Bingshan Li

20 papers Journal 16Unranked 4
YearRankTypeTitle / Venue / Authors
2025 — conf
Integrating Single Cell RNA Sequencing Data and Protein Embeddings to Infer Cell-Cell Communication in Alzheimer's Disease.
BIBM
Yuting Tan, Yang Li, Rui Chen, Anshul Tiwari, Zhexing Wen, Xue Zhong, Zhijun Yin, Bingshan Li
2025 — conf
Leveraging scHi-C Data for Integrated Single-Cell Omics Analysis.
BIBM
Weixin Liu, Rui Chen, Yang Li, Yuting Tan, Xue Zhong, Bingshan Li, Zhijun Yin
2025 J jnl
Tensor decomposition of multi-dimensional splicing events across multiple tissues to identify splicing-mediated risk genes associated with complex traits.
PLoS Comput. Biol.
Yan Yan, Rui Chen, Hakmook Kang, Yuting Tan, Anshul Tiwari, Siyuan Ma, Zhexing Wen, Xue Zhong, Bingshan Li
2024 — conf
Improving Genetic Perturbation Response Prediction with an Enhanced Biological Knowledge Graph.
BIBM
Yang Li, Rui Chen, Yuting Tan, Xue Zhong, Bingshan Li, Zhijun Yin
2024 J jnl
Leveraging generative AI to prioritize drug repurposing candidates for Alzheimer's disease with real-world clinical validation.
npj Digit. Medicine
Chao Yan, Monika E. Grabowska, Alyson L. Dickson, Bingshan Li, Zhexing Wen, Dan M. Roden, C. Michael Stein, Peter J. Embí, Josh F. Peterson, QiPing Feng, Bradley A. Malin, Wei-Qi Wei
2023 J jnl
FAVOR: functional annotation of variants online resource and annotator for variation across the human genome.
Nucleic Acids Res.
Hufeng Zhou, Theodore Arapoglou, Xihao Li, Zilin Li, Xiuwen Zheng, Jill Moore, Abhijith Asok, Sushant Kumar, Elizabeth E. Blue, Steven Buyske, Nancy J. Cox, Adam Felsenfeld, Mark Gerstein, Eimear Kenny, Bingshan Li, Tara Cox Matise, Anthony Philippakis, Heidi L. Rehm, Heidi J. Sofia, Grace Snyder, Zhiping Weng, Benjamin M. Neale, Shamil R. Sunyaev, Xihong Lin
2022 J jnl
A Bayesian framework to integrate multi-level genome-scale data for Autism risk gene prioritization.
BMC Bioinform.
Ying Ji, Rui Chen, Quan Wang, Qiang Wei, Ran Tao, Bingshan Li
2022 J jnl
A computational framework to unify orthogonal information in DNA methylation and copy number aberrations in cell-free DNA for early cancer detection.
Briefings Bioinform.
Qiang Wei, Chao Jin, Yang Wang, Shanshan Guo, Xu Guo, Xiaonan Liu, Jiaze An, Jinliang Xing, Bingshan Li
2022 J jnl
TVAR: assessing tissue-specific functional effects of non-coding variants with deep learning.
Bioinform.
Hai Yang, Rui Chen, Quan Wang, Qiang Wei, Ying Ji, Xue Zhong, Bingshan Li
2021 J jnl
DDIWAS: High-throughput electronic health record-based screening of drug-drug interactions.
J. Am. Medical Informatics Assoc.
Patrick Wu, Scott D. Nelson, Juan Zhao, Cosby A. Stone Jr., QiPing Feng, Qingxia Chen, Eric A. Larson, Bingshan Li, Nancy J. Cox, C. Michael Stein, Elizabeth Phillips, Dan M. Roden, Joshua C. Denny, Wei-Qi Wei
2020 J jnl
DRAMS: A tool to detect and re-align mixed-up samples for integrative studies of multi-omics data.
PLoS Comput. Biol.
Yi Jiang, Gina Giase, Kay Grennan, Annie W. Shieh, Yan Xia, Lide Han, Quan Wang, Qiang Wei, Rui Chen, Sihan Liu, Kevin P. White, Chao Chen, Bingshan Li, Chunyu Liu
2020 — conf
Ultrasound Image-Based Diagnosis of Cirrhosis with an End-to-End Deep Learning model.
BIBM
Hai Yang, Xiaohui Sun, Yang Sun, Ligang Cui, Bingshan Li
2019 J jnl
De novo pattern discovery enables robust assessment of functional consequences of non-coding variants.
Bioinform.
Hai Yang, Rui Chen, Quan Wang, Qiang Wei, Ying Ji, Guangze Zheng, Xue Zhong, Nancy J. Cox, Bingshan Li
2017 J jnl
Cancer driver gene discovery through an integrative genomics approach in a non-parametric Bayesian framework.
Bioinform.
Hai Yang, Qiang Wei, Xue Zhong, Hushan Yang, Bingshan Li
2016 J jnl
A computational method for genotype calling in family-based sequencing data.
BMC Bioinform.
Lun-Ching Chang, Bingshan Li, Zhou Fang, Scott Vrieze, Matthew McGue, William G. Iacono, George C. Tseng, Wei Chen
2016 J jnl
Joint detection of copy number variations in parent-offspring trios.
Bioinform.
Yongzhuang Liu, Jian Liu, Jianguo Lu, Jiajie Peng, Liran Juan, Xiaolin Zhu, Bingshan Li, Yadong Wang
2016 J jnl
RVTESTS: an efficient and comprehensive tool for rare variant association analysis using sequence data.
Bioinform.
Xiaowei Zhan, Youna Hu, Bingshan Li, Gonçalo R. Abecasis, Dajiang J. Liu
2015 J jnl
A Bayesian framework for
Bioinform.
Qiang Wei, Xiaowei Zhan, Xue Zhong, Yongzhuang Liu, Yujun Han, Wei Chen, Bingshan Li
2015 J jnl
A haplotype-based framework for group-wise transmission/disequilibrium tests for rare variant association analysis.
Bioinform.
Rui Chen, Qiang Wei, Xiaowei Zhan, Xue Zhong, James S. Sutcliffe, Nancy J. Cox, Edwin H. Cook Jr., Chun Li, Wei Chen, Bingshan Li
2014 J jnl
A gradient-boosting approach for filtering
Bioinform.
Yongzhuang Liu, Bingshan Li, Renjie Tan, Xiaolin Zhu, Yadong Wang