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Items: 1 to 20 of 14867

1.

PfMORC modulates gene expression through interactions with heterochromatin in Plasmodium falciparum

(Submitter supplied) Dynamic control of gene expression is critical for blood stage development of malaria parasites. Here, we used multi-omic analyses to investigate transcriptional regulation by the chromatin-associated microrchidia protein, PfMORC, during asexual blood stage development of the human malaria parasite Plasmodium falciparum. PfMORC (PF3D7_1468100) interacts with a suite of nuclear proteins, including APETALA2 (AP2) transcription factors (PfAP2-G5, PfAP2-O5, PfAP2-I, PfAP2-MRP and PF3D7_0420300, PF3D7_0613800, and PF3D7_1239200), a DNA helicase DS60 (PF3D7_1227100), and other chromatin remodelers (PfCHD1, PfEELM2, and PfISWI). more...
Organism:
Plasmodium falciparum 3D7
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL33627
8 Samples
Download data: BED, BIGWIG
Series
Accession:
GSE239393
ID:
200239393

PubMed Full text in PMC Similar studies

2.

Snf2L drives Plasmodium just-in-time gene expression and gametocytogenesis

(Submitter supplied) The complex life cycle of the malaria parasite Plasmodium falciparum (Pf) involves the differentiation into multiple distinct forms, requiring a tight and dynamic control of gene expression at each stage. However, the full range of variation cannot solely be explained by stage-specific transcription factors, such as ApiAP2-family members, as they are strongly under-represented in Pf. Huge changes in chromatin structure and epigenetic modifications during life cycle progression suggest a central role of these mechanisms in regulating the transcriptional program for parasite development. more...
Organism:
Plasmodium falciparum
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL32020
24 Samples
Download data: BIGWIG
Series
Accession:
GSE237217
ID:
200237217

3.

PfSnf2L - an epigenetic regulator of just-in-time expression and gametocyte formation

(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:
GPL32020
115 Samples
Download data
Series
Accession:
GSE228949
ID:
200228949

4.

PfSnf2L - an epigenetic regulator of just-in-time expression and gametocyte formation [RNA-seq]

(Submitter supplied) The complex life cycle of the malaria parasite Plasmodium falciparum (Pf) and the accompanying transcriptional variation is only explained in part by stage-specific transcription factors like the ApiAP2 family, as these factors are strongly under-represented in Pf. Global and local changes in chromatin structure during life cycle progression suggest the contribution of epigenetic mechanisms as a critical mechanism for fine-tuning gene regulation during malaria parasite development. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL32020
105 Samples
Download data: TSV
Series
Accession:
GSE228948
ID:
200228948

5.

PfSnf2L - an epigenetic regulator of just-in-time expression and gametocyte formation [MNase-Seq]

(Submitter supplied) The complex life cycle of the malaria parasite Plasmodium falciparum (Pf) and the accompanying transcriptional variation is only explained in part by stage-specific transcription factors like the ApiAP2 family, as these factors are strongly under-represented in Pf. Global and local changes in chromatin structure during life cycle progression suggest the contribution of epigenetic mechanisms as a critical mechanism for fine-tuning gene regulation during malaria parasite development. more...
Organism:
Plasmodium falciparum
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL32020
10 Samples
Download data: BW, TSV
Series
Accession:
GSE228947
ID:
200228947

6.

Investigating metabolism of artemisinin-resistant falciparum malaria parasites: mitochondrial rather than apicoplast pathways are key targets?

(Submitter supplied) In the context of artemisinin resistance, the objective of the project was to evaluate the role of apicoplast and mitochondrion pathways during the parasite quiescent state induced by dihydroartemisinin (DHA) treatment. We performed gene expression profiling analysis using data obtained from RNA-seq of artemisinin-resistant parasites in two conditions: DHA treatment or DMSO treatment (as control condition) at the ring stage (obtained by D-sorbitol synchronization).
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26836
6 Samples
Download data: XLSX
Series
Accession:
GSE207610
ID:
200207610

PubMed Full text in PMC Similar studies

7.

tRNA regulation and amino acid usage bias reflect a coordinated metabolic adaptation in Plasmodium falciparum [RNA-Seq III]

(Submitter supplied) An adaptive feature of malaria-causing parasites is the digestion of host hemoglobin (HB) to acquire amino acids (AAs). Here we describe a link between nutrient availability and translation dependent regulation of gene expression as an adaptive strategy. We show that tRNA expression in Plasmodium falciparum does not match the decoding need expected for optimal translation. A subset of tRNAs decoding AAs that are insufficiently provided by HB are lowly expressed, wherein the abundance of a protein-coding transcript is negatively correlated with the decoding requirement of these tRNAs. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21298
28 Samples
Download data: TABULAR
Series
Accession:
GSE278976
ID:
200278976

8.

Changes in heterochromatin distribution during the initial stages of sexual development in Plasmodium falciparum

(Submitter supplied) In the malaria parasite Plasmodium falciparum, changes in the distribution of heterochromatin at specific loci regulate the expression of clonally variant genes (CVGs), which play fundamental roles in host-parasite interactions. In addition to differences in heterochromatin between individual parasites associated with variant expression of CVGs, changes in heterochromatin distribution associated with different developmental stages have been described. more...
Organism:
Plasmodium falciparum
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL26920
20 Samples
Download data: BW, NARROWPEAK
Series
Accession:
GSE252334
ID:
200252334

PubMed Full text in PMC Similar studies

9.

PfNSUN1 protein programs gene expression regulation in Plasmodium falciparum [RIP-seq]

(Submitter supplied) C5 methylation of cytosines is a common RNA modification in eukaryotes, and the NSUN family are essential m5C modification executors. Currently, little is known about this family in Plasmodium spp. Thus, we constructed the pfnsun1 knockdown strain, and the knockdown efficiency was confirmed by growth curves and western blot experiments. The knockdown transcriptome data was acquired to find differentially expressed genes, and target genes of PfNSUN1 protein were identified by RNA immunoprecipitation and high-throughput sequencing experiments. more...
Organism:
Plasmodium falciparum
Type:
Other
Platform:
GPL26836
2 Samples
Download data: BW
Series
Accession:
GSE254643
ID:
200254643

10.

PfNSUN1 protein programs gene expression regulation in Plasmodium falciparum [RNA-seq]

(Submitter supplied) C5 methylation of cytosines is a common RNA modification in eukaryotes, and the NSUN family are essential m5C modification executors. Currently, little is known about this family in Plasmodium spp. Thus, we constructed the pfnsun1 knockdown strain, and the knockdown efficiency was confirmed by growth curves and western blot experiments. The knockdown transcriptome data was acquired to find differentially expressed genes, and target genes of PfNSUN1 protein were identified by RNA immunoprecipitation and high-throughput sequencing experiments. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26836
12 Samples
Download data: TXT
Series
Accession:
GSE254642
ID:
200254642

11.

Total RNA sequencing of Plasmodium falciparum field parasites 2018-2020 collected from Cambodia and Vietnam

(Submitter supplied) The objective of this study is to characterize the gene expression signatures associated with in vivo artemisinin resistance phenotype and its transcriptional response to Artemisinin Combination Therapy (ACT) or Triple artemisinin combination therapy (TACT). Using stranded RNA-seq protocol expression profiles of Plasmodb annotated transcripts along with anti-sense, alternatively spliced and non-coding isoforms expressed in clinical isolates were generated for 310 pre-treated, 300 post-treated and 24 timepoints from the intra-erythrocyte development cycle.
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26836
641 Samples
Download data: CSV, GTF
Series
Accession:
GSE242548
ID:
200242548

12.

A system for functional studies of the major virulence factor of malaria parasites [WGS]

(Submitter supplied) PfEMP1 is a variable antigen displayed on red blood cells (RBCs) infected with the malaria parasite Plasmodium falciparum. PfEMP1 mediates binding of the infected cell to the endothelium of blood vessels, a major cause of severe manifestations of malaria. Each parasite encodes ∼60 different PfEMP1 variants of which only one is expressed at a time and switching between variants underlies immune evasion in the host and variant-specific severity of disease. more...
Organism:
Plasmodium falciparum
Type:
Other
Platform:
GPL33701
3 Samples
Download data: XLSX
Series
Accession:
GSE275671
ID:
200275671

13.

The P. falciparum orthologue of Male Development Protein 3 is a Male-associated regulator of translation initiation or enhancement [CLIP-Seq]

(Submitter supplied) Sex determination and development of Plasmodium gametocytes is critical to the transmission of malaria parasites and involves a complex interplay of multiple molecular factors. Here, we characterized the P. falciparum gene syntenic to P. berghei MD3- pf3d7_0315600. This protein contains a non-classical CCCH zinc-finger domain and Lysine-Proline rich domain associated with ribosome receptors, suggesting a role in mRNA regulation. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19269
24 Samples
Download data: BIGWIG
Series
Accession:
GSE267362
ID:
200267362

14.

The P. falciparum orthologue of Male Development Protein 3 is a Male-associated regulator of translation initiation or enhancement [RNA-Seq]

(Submitter supplied) Sex determination and development of Plasmodium gametocytes is critical to the transmission of malaria parasites and involves a complex interplay of multiple molecular factors. Here, we characterized the P. falciparum gene syntenic to P. berghei MD3- pf3d7_0315600. This protein contains a non-classical CCCH zinc-finger domain and Lysine-Proline rich domain associated with ribosome receptors, suggesting a role in mRNA regulation. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26836
12 Samples
Download data: TABULAR
Series
Accession:
GSE267361
ID:
200267361

15.

DNA sequence context and the chromatin landscape differentiate sequence-specific transcription factor binding in the human malaria parasite, Plasmodium falciparum

(Submitter supplied) Global transcription of the malaria parasite, Plasmodium falciparum, is finely regulated, yet the genome encodes for a limited number of sequence-specific transcription factors (TFs) to coordinate this pattern. A subset of these TFs bind overlapping DNA motifs (i.e., CACACA and GTGCAC); however, mechanisms of binding site selection and redundancy have not yet been investigated in P. falciparum. Therefore, we integrated a variety of approaches from new and published work such as high-throughput in vitro and in vivo binding assays, DNA shape predictions, epigenetic post translational modification mapping, and genome-wide chromatin accessibility mapping to comprehensively interrogate the impact of DNA sequence context and the chromatin landscape on TF binding in P. more...
Organism:
Plasmodium falciparum
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL32020 GPL21078
8 Samples
Download data: BED, BIGWIG
Series
Accession:
GSE212052
ID:
200212052

PubMed Full text in PMC Similar studies

16.

Transcriptomic profiling of dormancy developmental cycle in DHA-treated P. falciparum

(Submitter supplied) Transcriptome of DHA-treated Plasmodium falciparum 3D7 parasite strain was generated by collecting RNA samples from 500 sorted cells from Day 1 till Day 12 after the drug treatment
Organism:
Plasmodium falciparum 3D7
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29863
41 Samples
Download data: TXT
Series
Accession:
GSE225340
ID:
200225340

PubMed Full text in PMC Similar studies

17.

CUT&Tag and BioCUT&Tag enables investigation of the AT-rich and dynamic epigenome of Plasmodium falciparum from low input samples

(Submitter supplied) This study aimed to adapt CUT&Tag to Plasmodium falciparum samples as an efficient and sensitive alternative to classical ChIP-sequencing. We compare H3K9me3 and HP1 CUT&Tag with ChIP-seq datasets, showing successful establishment of CUT&Tag in P. falciparum. Next we aimed to scale down required input material for our CUT&Tag reactions and generated high-quality HP1 tracks with as little as 10.000 nuclei. more...
Organism:
Plasmodium falciparum
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL32020
18 Samples
Download data: BEDGRAPH
Series
Accession:
GSE270104
ID:
200270104

18.

The Plasmodium falciparum histone methyltransferase PfSET10 is dispensable for the regulation of antigenic variation and gene expression in blood stage parasites

(Submitter supplied) The malaria parasite Plasmodium falciparum employs antigenic variation of the virulence factor P. falciparum erythrocyte membrane protein 1 (PfEMP1) to escape adaptive immune responses during blood infection. Antigenic variation of PfEMP1 occurs through transcriptional switches in the mutually exclusive expression of individual members of the multi-copy var gene family. var genes are located in perinuclear clusters of transcriptionally inactive heterochromatin. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26836
45 Samples
Download data: TXT
Series
Accession:
GSE270631
ID:
200270631

19.

A system for functional studies of the major virulence factor of malaria parasites

(Submitter supplied) The major virulence factor of Plasmodium falciparum parasites, PfEMP1 is expressed by a multigene family, termed var genes. Here selection linked integration (SLI) was utilized to modify var genes in P. falciparum parasites to select for parasite populations expressing a single var gene. Bulk RNA was isolated from ring stage parasites of these SLI parasite populations and analyzed with next generation sequencing. more...
Organism:
Plasmodium falciparum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26920
24 Samples
Download data: XLSX
Series
Accession:
GSE267413
ID:
200267413

20.

Double-kill mechanism of artemisinin against Plasmodium

(Submitter supplied) The mechanism by which artemisinin and its derivatives (ARTs) kill malaria parasites remains unclear. Haem or iron activates ARTs to produce free radicals that kill malaria parasites. However, adding iron or haem supply did not enhance, but instead attenuated, the antimalarial effect of ARTs, suggesting that the free-radical effect (FRE) is not the only antimalarial mechanism of ARTs. Here, through the single-cell RNA sequencing analysis of Plasmodium yoelii 17XNL and P. more...
Organism:
Plasmodium falciparum; Plasmodium yoelii
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL26836 GPL29225
14 Samples
Download data: TAR
Series
Accession:
GSE234872
ID:
200234872

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