Gene Expression Nebulas
A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

Gene Expression Nebulas

A data portal of transcriptome profiles across multiple species
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PRJNA600213

PRJNA600213: Single Cell RNA Sequencing of Monocyte Derived Endothelial Cells

Source: NCBI / GSE143353
Submission Date: Jan 09 2020
Release Date: Jan 10 2020
Update Date: Apr 06 2020

Summary: We examined the global transcriptome of individual cells in the three cell populations, starting MC from three donors after 1hr adherence to FN pooled, MC-derived EC subjected to shear stress, and HCAEC subjected to shear stress using single cell RNA-sequencing (scRNA-Seq). Analysis showed that the initial population of MC clustered separately from HCAEC, while the resulting MCEC overlapped with HCAEC and not MC. Co-expression analysis reveals that only the resulting MCEC contain cells co-expressing KDR and PROM1 (CD133), whereas our starting MC population contained only one cell expressing KDR and a separate cell expressing PROM1 suggesting that our initial MC population did not contain any EPC/ECFCs. Interestingly, heatmaps constructed using EC and MC associated genes revealed that the resulting MCEC cells expressed predominantly EC genes but also some MC genes.

Overall Design: Examination of global transcriptome of 3 cell populations, initial monocytes, monocyte derived endothelial cells, and human endothelial cells as a control

GEN Datasets:
GEND000119
Strategy:
Species:
Tissue:
Healthy Condition:
Cell Type:
Protocol
Growth Protocol: -
Treatment Protocol: -
Extract Protocol: Chromimum Single Cell 3' v3 (10x Genomics)
Library Construction Protocol: TruSeq Stranded RNA (illumina)
Sequencing
Molecule Type: poly(A)+ RNA
Library Source:
Library Layout: PAIRED
Library Strand: Forward
Platform: ILLUMINA
Instrument Model: Illumina NovaSeq 6000
Strand-Specific: Specific
Samples
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
Analysis:
Data Resource GEN Sample ID GEN Dataset ID Project ID BioProject ID Sample ID Sample Name BioSample ID Sample Accession Experiment Accession Release Date Submission Date Update Date Species Race Ethnicity Age Age Unit Gender Source Name Tissue Cell Type Cell Subtype Cell Line Disease Disease State Development Stage Mutation Phenotype Case Detail Control Detail Growth Protocol Treatment Protocol Extract Protocol Library Construction Protocol Molecule Type Library Layout Strand-Specific Library Strand Spike-In Strategy Platform Instrument Model Cell Number Reads Number Gbases AvgSpotLen1 AvgSpotLen2 Uniq Mapping Rate Multiple Mapping Rate Coverage Rate
Publications
Endothelialization of arterial vascular grafts by circulating monocytes.
Nature communications . 2020-04-01 [PMID: 32238801]