Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

CUT&Tag sequencing analyses target genes directly bound by transcription factors

ABSTRACT: CUT&Tag sequencing analyses target genes directly bound by transcription factors

PROVIDER: PRJNA1093037 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28490622_1.fastq.gz	Fastqsanger.gz
	SRR28490622_2.fastq.gz	Fastqsanger.gz
	SRR28490623_1.fastq.gz	Fastqsanger.gz
	SRR28490623_2.fastq.gz	Fastqsanger.gz
	SRR28490624_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

CUT&Tag sequencing analyses target genes directly bound by transcription factors

Project description:TF occupancy within or near a gene promoter or enhancer region is often assumed to be sufficient evidence for the gene to be classified as a direct TF target. We identified the TF ATF3 and ONECUT2 occupancy sites and direct target candidate genes using the CUT&Tag in hepatocyte organoids.

2025-04-08 | GSE262703 | GEO

CUT&Tag analysis uncovered Pou4f1-bound DNA elements in E16.5 retinas

Project description:CUT&Tag analysis uncovered Pou4f1-bound DNA elements in E16.5 retinas

| PRJNA913195 | ENA

HCT116_SMARCA4 CUT&Tag

Project description:HCT116_SMARCA4 CUT&Tag

| PRJNA875063 | ENA

CUT&TAG of OE19 cell line

Project description:To map the chromatin binding sites for SMC1 in OE19 cells, we performed CUT&TAG.

2024-09-25 | E-MTAB-14090 | biostudies-arrayexpress

CUT&TAG of OE19 cell line

Project description:To map the chromatin binding sites for various factors in OE19 cells, we performed CUT&TAG.

2023-02-24 | E-MTAB-11356 | biostudies-arrayexpress

Low-cost high-resolution chromatin profiling with CUT&Tag

Project description:We recently introduced CUT&Tag, an epigenomic profiling strategy in which antibodies are bound to chromatin proteins in situ in permeabilized nuclei, and then used to tether the cut-and-paste transposase Tn5. Activation of the transposase simultaneously cleaves DNA and adds DNA sequencing adapters (“tagmentation”) for paired-end DNA sequencing. Here, we introduce a streamlined CUT&Tag protocol that suppresses exposure artifacts to ensure high-fidelity mapping of the antibody-targeted protein and improves signal-to-noise over current chromatin profiling methods. Streamlined CUT&Tag can be performed in a single PCR tube from cells to amplified libraries, providing low-cost high-resolution genome-wide chromatin maps. By simplifying library preparation, CUT&Tag requires less than a day at the bench from live cells to sequencing-ready barcoded libraries. Because of low background levels, barcoded and pooled CUT&Tag libraries can be sequenced for ~$25 per sample, enabling routine genome-wide profiling of chromatin proteins and modifications that requires no special skills or equipment.

2020-07-15 | GSE145187 | GEO

CUT&Tag analysis of H3K9la in Cal27 and HN30 cells

Project description:To identify the genes directly regulated by H3K9la on a genome-wide scale, we performed CUT&Tag assays using a H3K9la specific antibody in CAL27 and HN30 with or without the lactic acid treatment, and performed CUT&Tag assays using a H3K9la specific antibody in HN30 under hypoxia condition.

2024-08-09 | GSE273524 | GEO

HIF2A(EPAS1) Genome-Wide Localization in MRC5 Human Fibroblasts by Cut & Tag

Project description:HIF2A(EPAS1) geenome_wide localization by Cut & Tag in MRC5 human fibroblasts ectopically expressing HIF2A in the pBabe vector, and in control MRC5 human fibroblasts containing only the pBabe vector. 2 biological replicates were done for the MRC5-HIF2A cells. Cut & Tag with an anti-H3-K27me3 Ab was done as a positive control for the Cut & Tag experiments.

2025-01-17 | E-MTAB-13732 | biostudies-arrayexpress

Cut&Tag data analysis of TgSNF2L on the whole genome of Toxoplasma gondii tachyzoites [SNF2L Cut&Tag]

Project description:Transcriptomic analyses revealed the gene expression changes after SNF2L depletion. To see which of these differentially expressed genes are directly targeted by SNF2L, we used Cut&tag to assess the binding positions of SNF2L in the parasite’s genome.

2025-05-23 | GSE293095 | GEO

Bulk Cut&run and Cut&tag

Project description:Bulk Cut&run and Cut&tag

| PRJNA686390 | ENA