Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Electrical and synaptic integration of glioma into neural circuits

ABSTRACT: We report single cell RNA-seq data from patient-derived xenografts that were dissociated, FACS sorted into 96-well plates and profiled by Smart-seq2 and sequencing on an Illumina NextSeq500

ORGANISM(S): Homo sapiens

PROVIDER: GSE134269 | GEO | 2019/10/02

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Electrical and synaptic integration of glioma into neural circuits.

Project description: Not available

| S-EPMC7038898 | biostudies-literature

Electrical and synaptic integration of glioma into neural circuits

Project description:Electrical and synaptic integration of glioma into neural circuits

| PRJNA554601 | ENA

Smart-seq2 analysis of P17 FACS sorted retinal cells from the Kcng4-cre;stop-YFP X Thy1-stop-YFP Line#1 mice

Project description:Four Kcng4-cre;stop-YFP mouse retinas from two mice were dissected, dissociated and FACS sorted, and single cell RNA-seq libraries were generated for 384 single cells using Smart-seq2. Aligned bam files are generated for 383 samples as one failed to align. Four mouse retinas (labeled 1la, 1Ra, and 2la, 2Ra respective from the two mice) were used, and 96 single cells from each were processed using Smart-seq2. Total 384 cells Smart-seq2 analysis of P17 FACS sorted retinal cells from the Kcng4-cre;stop-YFP mice (Kcng4tm1.1(cre)Jrs mice [Duan et al., Cell 158, 793-807, 2015] crossed to the cre-dependent reporter Thy1-stop-YFP Line#1 [Buffelli et al., Nature 424, 430-434, 2003])

2016-08-25 | E-GEOD-81903 | biostudies-arrayexpress

Smart-seq2 analysis of P17 FACS sorted retinal cells from the Tg(Chx10-EGFP/cre,-ALPP)2Clc or Vsx2-GFP transgenic line

Project description:Three Vsx2-GFP mouse retinas were dissected, dissociated and FACS sorted, and single cell RNA-seq libraries were generated for 288 single cells and 3 bulk libraries using Smart-seq2 (~10,000 cells each)

2016-08-25 | GSE80232 | GEO

Fly Cell Atlas: single-cell transcriptomes of the entire adult Drosophila - Smartseq2 dataset

Project description:We have been performing single-cell RNAseq profiling for the entire adult Drosophila. Here we are providing raw data generated from the Smart-seq2 platform. They are from 37 384-well plates.

2021-09-21 | E-MTAB-10628 | biostudies-arrayexpress

Smart-seq2 analysis of P17 FACS sorted retinal cells from the Kcng4-cre;stop-YFP X Thy1-stop-YFP Line#1 mice

2016-08-25 | GSE81903 | GEO

Gene expression profiles at the single nuclei level of hypothalamic oxytocin neurons from mice fed either standard chow (SC) diet or high-fat/high-sugar (HFHS) diet

Project description:To explore the transcriptional heteroeneity of oxytocin neurons, we fluorescence-assisted nuclei sorting (FANS) conditionally tagged nuclei from Oxt-ires-Cre;CAG-Sun1sfGFP mice. All mice were littermates and fed either SC diet or HFHS diet for 4 months. Individual nuclei were sorted into 384w plates and subjected to SMART-seq2.

2023-09-21 | GSE243448 | GEO

Spatiotemporal dynamics of CRC metastases resolved by single cell RNAseq

Project description:Longitudinal single cell RNA-expression analysis of tumor cells along the metastatic cascade. AKTP MTOs were implanted in the caecum and left to metastasize into the liver. Mice with different metastatic burden were collected and GFP+ CD45- cells were sorted in 96-well smart-seq plates. Tumor cells were collected at four stages (Primary tumors, micrometastases, small metastases and big metastases) and each Smart-seq2 plate contained cells from all conditions to avoid batch effects. Primary tumor samples were matched with micro, small or big metastases samples.

2022-09-16 | E-MTAB-11302 | biostudies-arrayexpress

Single-cell RNA-seq analysis of human pancreas from healthy individuals and type 2 diabetes patients

Project description:We used single-cell RNA-sequencing to generate transcriptional profiles of endocrine and exocrine cell types of the human pancreas. Pancreatic tissue and islets were obtained from six healthy and four T2D cadaveric donors. Islets were cultured and dissociated into single-cell suspension. Viable individual cells were distributed via fluorescence-activated cell sorted (FACS) into 384-well plates containing lysis buffer. Single-cell cDNA libraries were generated using the Smart-seq2 protocol. Gene expression was quantified as reads per kilobase transcript and per million mapped reads (RPKM) using rpkmforgenes. Bioinformatics analysis was used to classify cells into cell types without knowledge of cell types or prior purification of cell populations. We revealed subpopulations in endocrine and exocrine cell types, identified genes with interesting correlations to body mass index (BMI) in specific cell types and found transcriptional alterations in T2D. Complementary whole-islet RNA-seq data have also been deposited at ArrayExpress under accession number E-MTAB-5060 (http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-5060).

2016-09-22 | E-MTAB-5061 | biostudies-arrayexpress

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes and progenitors

Project description:Peripheral blood mononuclear cells (PBMCs) were isolated from fresh blood using Ficoll-Paque density gradient centrifugation. Single-cell suspensions were stained with different antibody cocktails designed to enrich for particular immune cell populations, which were then single cell sorted in 96-well plates. Single cell RNA-sequencing libraries were subsequently generated for 2422 single cells using Smart-Seq2 (Picelli et al., Nature Methods, 2014). Cells were sequenced at a depth of 1-2M reads/cell.

2017-04-21 | GSE94820 | GEO

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