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Status |
Public on Nov 26, 2019 |
Title |
In vitro and in vivo epigenome-wide CRISPR screens in mouse KrasG12D/P53-/- (KP) lung adenocarcinoma model |
Organisms |
Mus musculus; synthetic construct |
Experiment type |
Other
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Summary |
To systematically study the functions of epigenetic genes in controlling tumor progression and regulating anti-tumor immunity, we performed a series of in vitro and in vivo epigenome-wide CRISPR screens in mouse KP lung adenocarcinoma model. We constructed an epigenetic-focused sgRNA library, established KP-Cas9-library pools, and then performed in vitro and in vivo CRISPR screens. For in vitro screens, we compared the cell pools harvested at week 4 with the cells pools harvested at week 2 to check the functions of epigenetic genes in tumor cell proliferation. For in vivo screens, we compared the IgG treated tumors in Rag1-/- mice or WT mice with the input cell pool to check the functions of epigenetic genes in tumor growth; we compared the IgG treated tumors in WT mice with the IgG treated tumors in Rag1-/- mice to check the functions of epigenetic genes in regulating anti-tumor immunity; we compared the anti-PD-1 treated tumors in WT mice with IgG treated tumors in WT mice to check the functions of epigenetic genes in modulating sensitivity to anti-PD-1 treatment.
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Overall design |
Examination of sgRNA abundance in library, cultured cell pools, input cell pool and tumors with different treatments.
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Contributor(s) |
Li F, Khodadadi-Jamayran A, Wong KK |
Citation(s) |
31744829 |
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Submission date |
Feb 26, 2019 |
Last update date |
Jun 26, 2020 |
Contact name |
Alireza Khodadadi-Jamayran |
Organization name |
New York University, NYU Langone Medical Center
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Department |
Division of Advanced Research Technologies (DART)
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Lab |
Applied Bioinformatics Laboratories (ABL)
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Street address |
550 1st Ave, MSB 304
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City |
New York City |
State/province |
NY |
ZIP/Postal code |
10016 |
Country |
USA |
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Platforms (2) |
GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
GPL19604 |
Illumina HiSeq 2500 (synthetic construct) |
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Samples (54)
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Relations |
BioProject |
PRJNA524379 |
SRA |
SRP186949 |