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Status |
Public on May 06, 2020 |
Title |
ASEP: gene-based detection of allele-specific expression cross individuals in a population by RNA sequencing |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing
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Summary |
Allele-specific expression (ASE) quantifies the relative expression of two alleles in a diploid individual, and such expression imbalance potentially contributes to phenotypic variation and disease pathophysiology among individuals. We developed ASEP, a method that is able to detect gene-level ASE under one condition, as well as, ASE difference between two conditions (e.g., pre- vs post-treatment) across individuals. Application of ASEP to human macrophage RNA-seq dataset has illustrated its ability to uncover ASE / differential ASE genes related to cardiometabolic traits.
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Overall design |
Human peripheral blood mononuclear cell (PBMC)-derived macrophages (HMDM) and M1-polarized HMDM were sequenced by Illumina HiSeq 2500 with poly-A selection
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Contributor(s) |
Zhang H, Xue C |
Citation(s) |
32392242 |
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Submission date |
Apr 30, 2020 |
Last update date |
Aug 05, 2020 |
Contact name |
Chenyi Xue |
Organization name |
Columbia University
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Street address |
630 W 168th St.
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City |
New York |
State/province |
NY |
ZIP/Postal code |
10032 |
Country |
USA |
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Platforms (1) |
GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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Samples (96)
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Relations |
BioProject |
PRJNA629498 |
SRA |
SRP259314 |