Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

0f0bbaed-4d88-45e2-8f51-127e763ea7b9 - samples

ABSTRACT: Bulk RNAseq of human skeletal muscle RNAseq of FACS sorted human skeletal muscle cells scRNAseq of human skeletal muscle

PROVIDER: EGAD00001008126 | EGA |

REPOSITORIES: EGA

ACCESS DATA

Json Xml

Similar Datasets

Combination of high-dimensional approaches for skeletal muscle tissue cartography

Project description:The regenerative capacity of skeletal muscle relies on muscle stem cells (MuSCs, or satellite cells) and its niche interactions with different neighboring cells. To understand the cellular diversity within adult skeletal muscle tissue, we harvested mononuclear cells from hindlimb skeletal muscles, sorted into single cells and profiled them by single-cell RNA-seq. To further understand and compare the expression profile between MuSCs and a novel smooth-muscle/mesenchymal-like cells (SMMCs) population, we isolated the two cell types by FACS and profiled them respectively by bulk RNA-seq.

2019-03-30 | GSE110878 | GEO

Expression data from young adult, and aged mouse satellite cells

Project description:Transcriptomic analysis of FACS-sorted Pax7nGFP quiescent skeletal muscle satellite cells cells from young, and old mice. Results provide knowledge about the molecular mechanisms underlying age-related skeletal muscle satellite cells homeostasis.

2018-07-04 | GSE116585 | GEO

Expression data from young adult, and post-mortem mouse satellite cells

Project description:Transcriptomic analysis of FACS-sorted Pax7nGFP quiescent skeletal muscle satellite cells cells from old, and post-mortem mice. Results provide knowledge about the molecular mechanisms underlying age-related skeletal muscle satellite cells homeostasis.

2018-07-04 | GSE116584 | GEO

Effect of depletion of GPRC5C from smooth muscle cells (SMC) on gene expression in mice

Project description:To investigate the consequence of Gprc5c knocking out in SMC on mRNA transcriptioinal level, EGFP-expressing smooth muscle cells were sorted by FACS from skeletal muscle vasculature of tamoxifen-induced control and iSM-G5C-KOs carrying the mTmG reporter strain.

2024-04-05 | GSE241324 | GEO

RNAseq comparison of gene expression profiles in ScxGFP positive cells and ScxGFP negative cells from E13.5 forelimb samples

Project description:RNAs were isolated from FACS sorted ScxGFP positive cells and GFP negative cells of forelimbs at E13.5, and characterized by RNAseq

2015-03-19 | GSE65177 | GEO

RNAseq comparison of gene expression profiles in ScxGFP positive cells from E11.5, E13.5 and E15.5 hindlimb samples

Project description:RNAs were isolated from FACS sorted ScxGFP positive cells of hindlimbs at E11.5, E13.5 and E15.5, and characterized by RNAseq

2015-03-19 | GSE65179 | GEO

Gene expression analysis following neurogenesis of adult enteric glia/progenitor cells

Project description:Enteric glia cells (EGCs) are highly plastic and has been shown to give rise to neurons in adult gut upon injury to the enteric nervous system (ENS). To better characterise the dynamic molecular changes associated with EGC activation and its subsequent neurogenic differentation trajectory, we performed bulk RNAseq experiments from FACS sorted lineage-labelled cells (Sox10::CreERT2;R26-tdTomato) from adult small intestines (DIV0) and compared their transcriptomic profiles to cultured FACS sorted tdTomato+ cells from days in vitro (DIV) 4, 11 and 20, which were subjected to a protocol to support neurogenesis in culture.

2023-07-26 | GSE160196 | GEO

Tuft cells restrain pancreatic tumorigenesis through paracrine eicosanoid signaling [single-cell RNA-seq]

Project description:We performed Smart-seq2 scRNAseq on 156 pancreatic tuft cells . We also profiled FACS sorted EpCAM+;CD45+ immune cells and EpCAM-;CD45- non-immune stroma cells from from 3 caerulein-treated KC and 2 caerulein-treated KPouC pancreata by using the 10X Genomics 3' scRNAseq v3.1 kit.

2020-07-13 | GSE154259 | GEO

Transcriptome profiling of a mouse model of alveolar soft part sarcoma

Project description:In order to dtermine how well a mouse genetic model of alveolar soft part sarcoma (ASPS) mimics the human disease, five human ASPS tumor samples and three normal skeletal muscle samples were profiled by RNAseq and compared to samples from five mouse tumors induced by expression of ASPSCR1-TFE3 and three normal mouse skeletal muscle samples, also profiled by RNAseq. The reference was really comparing 5 human ASPS tumors to 5 mouse tumors that histologically mimic ASPS, but using skeletal muscle controls (3 from each species) as a sounding board for differential expression.

2014-11-26 | E-GEOD-54729 | biostudies-arrayexpress

RNA-seq from sorted population of CD8 T cells (50 cells per sample) of human CD8 T memory stem cells (Tscm) subsets defined by surface expression of CD122 or CXCR3

Project description:Although it is recognised that CD8+ T memory stem cells (Tscm) are heterogeneous in phenotype and function, very few studies have sought to systematically examine these characteristics, particularly in human samples, as the population as a whole is rare and antigen-specific cells even more so. For each T cell subsets investigated, we have performed optimized RNAseq for small number of cells by adapting the Smartseq2 protocol from scRNAseq. The mini-bulk number of cells was chosen to reduce heterogeneity but also maintain an adequate transcriptomics signal. Adapted from Smartseq2 protocol from scRNAseq described by Picelli et al, cell lysis buffer was prepared by adding 1 μl RNase inhibitor (Clontech, Mountain View, USA) to 19 μl Triton X‐100 solution (0.2% v/v). CD8 T cell subpopulations (TN, TSCM, TCM and TEM together with TSCM CXCR3hi/lo and CD122hi/lo) were bulk sorted (50 cells/sample, with replicates) directly into 96-well PCR plates containing 2 μl lysis buffer, 1 μl dNTP mix (10 mM) and 1 μl oligo‐dT primer at 5 μM. Plates were stored at -80 °C until ready to perform the assay. Reverse-transcription and PCR amplifications were performed as described, with the exception of reducing the IS PCR primer to a 50 nM final concentration and increasing the number of cycles to 28. Sequencing libraries were prepared using the Nextera XT Library Preparation Kit (Illumina; San Diego, USA) and sequencing was performed on Illumina NextSeq500 sequencing platforms with 2×150bp paired-end read output, the read depth was approximately 1.3 million reads per sample.

2022-03-10 | E-MTAB-10208 | 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