown in media with 7 ug/ml 5-aza-2'deoxycytosine (aza-dC) to block cytosine methylation (Cm) or 0.5 uM trichostatin A (TSA) to block histone deacetylation (HD) or both. Results provide insight into the interaction between Cm and HD in gene regulation.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, log ratio, 3 agent sets

Platform:

GPL1382

Series:

GSE1612

5 Samples

Download data

Analysis of 16 day old Columbia plantlets grown in media with 7 ug/ml 5-aza-2'deoxycytosine (aza-dC) to block cytosine methylation (Cm) or 0.5 uM trichostatin A (TSA) to block histone deacetylation (HD) or both. Results provide insight into the interaction between Cm and HD in gene regulation.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, log ratio, 3 agent sets

Platform:

GPL1382

Series:

GSE1612

5 Samples

Download data