Table_S8_DeltaSVM.robj

We report GVATdb (Yan et al., 2021) results for each eQTL using their fine-mapped variants with causal PP file:////Users/jennifernguyen/Library/Group Containers/UBF8T346G9.Office/TemporaryItems/msohtmlclip/clip_image002.png 10%. The table provides: the eQTL ID (the first term indicates the discovery order and the second term indicates the transcript ID); SNP ID; effect size of the variant on gene expression or isoform usage (“beta”); PP of the variant being causal (“SNP.PP”); name of transcription factor (TF) being tested for binding effects; TF binding score for reference and alternate alleles (“allele1_bind” and “allele2_bind”, respectively); a label (“yes” or “no”) indicating whether the TF binds to the SNP; TF binding impact score (“deltaSVM_score”); and a label (“Gain”, “Loss”, or “None”) indicating whether the SNP promotes (“Gain”) , disrupts (“Loss”), or has no effect on TF binding (“None”). Tables for egQTLs (key name: “gene”) and eiQTLs (key name: “isoform”) are available as an R list object.

本研究针对各表达数量性状位点（expression Quantitative Trait Locus，eQTL），报告了基于GVATdb（Yan等，2021）的分析结果，所用变异体为经精细定位且因果后验概率（causal Posterior Probability，PP）不低于10%的位点。本数据集表格包含以下内容：eQTL标识符（其第一部分代表变异体的发现顺序，第二部分代表转录本标识符）；单核苷酸多态性（Single Nucleotide Polymorphism, SNP）标识符；变异体对基因表达或转录本异构体使用的效应量（记为"beta"）；该变异体为因果变异的后验概率（记为"SNP.PP"）；用于检测结合效应的转录因子（Transcription Factor，TF）名称；参考等位基因与变异等位基因的TF结合得分（分别记为"allele1_bind"与"allele2_bind"）；用于标注该TF是否结合该SNP的标签（取值为"yes"或"no"）；TF结合影响得分（记为"deltaSVM_score"）；以及用于标注该SNP对TF结合影响类型的标签（"Gain"表示促进结合，"Loss"表示破坏结合，"None"表示无影响）。基因水平eQTL（egQTL，键名："gene"）与异构体水平eQTL（eiQTL，键名："isoform"）对应的表格以R语言列表对象形式提供。