Submitted publications:
- Multi-omics integration of gut microbiota, single-cell transcriptomics, and genetic associations reveals host–microbe interactions in hypertension, Wenkai Lai
- The Application of Wearable Technology, Big Data, and Artificial Intelligence in Chronic Disease Prevention and Treatment, Qing Liu
- Sex-Specific Gut Microbiota-Metabolite Interactions in Autism Spectrum Disorder: Dysbiosis, Metabolic Disruptions, and Niche Competition Dynamics, Shirong Lai
- Integrating Metagenomic Metabolic Simulation and Single-Cell Transcriptomics Reveals Metabolic Remodeling and Cell-Specific Regulatory Mechanisms of the ”Microbiota-Gut-Brain” Axis in Alzheimer’s Disease， Shirong Lai
- Context-aware and explainable wearable sleep staging from Apple Watch signals with external PSG stress testing， Zhengru Xie
- Enhancing Generalization in Retinal Vessel Segmentation: A Transfer Learning Framework with Robust Domain Calibration and Clinical Web Integration，Junli Ma
- EEG-Mamba-S: A Lightweight State-Space Model for Few-Channel Wearable Seizure Prediction, Junli Ma
- An SE-DenseNet121 Framework for Chest X-ray Pneumonia Detection, Mohan Lin
Peer-reviewed publications:
2026
Lai, W.†, Zhang, Y.†, Huang, S., Lai, S., Lin, F., Wang, Z., Sun, S., & Yang, F.* (2026). The FERM guild: a differentially correlated microbial module drives hypertension via metabolic flux perturbations. mSystems, e0035826. Advance online publication. https://doi.org/10.1128/msystems.00358-26
Zhongyue L†, Yi L†, Qing L, Zhengru X, Fenglong Y*. Deep learning for sleep quality assessment: a CNN-based approach outperforming traditional algorithms in wearable accelerometer data analysis. Sleep Research. 2026;1-7. https://doi.org/10.1002/slp2.70048
Huang, Y.†, Liu, Q.†, Xie, Z., Ding, B.*, Wang, Z.*, & Fenglong Y*. (2026). Graph-Enhanced Medical Question-Answering System Integrating Knowledge Graphs and Large Language Models. Journal of Artificial Intelligence for Medical Sciences, 7(1-4), 1-12. https://doi.org/10.55578/joaims.260408.001
Yuchen Zhang†, Wenkai Lai†, Meiling Wang, Shirong Lai, Qing Liu, Qi Luo, Zheng Chen*, Da Zhao*, Ziwei Wang*, and Fenglong Yang*, Gut Microbial Metabolic Disorder in Depression: Insights from Computational Modeling and Mediation Analysis, BMC Microbiology 26, 494 (2026). https://doi.org/10.1186/s12866-026-04991-z
2025
- Meiling Wang†, Zhaoqi Song†, Qing Liu, Furong Tang*, Ziwei Wang*, Fenglong Yang*,DeepALM: A Context-Aware Deep Learning Framework for Antimicrobial Peptide Prediction, Current Bioinformatics
2024
Baixue Qiao, Shuda Wang, Mingjun Hou, Haodi Chen, Zhengwenyang Zhou, Xueying Xie, Shaozi Pang, Chunxue Yang*, Fenglong Yang*, Quan Zou*, Shanwen Sun*, Identifying nucleotide-binding leucine-rich repeat receptor and pathogen effector pairing using transfer-learning and bilinear attention network, Bioinformatics, 2024, btae581 (WebServer)
Lei Ji, Xiaoyu Chang, Leilei Wang, Xiaowen Fu, Wenkai Lai, Liwen Zheng, Qi Li, Yingna Xing, Zhongfeng Yang, Yuyao Guan*, Fenglong Yang*, Insights into the biodegradation of pentachlorobiphenyl by Microbacterium paraoxydans: proteomic and metabolomic studies, Frontiers in Microbiology Volume 15, June 2024 【中科院二区，Google Scholar citations: 0 times】
Meiling Wang†, Zhaoqi Song†, Shirong Lai, Furong Tang, Lijun Dou*, Fenglong Yang*, Depression-associated gut microbes, metabolites and clinical trials, Frontiers in Microbiology, Volume 15, January 2024 【中科院二区，Google Scholar citations: 8 times】
2023
Haoran Sun†, Zhaoqi Song†, Qiuming Chen, Meiling Wang, Furong Tang, Lijun Dou, Quan Zou*, Fenglong Yang*, MMiKG: a knowledge graph-based platform for path mining of microbiota–mental diseases interactions, Briefings in Bioinformatics, Volume 24, Issue 6, November 2023, bbad340(WebServer) 【中科院一区，Google Scholar citations: 6 times】
Juntao Chen, Jiannan Chao, Huan Liu, Fenglong Yang, Quan Zou, Furong Tang, WMSA 2: a multiple DNA/RNA sequence alignment tool implemented with accurate progressive mode and a fast win-win mode combining the center star and progressive strategies, Briefings in Bioinformatics, Volume 24, Issue 4, July 2023, bbad190
Wang, Z.†, Gao, J.†, Kan, H., Huang, Y., Tang, F., Li, W.*, & Yang, F*.(2023). ResNet for Histopathologic Cancer Detection, the Deeper, the Better?. Journal of Data Science and Intelligent Systems 【Google Scholar citations: 11 times】
2022
- Furong Tang, Jiannan Chao, Yanming Wei, Fenglong Yang, Yixiao Zhai, Lei Xu, Quan Zou, HAlign 3: Fast Multiple Alignment of Ultra-Large Numbers of Similar DNA/RNA Sequences, Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac166
2021
Fenglong Yang, Quan Zou, DisBalance: a platform to automatically build balance-based disease prediction models and discover microbial biomarkers from microbiome data, Briefings in Bioinformatics, Volume 22, Issue 5, September 2021, bbab094 【中科院一区，Google Scholar citations: 15 times】
Fenglong Yang, Quan Zou, Bo Gao, GutBalance: a server for the human gut microbiome-based disease prediction and biomarker discovery with compositionality addressed, Briefings in Bioinformatics, Volume 22, Issue 5, September 2021, bbaa436 【中科院一区，Google Scholar citations: 19 times】
Lijun Dou†, Fenglong Yang†, Lei Xu, Quan Zou, A comprehensive review of the imbalance classification of protein post-translational modifications, Briefings in Bioinformatics, Volume 22, Issue 5, September 2021, bbab089 【中科院一区，Google Scholar citations: 36 times】
2020
- Fenglong Yang, Quan Zou, mAML: an automated machine learning pipeline with a microbiome repository for human disease classification, Database, Volume 2020, 2020, baaa050 【2020年中科院一区，Google Scholar citations: 31 times】