Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: DNA Affinity Purification sequencing (DAP-seq) analysis of citrus transcription factors

PROVIDER: PRJNA776036 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR16620515_1.fastq.gz	Fastqsanger.gz
	SRR16620515_2.fastq.gz	Fastqsanger.gz
	SRR16620516_1.fastq.gz	Fastqsanger.gz
	SRR16620516_2.fastq.gz	Fastqsanger.gz
	SRR16620517_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Eucalyptus grandis cultivar:TAG0014

Project description:DNA Affinity Purification sequencing (DAP-seq) analysis of Eucalyptus grandis transcription factors

| PRJNA505767 | ENA

Deciphering the regulatory network of the NAC transcription factor FvRIF, a master regulator in controlling strawberry fruit ripening [DAP-seq]

Project description:To better understand FvRIF-mediated transcriptional regulation of fruit ripening, we performed DNA affinity purification sequencing (DAP-seq) to unravel FvRIF binding sites at the genome level. For DAP-seq analysis, the recombinant FvRIF fusion protein was used to purify the sheared genomic DNA of strawberry fruits. Two independent biological replicates of DAP-seq and DNA ‘input’ negative control libraries were prepared and submitted for deep sequencing.

2023-11-08 | GSE220785 | GEO

DNA affinity purification sequencing (DAP-seq) data of LEAFY (LFY)

Project description:In this study, we use DNA affinity purification sequencing to identiy genome-wide binding of LFY transcription factor, a master regulator of flower development in Arabidopsis. We generated two sets of data, one using genomic DNA from plant tissue, thus retain DNA methylation, as probe for DNA affinity purification (DAP-seq dataset), and the other using PCR amplified genomic DNA (without DNA methylation; AmpDAP-seq dataset).

2021-03-25 | GSE160013 | GEO

DAP-seq reveals FvSEP3 directly targets downstream genes relevant to strawberry fruit ripening

Project description:To better understand FvSEP3-mediated transcriptional regulation of fruit ripening, we performed DNA affinity purification sequencing (DAP-seq) to uncover FvSEP3 directly binding sites at the genome level. For DAP-seq analysis, the recombinant FvSEP3 fusion protein was used to purify the sheared genomic DNA of strawberry fruits. Two independent biological replicates of DAP-seq and DNA 'input' negative control libraries were prepared and submitted for deep sequencing.

2024-11-05 | GSE260824 | GEO

Identifying transcription factor-DNA interactions using machine learning

Project description:We focused on building models that incorporated transcription factor (TF)-DNA interaction data for 12 members of the Auxin Response Factor (ARF) family from soybean as assessed by DNA Affinity Purification and sequencing (DAP-seq).

2023-06-01 | GSE193400 | GEO

The DNA affinity purification DAP-Seq assay [ChIP-seq]

Project description:As 5-15% of higher eukaryotes genes are transcription factors (TFs), the lack of transcription factor binding site (TFBS) information for most factors in most organisms limits the study of gene regulation. Here we describe a next-generation sequencing method, DNA affinity purification (DAP-Seq), an in vitro gDNA/TF interaction assay that produces whole-genome TFBS annotation for any factor from any organism. Like ChIP-Seq, DAP-Seq resolves TFBS as discrete peaks at genomic locations which allows for accurate motif prediction direct assignment of functionally relevant target genes, and shows better overlap with ChIP-Seq peaks than indirect motif assignment approaches. We applied DAP-Seq to a set of 50 transcription factors in eight Arabidopsis thaliana and one Zea Mays families to gain novel biological insight into TFBS architectures, functions, evolution and methylation-sensitivity. Overall, DAP-Seq offers a low-cost high-throughput approach to identify TFBS in native sequence context for any organism complete with all DNA chemical modifications.

2016-05-25 | GSE60142 | GEO

sequential DNA affinity purification sequencing (seq-DAP-seq) data of SEP3-AGAPI

Project description:In this study, we applied sequential DNA affinity purification sequencing (seq-DAP-seq) to identiy genome-wide binding of a heterocomplex formed by two transcription factors of the MADS familly SEP3 and AG(AP1-I) (AG with its I domain switched with that of AP1). We compared the genome wide binding of SEP3-AG(AP1-I) to that of our previously published SEP3-AG data

2021-07-08 | GSE166205 | GEO

Lotus japonicus strain:Miyakojima MG-20

Project description:DNA affinity purification sequencing (DAP-seq) analysis of NRSYM1 transcription factor in Lotus japonicus

| PRJDB10458 | ENA

Project description:DNA Affinity Purification (DAP) Sequencing Method Development

| PRJNA758434 | ENA

Arabidopsis thaliana

Project description:The DNA affinity purification DAP-Seq assay [ChIP-seq]

| PRJNA257558 | ENA