Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Profiling lncRNAs in the regulatory elements of target genes by chromatin in situ reverse transcription trap sequencing

ABSTRACT: Profiling lncRNAs in the regulatory elements of target genes by chromatin in situ reverse transcription trap sequencing

PROVIDER: PRJNA421974 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7502530.fastq.gz	Fastqsanger.gz
	SRR7502531_1.fastq.gz	Fastqsanger.gz
	SRR7502531_2.fastq.gz	Fastqsanger.gz
	SRR7502532_1.fastq.gz	Fastqsanger.gz
	SRR7502532_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Profiling lncRNAs in the regulatory elements of target genes by chromatin in situ reverse transcription trap sequencing

Project description:“chromatin-RNA in situ reverse transcription trap sequencing” (CRIST-Seq) approach was used to profile the RNA interaction network in the promoters of stem cell core factors Sox2 and Oct4

2019-06-30 | GSE107945 | GEO

Profiling the lncRNA interqaction network in the Oct4 promoter of fibroblasts in reprogramming by chromatin in situ reverse transcription trap sequencing

Project description:“chromatin-lncRNA in situ reverse transcription trap sequencing” (CRIST-Seq) approach was used to profile the lncRNA interactome in the promoter of stem cell core factors Oct4

2019-09-21 | GSE137769 | GEO

Profiling the lncRNA interqaction network in the Oct4 promoter of fibroblasts in reprogramming by chromatin in situ reverse transcription trap sequencing

Project description:Profiling the lncRNA interqaction network in the Oct4 promoter of fibroblasts in reprogramming by chromatin in situ reverse transcription trap sequencing

| PRJNA572586 | ENA

Repeat elements activating lncRNAs drives zygotic genome activation

Project description:Repeat elements activating lncRNAs drives zygotic genome activation

| PRJNA880794 | ENA

Profiling of RNA-binding protein binding sites by in-situ reverse transcription-based sequencing

Project description:RNA-binding proteins (RBPs) regulate diverse cellular processes by dynamically interacting with RNA targets. However, effective methods to capture both stable and transient interactions between RBPs and their RNA substrates are still lacking, especially when the interaction is dynamic or materials are limited. Here we present an assay of reverse transcription-based RBP binding sites sequencing (ARTR-seq), which relies on in-situ reverse transcription of RBP-bound RNAs guided by antibodies to identify RBP binding sites. ARTR-seq avoids ultraviolet cross-linking and immunoprecipitation, allowing for efficient and specific identification of RBP binding sites from as few as 20 cells or a tissue section. Taking advantage of rapid formaldehyde fixation, ARTR-seq enables capturing the dynamic binding of RBPs over a short period of time, as demonstrated by the discovery of dynamic RNA binding of G3BP1 during stress granule assembly on a timescale as short as 10 min.

2023-11-05 | GSE226161 | GEO

Prenociceptin TRAP

Project description:Prenociceptin TRAP

| PRJNA428727 | ENA

Profiling of RNA-binding protein binding sites by in-situ reverse transcription-based sequencing

Project description:Profiling of RNA-binding protein binding sites by in-situ reverse transcription-based sequencing

| PRJNA939112 | ENA

VEGF Trap in Treating Patients With Previously Treated Metastatic Colorectal Cancer

Project description:This phase II trial is studying how well VEGF Trap works in treating patients with previously treated metastatic colorectal cancer. VEGF Trap may stop the growth of colorectal cancer by blocking blood flow to the tumor.

| 2035047 | ecrin-mdr-crc

Combined RNA-seq and RAT-seq mapping of long noncoding RNAs in pluripotent reprogramming

Project description:RNA transcriptome sequencing (RNA-Seq) and RNA reverse transcription-associated trap sequencing (RAT-Seq) were usded to map long noncoding RNA (lncRNAs) in reprogramming of fibroblasts into pluripotency

2018-09-10 | GSE116605 | GEO

Identification of regulators of exit from naïve pluripotent state by enhancer trap integration site mapping

Project description:To identify regulators of exit from the naïve pluripotent state we performed an enhancer trap screen under sensitized conditions. Briefly, haploid mouse ESCs with a Puromycin resistance gene under the control of Oct4 regulatory elements were mutagenized using viruses harboring enhancer trap constructs and subjected to differentiation in the presence of 3uM CHIR with concomitant selection for Oct4 expression. Selected cells were harvested after 16, 20, and 23 days and the extracted genomic DNA, together with genomic DNA of cells taken before selection, subjected to inverse PCR and sequencing. This allowed for mapping of enhancer trap integration sites and identifying genes whose targeting is enriched during selection.

2021-07-07 | E-MTAB-9796 | biostudies-arrayexpress

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