This paper develops PRECIS, a method combining prime editing and a synthetic intron reporter to efficiently generate SF3B1 mutant cell lines that recapitulate cancer-related splicing and CNV events.

Cancer Research Communications · Aug 28, 2024Peer-reviewedCancer Biology

IIIandMe: An Algorithm for Chromosome-scale Haplotype Determination Using Genome-wide Variants of Three Haploid Reproductive Cells

Han Qu, Ruidong Li, Lei Yu, Wei‐Ming Chen, Yuanfa Feng, Qiong Jia, Ryan C. Traband, Xuesong Wang, Shibo Wang, Luoxian He, Zixian Wang, Meng Qu, Sergio Pietro Ferrante, Jianguo Zhu, Weide Zhong, , Zhenyu Jia

IIIandMe improves haplotype phasing accuracy using three gametes, validated through simulation and citrus data.

bioRxiv · Dec 7, 2022 · PreprintBioinformatics

CancerMIRNome: an interactive analysis and visualization database for miRNome profiles of human cancer

Ruidong Li, Han Qu, Shibo Wang, John M. Chater, Xuesong Wang, Yanru Cui, Lei Yu, Rui Zhou, Qiong Jia, Ryan C. Traband, Meiyue Wang, Weibo Xie, Dongbo Yuan, Jianguo Zhu, Weide Zhong, Zhenyu Jia

CancerMIRNome provides an interactive database for analyzing and visualizing miRNA expression data from cancer studies to identify dysregulated miRNAs and develop biomarkers.

Nucleic Acids Research · Sep 8, 2021Peer-reviewedBioinformatics

Large-scale Genetic Analysis Identifies 66 Novel Loci for Asthma

Yi Ying Han, Qiong Jia, Pedram Shafiei-Jahani, Benjamin P. Hurrell, Calvin Pan, Pin Huang, Janet Gukasyan, Nicholas C. Woodward, Eleazar Eskin, Frank D. Gilliland, Omid Akbari, Jaana Hartiala, Hooman Allayee

This study identifies 66 novel asthma susceptibility loci through GWAS and finds gene-sex interactions and immune-related candidate genes, suggesting CD52 as a potential therapeutic target.

bioRxiv · Aug 29, 2019 · PreprintGenetics