Chen Li

According to our database, Chen Li authored at least 30 papers between 2008 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

CTISL: a dynamic stacking multi-class classification approach for identifying cell types from single-cell RNA-seq data.

Xiao Wang, Ziyi Chai, Shaohua Li, Yan Liu, Chen Li, Yu Jiang, Quanzhong Liu

Bioinform., February, 2024

2023

iAMPCN: a deep-learning approach for identifying antimicrobial peptides and their functional activities.

Jing Xu, Fuyi Li, Chen Li, Xudong Guo, Cornelia B. Landersdorfer, Hsin-Hui Shen, Anton Y. Peleg, Jian Li, Seiya Imoto, Jianhua Yao, Tatsuya Akutsu, Jiangning Song

Briefings Bioinform., July, 2023

TripletCell: a deep metric learning framework for accurate annotation of cell types at the single-cell level.

Yan Liu, Guo Wei, Chen Li, Long-Chen Shen, Robin B. Gasser, Jiangning Song, Dijun Chen, Dong-Jun Yu

Briefings Bioinform., May, 2023

ATTIC is an integrated approach for predicting A-to-I RNA editing sites in three species.

Ruyi Chen, Fuyi Li, Xudong Guo, Yue Bi, Chen Li, Shirui Pan, Lachlan J. M. Coin, Jiangning Song

Briefings Bioinform., May, 2023

PFresGO: an attention mechanism-based deep-learning approach for protein annotation by integrating gene ontology inter-relationships.

Tong Pan, Chen Li, Yue Bi, Zhikang Wang, Robin B. Gasser, Anthony W. Purcell, Tatsuya Akutsu, Geoffrey I. Webb, Seiya Imoto, Jiangning Song

Bioinform., March, 2023

VPatho: a deep learning-based two-stage approach for accurate prediction of gain-of-function and loss-of-function variants.

Fang Ge, Chen Li, Shahid Iqbal, Muhammad Arif, Fuyi Li, Maha A. Thafar, Zihao Yan, Apilak Worachartcheewan, Xiaofeng Xu, Jiangning Song, Dong-Jun Yu

Briefings Bioinform., January, 2023

Multi-modality data-driven analysis of diagnosis and treatment of psoriatic arthritis.

Jing Xu, Jiarui Ou, Chen Li, Zheng Zhu, Jian Li, Hailun Zhang, Junchen Chen, Bin Yi, Wu Zhu, Weiru Zhang, Guanxiong Zhang, Qian Gao, Yehong Kuang, Jiangning Song, Xiang Chen, Hong Liu

npj Digit. Medicine, 2023

2022

csORF-finder: an effective ensemble learning framework for accurate identification of multi-species coding short open reading frames.

Meng Zhang, Jian Zhao, Chen Li, Fang Ge, Jing Wu, Bin Jiang, Jiangning Song, Xiaofeng Song

Briefings Bioinform., November, 2022

<i>iFeatureOmega: </i> an integrative platform for engineering, visualization and analysis of features from molecular sequences, structural and ligand data sets.

Zhen Chen, Xuhan Liu, Pei Zhao, Chen Li, Yanan Wang, Fuyi Li, Tatsuya Akutsu, Chris Bain, Robin B. Gasser, Junzhou Li, Zuoren Yang, Xin Gao, Lukasz A. Kurgan, Jiangning Song

Nucleic Acids Res., 2022

Critical assessment of computational tools for prokaryotic and eukaryotic promoter prediction.

Meng Zhang, Cangzhi Jia, Fuyi Li, Chen Li, Yan Zhu, Tatsuya Akutsu, Geoffrey I. Webb, Quan Zou, Lachlan J. M. Coin, Jiangning Song

Briefings Bioinform., 2022

PCfun: a hybrid computational framework for systematic characterization of protein complex function.

Varun S. Sharma, Andrea Fossati, Rodolfo Ciuffa, Marija Buljan, Evan G. Williams, Zhen Chen, Wenguang Shao, Patrick G. A. Pedrioli, Anthony W. Purcell, María Rodríguez Martínez, Jiangning Song, Matteo Manica, Ruedi Aebersold, Chen Li

Briefings Bioinform., 2022

Positive-unlabeled learning in bioinformatics and computational biology: a brief review.

Fuyi Li, Shuangyu Dong, André Leier, Meiya Han, Xudong Guo, Jing Xu, Xiaoyu Wang, Shirui Pan, Cangzhi Jia, Yang Zhang, Geoffrey I. Webb, Lachlan J. M. Coin, Chen Li, Jiangning Song

Briefings Bioinform., 2022

Multi-Scale Coarse-to-Fine Transformer for Frame Interpolation.

Chen Li, Li Song, Xueyi Zou, Jiaming Guo, Youliang Yan, Wenjun Zhang

Proceedings of the MM '22: The 30th ACM International Conference on Multimedia, Lisboa, Portugal, October 10, 2022

SimCTC: A Simple Contrast Learning Method of Text Clustering (Student Abstract).

Chen Li, Xiaoguang Yu, Shuangyong Song, Jia Wang, Bo Zou, Xiaodong He

Proceedings of the Thirty-Sixth AAAI Conference on Artificial Intelligence, 2022

2019

SIMLIN: a bioinformatics tool for prediction of S-sulphenylation in the human proteome based on multi-stage ensemble-learning models.

Xiaochuan Wang, Chen Li, Fuyi Li, Varun S. Sharma, Jiangning Song, Geoffrey I. Webb

BMC Bioinform., 2019

Positive-unlabelled learning of glycosylation sites in the human proteome.

Fuyi Li, Yang Zhang, Anthony W. Purcell, Geoffrey I. Webb, Kuo-Chen Chou, Trevor Lithgow, Chen Li, Jiangning Song

BMC Bioinform., 2019

Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods.

Fuyi Li, Yanan Wang, Chen Li, Tatiana T. Marquez-Lago, André Leier, Neil D. Rawlings, Gholamreza Haffari, Jerico Nico De Leon Revote, Tatsuya Akutsu, Kuo-Chen Chou, Anthony W. Purcell, Robert N. Pike, Geoffrey I. Webb, Alexander Ian Smith, Trevor Lithgow, Roger J. Daly, James C. Whisstock, Jiangning Song

Briefings Bioinform., 2019

Large-scale comparative assessment of computational predictors for lysine post-translational modification sites.

Zhen Chen, Xuhan Liu, Fuyi Li, Chen Li, Tatiana T. Marquez-Lago, André Leier, Tatsuya Akutsu, Geoffrey I. Webb, Dakang Xu, Alexander Ian Smith, Lei Li, Kuo-Chen Chou, Jiangning Song

Briefings Bioinform., 2019

2018

ProBAPred: Inferring protein-protein binding affinity by incorporating protein sequence and structural features.

Bangli Lu, Chen Li, Qingfeng Chen, Jiangning Song

J. Bioinform. Comput. Biol., 2018

Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome.

Fuyi Li, Chen Li, Tatiana T. Marquez-Lago, André Leier, Tatsuya Akutsu, Anthony W. Purcell, Alexander Ian Smith, Trevor Lithgow, Roger J. Daly, Jiangning Song, Kuo-Chen Chou

Bioinform., 2018

Comprehensive assessment and performance improvement of effector protein predictors for bacterial secretion systems III, IV and VI.

Yi An, Jiawei Wang, Chen Li, André Leier, Tatiana T. Marquez-Lago, Jonathan Wilksch, Yang Zhang, Geoffrey I. Webb, Jiangning Song, Trevor Lithgow

Briefings Bioinform., 2018

2016

PolyQ 2.0: an improved version of PolyQ, a database of human polyglutamine proteins.

Chen Li, Jeremy Nagel, Steve G. Androulakis, Jiangning Song, Ashley M. Buckle

Database J. Biol. Databases Curation, 2016

PolyQ 2.0: an improved version of PolyQ, a database of human polyglutamine proteins.

Chen Li, Jeremy Nagel, Steve G. Androulakis, Christopher J. Lupton, Jiangning Song, Ashley M. Buckle

Database J. Biol. Databases Curation, 2016

KinetochoreDB: a comprehensive online resource for the kinetochore and its related proteins.

Chen Li, Steve G. Androulakis, Ashley M. Buckle, Jiangning Song

Database J. Biol. Databases Curation, 2016

Critical evaluation of <i>in silico</i> methods for prediction of coiled-coil domains in proteins.

Chen Li, Catherine Ching Han Chang, Jeremy Nagel, Benjamin T. Porebski, Morihiro Hayashida, Tatsuya Akutsu, Jiangning Song, Ashley M. Buckle

Briefings Bioinform., 2016

2015

GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome.

Fuyi Li, Chen Li, Mingjun Wang, Geoffrey I. Webb, Yang Zhang, James C. Whisstock, Jiangning Song

Bioinform., 2015

2014

Towards Positive Unlabeled Learning for Parallel Data Mining: A Random Forest Framework.

Chen Li, Xue-Liang Hua

Proceedings of the Advanced Data Mining and Applications - 10th International Conference, 2014

2013

Learning from data streams with only positive and unlabeled data.

Xiangju Qin, Yang Zhang, Chen Li, Xue Li

J. Intell. Inf. Syst., 2013

2009

OcVFDT: one-class very fast decision tree for one-class classification of data streams.

Chen Li, Yang Zhang, Xue Li

Proceedings of the Third International Workshop on Knowledge Discovery from Sensor Data, 2009

2008

Bagging One-Class Decision Trees.

Chen Li, Yang Zhang

Proceedings of the Fifth International Conference on Fuzzy Systems and Knowledge Discovery, 2008