GEO DataSets

(Submitter supplied) To better understand the role of histone lysine acetylation in transcription in Plasmodium falciparum, we sought to attenuate the histone acetyltransferase (HAT) activity of PfGCN5 using anacardic acid (AA). We showed that AA reversibly and noncompetitively inhibited the HAT activity of recombinant PfGCN5. To a lesser extent, AA inhibited the PfGCN5 activity in parasite nuclear extracts, but did not affect the histone deacetylase activity. more...

Organism:

Plasmodium falciparum

Type:

Expression profiling by array

Platform:

GPL1858

9 Samples

Download data: TXT

(Submitter supplied) Purpose: In malaria parasite, PfGCN5, a histone acetyltansferase (HAT),forms a unique complex including a PHD domain containing protein named PfPHD1. To understand the function of this complex, the BrD in PfGCN5 and PHD in PfPHD1 were deleted. The transcritional changes after domain deletions were measured by RNA-seq. Methods: The mRNA profiles of parasite lines : 3D7 (WT), PfGCN5-ΔBrD and PfPHD1-ΔPHD, were generated by deep sequencing, in triplicate, using Illumina HiSeq 2500 in Rapid Run mode using 100nt single read sequencing. more...

Organism:

Plasmodium falciparum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21078

36 Samples

Download data: XLSX

(Submitter supplied) Investigation of genome-wide gene expression changes in Plasmodium falciparum overexpressing PfMYST compared to the wild-type strain 3D7. After introducing a single copy of the full-length PfMYST expression cassette into the parasite genome, parasites showed higher levels of H4-K5, -K8, and -K12 acetylation, a faster progression of intraerythrocytic developmental cycle (IDC), and shorter schizont development time (duration), which led to significantly fewer merozoites developed in mature schizonts than the control. more...

Organism:

Plasmodium falciparum; Plasmodium falciparum 3D7

Type:

Expression profiling by array

Platform:

GPL15768

12 Samples

Download data: PAIR, 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) Differential EC enrichment of pan-AcH4 was assessed at 34 select genes, including 19 EC-enriched genes, 6 broadly expressed genes, and 9 EC-excluded genes, by pan-AcH4 (AcH4K5, AcH4K8, AcH4K12, and AcH4K16) ChIP-chip analysis on human umbilical vein endothelial cells (HUVECs) and human aortic vascular smooth muscle cells (HuAoVSMCs) with a high resolution tiling DNA microarray. Specifically, the tiling array analyzes the 50 kb genomic region upstream of transcription initiation, the intragenic regions , and 50 kb genomic region downstream of the last exon.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL22952

6 Samples

Download data: TXT

(Submitter supplied) Differential EC enrichment of pan-AcH3 was assessed at 34 select genes, including 19 EC-enriched genes, 6 broadly expressed genes, and 9 EC-excluded genes, by pan-AcH3 (AcH3K9 and AcH3K14) ChIP-chip analysis on human umbilical vein endothelial cells (HUVECs) and human aortic vascular smooth muscle cells (HuAoVSMCs) with a high resolution tiling DNA microarray. Specifically, the tiling array analyzes the 50 kb genomic region upstream of transcription initiation, the intragenic regions, and 50 kb genomic region downstream of the last exon.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL22952

4 Samples

Download data: TXT

(Submitter supplied) To determine the role of HBO1 in EC physiology, gene expression analysis was conducted on control and HBO1 siRNA-treated HUVECs. A total of 263 differentially regulated protein-coding transcripts were detected, many of which are key for growth and angiogenesis. Additionally, many genes involved in cell cycle, cell division, and DNA replication were dysregulated. HBO1-regulated genes were verified by qRT-PCR, including those with roles in vessel tone regulation (e.g. more...

Organism:

Homo sapiens

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platform:

GPL16956

8 Samples

Download data: TXT

(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:

Plasmodium falciparum

Type:

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

Platform:

GPL26835

36 Samples

Download data: BW

(Submitter supplied) Chromatin structure is a basal epigenetic mechanism that determines cellular fate by organizing the dynamic gene expression during the cell development and proliferation. The nuclear members of the evolutionarily conserved actin-related protein (ARPs) superfamily are major components of nucleosome remodelingcomplexes in the nucleus. In the human malaria parasites, Plasmodium falciparum, comparative genome analysis reveals that two canonical actins and three orthologues of ARPs including PfArp1, PfArp4, and PfArp6 are encoded in the genome of this parasite. more...

Organism:

Plasmodium falciparum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26835

18 Samples

Download data: TXT

(Submitter supplied) Chromatin structure is a basal epigenetic mechanism that determines cellular fate by organizing the dynamic gene expression during the cell development and proliferation. The nuclear members of the evolutionarily conserved actin-related protein (ARPs) superfamily are major components of nucleosome remodelingcomplexes in the nucleus. In the human malaria parasites, Plasmodium falciparum, comparative genome analysis reveals that two canonical actins and three orthologues of ARPs including PfArp1, PfArp4, and PfArp6 are encoded in the genome of this parasite. more...

Organism:

Plasmodium falciparum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL26835

4 Samples

Download data: BW

(Submitter supplied) Chromatin structure is a basal epigenetic mechanism that determines cellular fate by organizing the dynamic gene expression during the cell development and proliferation. The nuclear members of the evolutionarily conserved actin-related protein (ARPs) superfamily are major components of nucleosome remodelingcomplexes in the nucleus. In the human malaria parasites, Plasmodium falciparum, comparative genome analysis reveals that two canonical actins and three orthologues of ARPs including PfArp1, PfArp4, and PfArp6 are encoded in the genome of this parasite. more...

Organism:

Plasmodium falciparum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL26835

4 Samples

Download data: BW

(Submitter supplied) Chromatin structure is a basal epigenetic mechanism that determines cellular fate by organizing the dynamic gene expression during the cell development and proliferation. The nuclear members of the evolutionarily conserved actin-related protein (ARPs) superfamily are major components of nucleosome remodeling complexes in the nucleus. In the human malaria parasites, Plasmodium falciparum, comparative genome analysis reveals that two canonical actins and three orthologues of ARPs including PfArp1, PfArp4, and PfArp6 are encoded in the genome of this parasite. more...

Organism:

Plasmodium falciparum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL26835

10 Samples

Download data: BW

(Submitter supplied) Mutations in PfCRT confer chloroquine (CQ) resistance in P. falciparum. Point mutations in the homolog of the mammalian multidrug resistance gene (pfmdr1) can also modulate the levels of CQ response. However, parasites with the same pfcrt and pfmdr1 alleles exhibit a wide range of drug sensitivity, suggesting that additional genes contribute to levels of CQ resistance (CQR). We used 3 isogenic lines which have different drug resistance profiles corresponding to unique mutations in the pfcrt gene (106/1K76, 106/176I, and 106/76I-352K) to study changes in gene expression with and without CQ and genomic variations, i.e. more...

Organism:

Plasmodium falciparum; Anopheles gambiae

Type:

Expression profiling by array; Genome variation profiling by array

Dataset:

GDS3284

Platform:

GPL1321

24 Samples

Download data: CEL

Analysis of Plasmodium falciparum chloroquine-resistant transporter (PfCRT) mutants exposed to a low dose of chloroquine (CQ) for 3 h. The clones have different degrees of CQ resistance (CQR). Results provide insight into the molecular basis of the PfCRT effect on parasite susceptibility to CQ.

Organism:

Plasmodium falciparum; Anopheles gambiae

Type:

Expression profiling by array, transformed count, 2 agent, 3 genotype/variation sets

Platform:

GPL1321

Series:

GSE10022

18 Samples

Download data: CEL

(Submitter supplied) P. falciparum H4K8ac ChIP-seq

Organism:

Plasmodium falciparum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL16607 GPL19269

8 Samples

Download data: TXT

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

Organism:

Plasmodium falciparum

Type:

Expression profiling by array; Genome variation profiling by array

Platforms:

GPL11250 GPL11248

135 Samples

Download data: GPR

(Submitter supplied) Study of chromatin changes of P. falciparum in response to changes in the levels of histone H4 acetylations especially H4K8ac using chromatin immunoprecipitation coupled to microarray chip (ChIP-on-chip)

Organism:

Plasmodium falciparum

Type:

Genome variation profiling by array

Platform:

GPL11250

39 Samples

Download data: GPR, TXT

(Submitter supplied) Transcriptional analaysis of P. falciparum in response to changes in the levels of histone H4 acetylations especially H4K8ac

Organism:

Plasmodium falciparum

Type:

Expression profiling by array

Platform:

GPL11248

96 Samples

Download data: GPR, TXT