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| Status |
Public on Feb 04, 2019 |
| Title |
Identification of Novel Regulatory Genes in APAP Induced Hepatocyte Toxicity by a Genome-Wide CRISPR-Cas9 Screen |
| Organisms |
Escherichia coli; Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Acetaminophen (APAP) is a commonly used analgesic responsible for more than half of acute liver failure cases. Identification of previously unknown genetic risk factors would provide mechanistic insights and novel therapeutic targets for APAP-induced liver injury. This study used a genome-wide CRISPR-Cas9 screen to evaluate genes that are protective against, or cause susceptibility to, APAP-induced liver injury. HuH7 human hepatocellular carcinoma cells containing CRISPR-Cas9 gene knockouts were treated with 15mM APAP for 30 minutes to 4 days. A gene expression profile was developed based on the 1) top screening hits, 2) overlap of expression data from APAP overdose studies, and 3) predicted affected biological pathways. We further demonstrated the implementation of intermediate time points for the identification of early and late response genes. This study illustrated the power of a genome-wide CRISPR-Cas9 screen to systematically identify novel genes involved in APAP-induced hepatotoxicity and to provide potential targets to develop novel therapeutic modalities.
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| Overall design |
Single-read DNA amplicon sequencing of a CRISPR/Cas9 genome-wide knockout screen of acetaminophen-induced hepatotoxicity in the HuH7 human hepatocarcinoma cell line. sgRNA library transfer plasmid isolated from E. coli was sequenced alongside the screen to assess library representation. For each sample there are 4 technical replicates.
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| Contributor(s) |
Shortt K, Heruth DP, Zhang N, Wu W, Singh S, Li D, Zhang LQ, Wyckoff G, Qi LS, Ye SQ |
| Citation(s) |
30718897 |
| |
| Submission date |
Mar 28, 2018 |
| Last update date |
Feb 06, 2019 |
| Contact name |
Shui Q Ye |
| Organization name |
University of Missouri Kansas City School of Medicine
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| Department |
Departmetn of Biomedical and Health Informatics
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| Street address |
2411 Holmes Street
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| City |
Kansas City |
| State/province |
MO |
| ZIP/Postal code |
64108 |
| Country |
USA |
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| Platforms (2) |
| GPL18460 |
Illumina HiSeq 1500 (Homo sapiens) |
| GPL20045 |
Illumina HiSeq 1500 (Escherichia coli) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA447595 |
| SRA |
SRP136733 |
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