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| Status |
Public on May 25, 2024 |
| Title |
Inflammatory stress-mediated chromatin changes underlie dysfunction in endothelial cells. [ATAC-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Inflammatory stresses underlie endothelial dysfunction and contribute to the development of chronic cardiovascular disorders such as atherosclerosis and vascular fibrosis. The initial transcriptional response of endothelial cells to pro-inflammatory cytokines such as TNF-alpha is well established. However, very few studies uncover the effects of inflammatory stresses on chromatin architecture. We used integrative analysis of ATAC-seq and RNA-seq data to investigate chromatin alterations in human endothelial cells in response to TNF-alpha and febrile-range heat stress exposure. Multi-omics data analysis suggests a correlation between the transcription of stress-related genes and endothelial dysfunction drivers with chromatin regions exhibiting differential accessibility.
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| Overall design |
To investigate genome-wide changes in chromatin accessibility, we performed ATAC-seq on EC cells, exposed to either 2hr of 39ºC febrile-like heat stress or 6hr of 10 ng/ml TNF-alpha.
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| Contributor(s) |
Liu H, Caliz AD, Learnard H, Koupenova M, Keaney JF, Kant S, Zhu LJ, Vertii A |
| Citation |
https://www.biorxiv.org/content/10.1101/2023.10.11.561959v1
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| Submission date |
May 20, 2024 |
| Last update date |
May 25, 2024 |
| Contact name |
Haibo Liu |
| E-mail(s) |
haibo.liu@umassmed.edu
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| Phone |
5153573719
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| Organization name |
UMass Chan
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| Department |
MCCB
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| Street address |
164 Plantation St
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| City |
Unionville |
| State/province |
CT |
| ZIP/Postal code |
06085 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (6)
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| GSM8281743 |
HUVEC, ATAC-Seq, control, biological replicate 1 (C1) |
| GSM8281744 |
HUVEC, ATAC-Seq, control, biological replicate 2 (C2) |
| GSM8281745 |
HUVEC, ATAC-Seq, 39 °C heat stress for 2 hours, biological replicate 1 (HS1) |
| GSM8281746 |
HUVEC, ATAC-Seq, 39 °C heat stress for 2 hours, biological replicate 2 (HS2) |
| GSM8281747 |
HUVEC, ATAC-Seq, TNF-alpha stimulated, biological replicate 1 (T1) |
| GSM8281748 |
HUVEC, ATAC-Seq, TNF-alpha stimulated, biological replicate 2 (T2) |
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| Relations |
| BioProject |
PRJNA1113657 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE267931_RAW.tar |
2.2 Gb |
(http)(custom) |
TAR (of BIGWIG) |
SRA Run Selector |
| Raw data are available in SRA |
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