GBAT
GBAT is a gene-based analytical pipeline designed to enhance the detection of transcriptional regulation signals, particularly focusing on the challenge of identifying high-quality distal associations, known as trans-eQTLs. Recognizing that disease-associated genetic variants often lie outside of exons and play significant roles in transcriptional regulation, the development of GBAT aims to address the difficulties encountered in trans-eQTL discovery. These challenges include a heavy burden of multiple testing and susceptibility to false-positive results, which have historically limited the identification of meaningful trans-gene regulatory signals.
Topic
Gene transcripts;Gene expression;DNA polymorphism;Genotype and phenotype;Epigenetics
Detail
Operation: Genotyping;SNP detection;Collapsing methods
Software interface: Library,Command-line tool
Language: R,Python
License: Not stated
Cost: -
Version name: -
Credit: R01 MH115676.
Input: -
Output: -
Contact: Xuanyao Liu xuanyao@uchicago.edu ,Noah Zaitlen NZaitlen@mednet.ucla.edu
Collection: -
Maturity: -
Publications
- GBAT: a gene-based association test for robust detection of trans-gene regulation.
- Liu X, et al. GBAT: a gene-based association test for robust detection of trans-gene regulation. GBAT: a gene-based association test for robust detection of trans-gene regulation. 2020; 21:211. doi: 10.1186/s13059-020-02120-1
- https://doi.org/10.1186/S13059-020-02120-1
- PMID: 32831138
- PMC: PMC7444084
Download and documentation
Source: https://github.com/xuanyao/GBAT
Documentation: --
Home page: https://github.com/xuanyao/GBAT
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