Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

45 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single cell RNA sequencing of myeloid cells from the aortas of ApoE-/- and ApoE-/- Clec4a2-/- mice fed a high fat diet for 12 weeks

ABSTRACT: CD45+CD11b+ cells from the whole aortas of ApoE-/- and ApoE-/- Clec4a2-/- mice fed a high fat diet (HFD) for 12 weeks using using 10X genomics platform (9 mice in each genotype were pooled; one experiment).

INSTRUMENT(S): Illumina HiSeq 4000

ORGANISM(S): Mus musculus

SUBMITTER: Claudia Monaco

PROVIDER: E-MTAB-10746 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Single cell RNA sequencing of myeloid cells from the aortas of ApoE-/- mice fed a high fat diet for 12-16 weeks

Project description:scRNA-seq of CD45+CD11b+ or CD45+CD11b+ CD64low-high cells from the whole aortas of ApoE-/- mice fed a high fat diet (HFD) for 12-16 weeks using the Chromium 10X genomics platform (9 mice were pooled each experiment; three independent experiments).

2021-10-28 | E-MTAB-10743 | biostudies-arrayexpress

Infiltrating monocyte-derived macrophages and resident kupffer cells display different ontogeny and functions in acute liver injury

Project description:Molecular profiling of infiltrating monocyte-derived macrophages versus resident kupffer cells following acute liver injury The liver has a remarkable capacity to regenerate after injury; yet, the role of macrophages (MF) in this process remains controversial mainly due to difficulties in distinguishing between different MF-subsets. Here, we utilized a murine model of acute liver injury caused by overdose of acetaminophen (APAP) and defined three distinct MF subsets that populate the liver following injury. Accordingly, resident Kupffer cells (KC) were significantly reduced upon APAP-challenge and started recovering by self-renewal at resolution phase without contribution of circulating Ly6Chi monocytes. The latter were recruited in a CCR2 and M-CSF mediated pathway at the necro-inflammatory phase and differentiated into ephemeral Ly6Clo MF subset at resolution phase. Moreover, their inducible ablation resulted in impaired recovery. Microarray based molecular profiling uncovered high similarity between steady state KC and those recovered at the resolution phase. In contrast, KC and monocyte-derived MF displayed distinct pro-restorative genetic signature at the resolution phase. Finally, we show that infiltrating monocytes acquire a pro-restorative polarization manifested by unique expression of pro-angiogenesis mediators and genes involved with inhibition of neutrophil activity and recruitment and promotion of their clearance. Collectively, our results present a novel phenotypic, ontogenic and molecular definition of liver-MF compartment following acute injury. 11 Samples (arrays) were performed. We generated pairwise comparison between all the different macrophages stages, using Partek Genomics Suite. Genes with p?5%[FDR] and a fold-change difference of ?2 or <-2 were selected.

2014-08-01 | E-GEOD-55606 | biostudies-arrayexpress

Intermittent childhood hyperlipidaemia alters resident arterial macrophages and accelerates atherosclerosis

Project description:Mice deficient in the LDL receptor (LDLR KO mice) fed with high fat diet (HFD) feeding have been widely used as a model to mimic human atherosclerosis. RNA-seq using aortic macrophages to investigate the effects of aortic macrophages on the plaque size progression. LDLR KO mice, 6-8 weeks old, were used, and fed with either an alternative HFD or a regular HFD. After aorta macrophages were isolated, RNeasy Mini Kit (Qiagen) was used to isolate mRNA. Single end (50bp), unstranded, SMART-Seq v4 plus nextera (SMART-Seq v4 Ultra Low Input RNA Kit (Takara) ). The RNA-seq libraries were prepared with SMART-Seq v4 Ultra Low Input RNA Kit (Takara).

2024-07-31 | E-MTAB-12759 | biostudies-arrayexpress

Gene expression in cardiac macrophages

Project description:Three cardiac macrophage subsets and blood ly6chi monocytes were sorted to compare gene expression at steady state. 4 samples (CCR2+ Mac, MHC-IIlo Mac, MHC-IIHi Mac, Ly6cHi Mono), with 4 replicates of each sample.

2014-01-18 | E-GEOD-53787 | biostudies-arrayexpress

RNA-seq analysis of ID8 ovarian cancer cells after harvest from malignant ascites

Project description:Sequencing of mRNA from ID8 tumor cells and ID8 tumor cells harvested from ascites of mice 11 weeks after intra peritoneal inoculation show acquisition of cancer stem cell-like features in ascitic tumor cells.

2020-01-06 | E-MTAB-8140 | biostudies-arrayexpress

RNA-seq analysis of macrophages from normal and tumor-infiltrated omentum

Project description:Sequencing of mRNA from tissue-resident and tumor-associated macrophages in murine omentum display distinct transcriptional profile between macrophage subset of different origin

2020-01-06 | E-MTAB-8141 | biostudies-arrayexpress

Aortic macrophages and endothelial cells of apoE KO mice aortas after plaque regression induced apoE adenoviral transfer

Project description:Aortic macrophages and endothelial cells of apoE KO mice were sorted and analyzed by microarray 2 weeks after regression was induced by adenoviral transfer of apoE. Aortic macrophages (CD45+ F4/80+ CD11b+) and endothelial cells (CD45- CD31+) were sorted from apoE KO mice and the RNA extracted and hybridized to Affymetrix Mouse Gene 1.0 ST array. We pooled aortas from 5 mice for each sort.

2015-01-01 | E-GEOD-42691 | biostudies-arrayexpress

Aortic macrophages and endothelial cells of apoE KO mice aortas after plaque regression induced apoE adenoviral transfer

Project description:Aortic macrophages and endothelial cells of apoE KO mice were sorted and analyzed by microarray 2 weeks after regression was induced by adenoviral transfer of apoE.

2015-01-01 | GSE42691 | GEO

Single cell transcriptome of mouse aortas underlying Apoe−/− mice and EC-iDKO/Apoe−/− mics.

Project description:To investigate whether epsins play a role in EndoMT, we performed scRNAseq analysis in atherosclerotic Apoe−/− mouse model.

2023-01-09 | GSE216579 | GEO

Single cell RNA sequencing analysis for atherosclerotic aortas in Oasl1/Apoe WT and Oasl1/Apoe DKO mice

Project description:We have applied 10X single-cell RNA sequencing (scRNA-seq) technique to examine the cell type specific transcriptomes of heterogeneous cell populations in atherosclerotic aortas isolated from Oasl1+/+Apoe-/- and Oasl1-/-Apoe-/- mice.

2022-09-06 | GSE186355 | 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