Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The master transcription factor of the Plasmodium merozoite formation. [DIP-seq]

ABSTRACT: To investigate the DNA-binding property of two tandem AP2 domains of PbSIP2, DNA immunoprecipitation followed by high-throughput sequencing (DIP-seq) analysis were performed. Recombinant AP2 domains fused with maltose-binding protein (MBP) were mixed with the P. berghei genomic DNA fragmented via sonication, and protein-DNA complex was harvested using amylose resin. The obtained DNA fragments were sequenced via the next generation sequencing.

ORGANISM(S): Plasmodium berghei

PROVIDER: GSE266869 | GEO | 2024/11/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Homeodomain-like domain of Plasmodium berghei HDP1 binds to TGCACA motif.

Project description:To investigate the DNA-binding property of homeodomain-like domain of Plasmodium berghei HDP1, DNA immunoprecipitation followed by high-throughput sequencing (DIP-seq) analysis were performed. Recombinant homeodomain-like domain fused with glutathione S-transferase were mixed with the P. berghei genomic DNA fragmented via sonication, and protein-DNA complex was harvested using glutathione-sepharose resin. The obtained DNA fragments were sequenced via the next generation sequencing.

2024-02-25 | GSE256093 | GEO

DIP-chip: Rapid and accurate determination of DNA-binding specificity

Project description:Validation of DNA ImmunoPrecipitation with microarray analysis (DIP-chip) technique using the Leu3 DNA binding domain. Keywords: DIP-chip, Leu3

2006-10-13 | GSE6016 | GEO

Mechanisms of Triggering Malaria Gametocytogenesis by AP2-G [DIP-seq]

Project description:Mechanisms of Triggering Malaria Gametocytogenesis by AP2-G [DIP-seq]

| PRJNA667473 | ENA

Single-cell chromatin conformation capture of diploid cells by Dip-C (analyzed with the dip-c package)

Project description:To reconstruct the 3D genomes of single diploid human and mouse cells, we performed single-cell chromatin conformation capture by a novel method, Dip-C, on human cells, and re-analyzed published data on mouse cells by the Dip-C algorithm.

2018-08-15 | GSE117109 | GEO

The master transcription factor of the Plasmodium merozoite formation. [DIP-seq]

Project description:The master transcription factor of the Plasmodium merozoite formation. [DIP-seq]

| PRJNA1108633 | ENA

Gene expression profiling in Dip G-treated HL-60 cells

Project description:To understand the function of the small molecule Dip G, the gene expression profiles of HL-60 cells treated with Dip G were analyzed using the microarray.

2017-07-31 | GSE84652 | GEO

Investigation of Drosophila fruitless neurons that express Dpr/DIP cell adhesion molecules

Project description:Drosophila reproductive behaviors are directed by fruitless neurons. A reanalysis of genomic studies shows that genes encoding dpr and DIP Immunoglobulin superfamily (IgSF) members are expressed in fru P1 neurons. We find that each fru P1 and dpr/DIP (fru P1 ∩ dpr/DIP) overlapping expression pattern is similar in both sexes, but there are dimorphisms in neuronal morphology and cell number. Behavioral studies of fru P1 ∩ dpr/DIP perturbation genotypes indicates that the mushroom body functions together with the lateral protocerebral complex to direct courtship behavior. A single-cell RNA-seq analysis of fru P1 neurons shows that many DIPs have high expression in a small set of neurons, whereas the dprs are often expressed in a larger set of neurons at intermediate levels, with a myriad of dpr/DIP expression combinations. Functionally, we find that perturbations of sex hierarchy genes and of DIP-ε change the sex-specific morphologies of fru P1 ∩ DIP-α neurons.

2021-02-23 | GSE162098 | GEO

Identification of RNAs that co-purify with the Caulobacter sRNA, GsrN

Project description:Purpose: To identify RNAs that interact with GsrN, a small regulatory RNA from Caulobacter crescentus. Methods: Pseudomonas phage 7 (PP7) viral coat protein fused to maltose binding protein (MBP) was immobilized on amylose resin. PP7 coat protein binds to PP7 RNA hairpins (PP7hp). A strain expressing GsrN tagged with a genetically encoded PP7hp at base 37 (GsrN(37)-PP7hp) was captured on this column, washed, and eluted in biological triplicate (pos_rep). As a negative control, we incubated the PP7 coat protein column with independent duplicate lysates from a Caulobacter strain expressing PP7hp fused to a non-functional 3' isoform of GsrN (mock). We generated RNA-seq libraries for each of three independent GsrN(37)-PP7hp fractions, and the duplicate mock fractions. Results: We quantified levels of RNAs in the GsrN(37)-PP7hp (pos) fractions with fractions from parallel PP7hp-3'GsrN(mock) pull-downs by RNA-seq. From these data, we identified a group of RNAs that were enriched in the GsrN(37)-PP7hp fraction.

2017-10-26 | GSE106171 | GEO

Staphylococcus aureus strain:DIP

Project description:Genome assembly of Staphylococcus aureus strain DIP

| PRJNA1023256 | ENA

Identification of m6dA in genomic DNA and transcriptional patterns in human genomes by DIP-Seq and RNAseq

Project description:We identify m6dA in human genomic DNA by DNA immunoprecipitation and subsequent Hi-Throughput Illumina sequencing (DIP-Seq). We use a dA6m specific antibody for DNA pulldown, and input as control. In addition, we performed RNA High Throughput Illumina Sequencing on biologically matched samples. This data supplements our analysis of already published data.

2019-04-03 | GSE123065 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data