OmniExtract is a data extraction tool using LLM and prompt engineering that achieves high accuracy in extracting structured information from text and tables.

Briefings in Bioinformatics · Sep 1, 2026Peer-reviewedBioinformatics

Dingent: An Easily Deployable Database Retrieval and Integration Agent framework

Demian Kong, Shaoqi Bei, Yueyue Wu, Bixia Tang, Wenming Zhao

Dingent is a configurable agent framework that enables data retrieval from various sources using natural language and provides a web interface, demonstrated across three application scenarios.

bioRxiv · Mar 20, 2026 · PreprintBioinformatics

Lineage-associated Human Divergently-Paired Genes (DPGs) Exhibit Regulatory Characteristics and Evolutionary Trends

Guangya Duan, Sisi Zhang, Bixia Tang, Jingfa Xiao, Zhang Zhang, Peng Cui, Jun Yu, Wenming Zhao

The paper identifies human divergently-paired genes (DPGs) and analyzes their conservation, regulatory features, and evolutionary patterns across vertebrate lineages.

bioRxiv · Dec 10, 2024 · PreprintGenomics

Classification of dog breeds using convolutional neural network models and support vector machine

Ying Cui, Bixia Tang, Gangao Wu, Lun Li, Xin Zhang, Zhenglin Du, Wenming Zhao

This study improves dog breed classification accuracy using a combination of CNN features, PCA, GWO, and SVM, achieving 95.24% and 99.34% accuracy for 120 and 76 breeds respectively.

Bioengineering · Nov 17, 2024Peer-reviewedBioinformatics

OBIA: An Open Biomedical Imaging Archive

Enhui Jin, Dongli Zhao, Gangao Wu, Junwei Zhu, Zhonghuang Wang, Zhiyao Wei, Sisi Zhang, Anke Wang, Bixia Tang, Xu Chen, Yanling Sun, Zhe Zhang, Wenming Zhao, Yuanguang Meng

OBIA is a biomedical imaging archive that stores and provides access to imaging and clinical data from 937 individuals across multiple modalities and anatomical sites.

Genomics Proteomics & Bioinformatics · Oct 1, 2023Peer-reviewedBioinformatics

Coronavirus GenBrowser for monitoring the transmission and evolution of SARS-CoV-2

Dalang Yu, Xiao Yi Yang, Bixia Tang, Yi-Hsuan Pan, Jianing Yang, Guangya Duan, Junwei Zhu, Zi-Qian Hao, Hailong Mu, Long Dai, Wangjie Hu, Mochen Zhang, Ying Cui, Tong Jin, Cuiping Li, , Haipeng Li

The paper introduces Coronavirus GenBrowser (CGB), a tool for analyzing and visualizing SARS-CoV-2 genomic sequences to study transmission and evolution.

Briefings in Bioinformatics · Dec 21, 2021Peer-reviewedGenetic & Genomic Medicine

The Genome Sequence Archive Family: Towards Explosive Data Growth and Diverse Data Types

Tingting Chen, Xu Chen, Sisi Zhang, Junwei Zhu, Bixia Tang, Anke Wang, Lili Dong, Zhewen Zhang, Caixia Yu, Yanling Sun, Lianjiang Chi, Huanxin Chen, Shuang Zhai, Yubin Sun, Lan Li, , Wenming Zhao

The paper introduces the GSA family of repositories to manage explosive growth and diverse data types in genomic data archiving.

Genomics Proteomics & Bioinformatics · Aug 1, 2021Peer-reviewedBioinformatics

Delta integrates 3D physical structure with topology and genomic data of chromosomes

Bixia Tang, Feifei Li, Jing Li, Wenming Zhao, Zhihua Zhang

Delta integrates 3D chromosomal structure with genomic data to visualize and analyze regulatory networks, revealing insights into gene regulation through a case study on the beta-globin region.

Bioinformatics · Dec 14, 2017Peer-reviewedBioinformatics