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| Status |
Public on Nov 17, 2022 |
| Title |
Single-Cell RNA Sequencing reveals matrix stiffness induction of endothelial phenotypic modulation and its association with atherosclerosis |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Here, we applied single-cell RNA seq to uncover the heterogeneity of endothelial cells (ECs) under different stiffness and TGF-β induction. We identified three distinct EC clusters that was consistenyl showed in all different conditions . Further subclustering analysis revealed finer heterogeneity which were differentially impacted by stiffness and TGF-β.
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| Overall design |
We performed scRNA-seq on human coronary artery endothelial cells (ECs, passage 3-8, Lonza) cultured for 14 days on 4kPa hydrogel or TC, in the presence or absence of TGF-β stimulation. After quality control filtering based on mitochondrial transcript content and total transcript counts, we obtained 21,644 high-quality ECs.
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| Contributor(s) |
Huang N, Cahan P |
| Citation |
Maedeh Zamani, Yu-Hao Cheng, Frank Charbonier, Vivek Kumar Gupta, Aaron T. Mayer, Alexandro E. Trevino, Thomas Quertermous, Ovijit Chaudhuri, Patrick Cahan, and Ngan F. Huang. Single-Cell Transcriptomic Census of Endothelial Changes Induced by Matrix Stiffness and the Association with Atherosclerosis. Adv. Funct. Mater. 2022, 32, 2203069. doi:10.1002/adfm.202203069
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| Submission date |
Nov 19, 2021 |
| Last update date |
Feb 16, 2023 |
| Contact name |
Patrick Cahan |
| E-mail(s) |
patrick.cahan@jhmi.edu
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| Organization name |
Johns Hopkins University
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| Lab |
MRB 660
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| Street address |
733 N. Broadway
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| City |
Baltimore |
| ZIP/Postal code |
21205 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA781858 |
| SRA |
SRP346910 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE189179_RAW.tar |
296.8 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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