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| Status |
Public on Oct 13, 2021 |
| Title |
Analysis of mRNA transcriptomic changes in ethanol-exposed human embryonic stem cell (hESC)-derived cortical interneurons using ribosome depletion RNA sequencing |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The goal of this study to use ethanol-exposed human embryonic stem cell (hESC)-derived neural cells as models to investigate mRNA expression changes in the brains of subjects with alcohol use disorder (AUD).
Methods: hESCs were differentiated into neural cells (mainly cortical interneurons), which were then cultured in media with or without ethanol (50-100 mM) for 7 days (by duplicate experiments). Total RNAs were extracted from hESC-derived neural cells (with or without ethanol exposure) for mRNA sequencing. The sequence reads were processed using the RNA-seq processing pipeline Pipeliner [Front Genet. 2019; 10:614] workflow. Ethanol-induced mRNA transcriptomic changes were analyzed by the Limma-Voom method.
Results: When the significance level was set at FC>2.0 & P<0.01, 19 coding genes showed differential expression, and all of them were downregulated after a 7-day ethanol exposure.
Conclusions: The hESC-derived neural cell model study can partially validate mRNA transcriptomic changes in postmortem brains of subjects with alcohol use disorder.
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| Overall design |
hESC-derived neural cells exposed (or unexposed) to ethanol for 7 days
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| |
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| Contributor(s) |
Zhang H |
| Citation(s) |
34601489 |
| |
| Submission date |
Jul 28, 2021 |
| Last update date |
Oct 13, 2021 |
| Contact name |
Huiping Zhang |
| E-mail(s) |
[email protected]
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| Phone |
6173583689
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| Organization name |
Boston University School of Medicine
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| Department |
Psychiatry
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| Street address |
72 East Concord Street
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| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02118 |
| Country |
USA |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA750469 |
| SRA |
SRP330282 |
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