Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

INTACT vs. FANS for cell-type-specific nuclei isolation: A comprehensive qualitative and quantitative comparison

ABSTRACT: In this study we used transgenic mouse model to comapre two isolation techniques INTACT and FANS for the isolation of activated neuronal nuclei. Comparison is perfomed on multiple levels like isolation efficiency, membrane integrity, transcriptional and epigenetic state using RNA-seq and ATAC-seq

ORGANISM(S): Mus musculus

PROVIDER: GSE165644 | GEO | 2021/01/28

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

INTACT vs. FANS for cell-type-specific nuclei isolation: A comprehensive qualitative and quantitative comparison

Project description:INTACT vs. FANS for cell-type-specific nuclei isolation: A comprehensive qualitative and quantitative comparison

| PRJNA695261 | ENA

INTACT vs. FANS for Cell-Type-Specific Nuclei Sorting: A Comprehensive Qualitative and Quantitative Comparison.

Project description: Not available

| S-EPMC8159132 | biostudies-literature

An optimised method for intact nuclei isolation from diatoms.

Project description: Not available

| S-EPMC7813820 | biostudies-literature

PAN-INTACT enables isolation of lineage-specific nuclei from fibrous tissues

Project description:PAN-INTACT enables isolation of lineage-specific nuclei from fibrous tissues

| PRJNA490328 | ENA

PAN-INTACT enables direct isolation of lineage-specific nuclei from fibrous tissues.

Project description: Not available

| S-EPMC6445515 | biostudies-literature

FANS-assisted ATAC-Seq to identify developmentally active endothelial enhancers [ATAC-seq]

Project description:Fluorescence-Activated Nuclei Sorting (FANS)-assisted Assay for Transposase Accessible Chromatin sequencing (ATAC-seq) This work sought to identify endothelial-specific enhancer elements by applying ATAC-Seq to nuclei isolated from Tg(fli1a:egfp) transgenic zebrafish embryos.

2017-06-08 | GSE97255 | GEO

AG- and AP3- domain specific FANS RNA-seq

Project description:AG- and AP3- domain specific FANS RNA-seq

| PRJNA730902 | ENA

Single-Cell Point Constrictions for Reagent-Free High-Throughput Mechanical Lysis and Intact Nuclei Isolation.

Project description: Not available

| S-EPMC6680784 | biostudies-literature

PAN-INTACT enables isolation of lineage-specific nuclei from fibrous tissues

Project description:PAN-INTACT method can be used to isolate cell type specific nuclei from fibrous mouse organs, which are particularly problematic. It is broadly applicable for profiling the transcriptional and epigenetic landscape of specific cell types. We envision that our method can be used to systematically probe mechanistic details of cell type-specific functions within individual organs of intact mice.

2019-04-05 | GSE119792 | GEO

Analysis of Caenorhabditis elegans intestinal gene expression and alternative polyadenylation using fluorescence-activated nuclei sorting (FANS) and 3' end deep sequencing (3'end-seq)

Project description:Caenorhabditis elegans is a major eukaryotic experimental system employed to unravel a broad range of cellular and biological processes. Despite the many advantages of C. elegans, biochemical approaches to study tissue-specific gene expression in postembryonic stages are challenging. Here we report a novel experimental approach that enables the efficient determination of tissue-enriched transcriptomes by rapidly releasing nuclei from major tissues of postembryonic animals followed by fluorescence-activated nuclei sorting (FANS). Furthermore, we developed and applied a deep sequencing method, named 3'end-seq, which is designed to examine gene expression and identify 3' ends of transcripts using a small quantity of input RNA. In agreement with intestinal specific gene expression, promoter elements of highly expressed genes are enriched for GATA elements and their functional properties are associated with processes that are characteristic for the intestine. In addition, we systematically mapped pre-mRNA cleavage and polyadenylation sites, or polyA sites, including >3,000 sites that have previously not been identified. The analysis of nuclear mRNA revealed widespread alternative polyA site use in intestinally expressed genes. We describe several novel approaches that will be of significance to the analysis of tissue specific gene expression using small quantity RNA samples from C. elegans and beyond. 3'end-seq of transcriptomes for input and sorted nuclei

2011-12-01 | E-GEOD-32165 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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