Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Nuclear Phylogenetics of Funariaceae using Target Capture

PROVIDER: PRJNA674709 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13008821_1.fastq.gz	Fastqsanger.gz
	SRR13008821_2.fastq.gz	Fastqsanger.gz
	SRR13008822_1.fastq.gz	Fastqsanger.gz
	SRR13008822_2.fastq.gz	Fastqsanger.gz
	SRR13008823_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 140

Similar Datasets

Targeted high-resolution chromosome conformation capture at genome-wide scale in mouse erythroid cells

Project description:Chromosome conformation capture (3C) provides an adaptable tool through which to study diverse biological questions. Currently, 3C techniques provide either low-resolution interaction profiles across the entire genome, e.g. HiC, or high-resolution interaction profiles at up to several hundred loci, e.g. NG Capture-C and 4C-seq. Generation of high-resolution, genome-wide interaction profiles can feasibly be achieved through efficiency improvements to current high-resolution methods. To this end we systematically tested and removed areas inefficiency in NG Capture-C to develop a new method Nuclear Capture-C, which provides a 300% increase in informative sequencing content. Using Nuclear Capture-C we target 8,026 erythroid promoters in triplicate, showing that this method can achieve high-resolution genome-wide 3C interaction profiles at scale.

2020-10-28 | GSE160229 | GEO

Project description:A large-scale nuclear gene sequencing for beetle phylogenetics

| PRJNA419242 | ENA

Project description:Phylogenomics of Gesneriaceae using targeted capture of nuclear genes

| PRJNA684442 | ENA

Chaetopteridae

Project description:Targeted exon-capture of Chaetopteridae (Annelida) for phylogenetics.

| PRJNA548157 | ENA

Cancer phylogenetics using single-cell RNA-seq data

Project description:Cancer phylogenetics using single-cell RNA-seq data

| PRJNA685196 | ENA

Project description:Resolving hybrids in Nepenthes using target capture sequencing and HybPhaser

| PRJNA706038 | ENA

NG Capture-C analysis of GADD45a-bound adipogenic super-enhancers

Project description:ING1b and GADD45a are nuclear proteins involved in the regulation of cell growth, apoptosis and DNA repair. We previously found that ING1b is essential to target GADD45a-mediated active DNA-demethylation via TET1 to specific loci. In order to study the physical interaction of distant GADD45a and ING1 bound regions, we performed multiplexed NG Capture-C chromatin conformation capture assay in wildtype and knockout mouse embryonic fibroblasts.

2018-06-11 | GSE99606 | GEO

Project description:Target capture sequencing

| PRJNA713961 | ENA

Machine learning sequence prioritization for cell type-specific enhancer design

Project description:Recent discoveries of extreme cellular diversity in the brain warrant rapid development of technologies to access specific cell populations, enabling characterization of their roles in behavior and in disease states. Available approaches for engineering targeted technologies for new neuron subtypes are low-yield, involving intensive transgenic strain or virus screening. Here, we introduce SNAIL (Specific Nuclear-Anchored Independent Labeling), a new virus-based strategy for cell labeling and nuclear isolation from heterogeneous tissue. SNAIL works by leveraging machine learning and other computational approaches to identify DNA sequence features that confer cell type-specific gene activation and using them to make a probe that drives an affinity purification-compatible reporter gene. As a proof of concept, we designed and validated two novel SNAIL probes that target parvalbumin-expressing (PV) neurons. Furthermore, we show that nuclear isolation using SNAIL in wild type mice is sufficient to capture characteristic open chromatin features of PV neurons in the cortex, striatum, and external globus pallidus. Expansion of this technology has broad applications in cell type-specific observation, manipulation, and therapeutics across species and disease models.

2021-06-01 | GSE171549 | GEO

NepenthesPhylogenomics

Project description:Target-capture based phylogenomics of Nepenthes using Angiosperm-353 bait kit

| PRJEB35235 | ENA