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


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