Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-nucleus multiome (RNA+ATAC) sequencing of the axolotl pallium

ABSTRACT: Single-nucleus multiome (RNA+ATAC) sequencing of the axolotl pallium

PROVIDER: PRJEB52517 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Single-nucleus multiome (RNA+ATAC) sequencing of the axolotl pallium

Project description:In order to understand the genomic and transcriptomic variability of the axolotl pallium, as well as reconstruct their intrinsic gene regulatory networks, we performed single-nucleus multiome sequencing (RNA and open chromatin) of whole axolotl pallium.

2022-07-20 | E-MTAB-11666 | biostudies-arrayexpress

snRNA-seq of microdissected regions from the axolotl pallium

Project description:In order to understand the relationship between cellular diversity and pallium regions, single-nucleus RNA-seq (snRNA-seq) was performed in 3 microdissected regions from the axolotl pallium: medial, dorsal, and lateral.

2022-07-19 | E-MTAB-11662 | biostudies-arrayexpress

Div-seq of axolotl pallium injury time course

Project description:The goal of this experiment is to track cellular regeneration after a dorsal injury to the axolotl pallium. To this end, we employed Div-seq, that is, performed snRNA-seq on cells labelled with EdU, which have thus recently replicated. We performed this in a time course, in order to observed the cell populations that were generated as regeneration progressed.

2022-07-20 | E-MTAB-11638 | biostudies-arrayexpress

Div-seq of axolotl pallium injury time course

Project description:Div-seq of axolotl pallium injury time course

| PRJEB52325 | ENA

snRNA-seq of microdissected regions from the axolotl pallium

Project description:snRNA-seq of microdissected regions from the axolotl pallium

| PRJEB52503 | ENA

Multiome RNA+ATAC on human PBMCs (snATAC-seq data)

Project description:We generated Multiome RNA+ATAC data from the same cell from human PBMC. This served as a gold benchmark for a novel integration method for multi-omics data that we developed.

2021-12-02 | E-MTAB-11226 | biostudies-arrayexpress

Multiome RNA+ATAC on human PBMCs (snRNA-seq data)

Project description:We generated Multiome RNA+ATAC data from the same cell from human PBMC. This served as a gold benchmark for a novel integration method for multi-omics data that we developed.

2021-12-02 | E-MTAB-11225 | biostudies-arrayexpress

Joint single-nucleus RNA sequencing and single-nucleus ATAC sequencing of neuroblastoma cell lines

Project description:This study was undertaken to assess transcriptional and epigenetic heterogeneity a the level of individual cells within neuroblastoma cell lines, and to compare cell lines with MYCN amplificaion to cell lines without MYCN amplification. Methods: We used 10X Genomics multiome sequencing technology to perform joint gene expression and ATAC profiling on thousands of nuclei isolated from the following human neuoblastoma cell lines: SHSY5Y, SK-N-AS, SK-N-SH, SK-N-DZ, Be-2c, and CHP134. Results: We found considerable gene expression and epigeneic heterogeneity both within and between neuroblastoma cell lines. Conclusion: Joint single-nucleus RNA sequencing and single-nucleus ATAC sequencing has demonsrated that neuroblastoma cell lines are heterogeneous, which may have implications for therapeutic strategies.

2024-09-17 | GSE262189 | GEO

Mapping cells thorugh time and space - pancreatic endocrinogenesis multiome

Project description:This dataset consists of single-nucleus RNA-seq and single-cell ATAC-seq (10X multiome) data from 3 embryonic stages (E14.5-16.5) of pancreatic epithelial cells from Neurogenin3 (Ngn3)-Venus fusion (NVF) homozygous mice. Endocrine progenitor cells (NVF+) were enriched by FACS cell sorting.

2024-08-26 | GSE275562 | GEO

Single nucleus multiome (RNAseq and ATACseq) of female mouse pituitary

Project description:We report the single nucleus multiome (RNAseq+ATACseq) of a female mouse pituitary sample. This dataset was generated for supporting the development of a data-driven batch inference method and transforms often heterogeneous data matrices obtained from different samples into a uniformly cell-type annotated and integrated dataset.

2024-10-01 | GSE244132 | GEO

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