This study identifies eRNA-QTLs and susceptibility eRNAs across 23 cancer types, revealing new cancer susceptibility genes through eRNA-based transcriptome-wide association.

medRxiv · Feb 29, 2024 · PreprintGenetic & Genomic Medicine

A distinct class of pan cancer susceptibility genes revealed by alternative polyadenylation transcriptome wide association study

Hui Chen, Zeyang Wang, Lihai Gong, Qixuan Wang, Wenyan Chen, Jia Wang, Xuelian Ma, Ruofan Ding, Xing Li, Xudong Zou, Mireya Plass, Lian Cheng, Ting Ni, Gong‐Hong Wei, Wei Li, , Lei Li

This study identifies 413 APA-linked cancer susceptibility genes by integrating GWAS data with APA quantification, showing genetic variants associated with APA explain a large portion of cancer heritability.

Nature Communications · Feb 26, 2024Peer-reviewedGenetic & Genomic Medicine

xQTLbiolinks: a comprehensive and scalable tool for integrative analysis of molecular QTLs

Ruofan Ding, Xudong Zou, Yangmei Qin, Lihai Gong, Hui Chen, Xuelian Ma, Shouhong Guang, Yu Chen, Gao T. Wang, Lei Li

xQTLbiolinks is a tool for integrative analysis of molecular QTLs, enabling retrieval, preprocessing, and colocalization with GWAS data to identify disease-risk genes.

Briefings in Bioinformatics · Nov 13, 2023Peer-reviewedBioinformatics

ccnWheat: A Database for Comparing Co-expression Networks Analysis of Allohexaploid Wheat and Its Progenitors

Zhongqiu Li, Yiheng Hu, Xuelian Ma, Lingling Da, Jiajie She, Yue Liu, Xin Yi, Yaxin Cao, Wenying Xu, Yuannian Jiao, Zhen Su

The paper introduces ccnWheat, a platform for comparing co-expression networks in wheat species, and identifies a novel motif in the WAPO-A1 gene related to spikelet development in hexaploid wheat.

Genomics Proteomics & Bioinformatics · Jun 1, 2022Peer-reviewedBioinformatics