Min Li

Affiliations:
  • Central South University, School of Information Science and Engineering, Changsha, China


According to our database1, Min Li authored at least 159 papers between 2008 and 2022.

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Bibliography

2022
NIMCE: A Gene Regulatory Network Inference Approach Based on Multi Time Delays Causal Entropy.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Guest editorial: Deep neural networks for precision medicine.
Neurocomputing, 2022

BACPI: a bi-directional attention neural network for compound-protein interaction and binding affinity prediction.
Bioinform., 2022

DeepDISOBind: accurate prediction of RNA-, DNA- and protein-binding intrinsically disordered residues with deep multi-task learning.
Briefings Bioinform., 2022

DeepLncLoc: a deep learning framework for long non-coding RNA subcellular localization prediction based on subsequence embedding.
Briefings Bioinform., 2022

Biomedical data, computational methods and tools for evaluating disease-disease associations.
Briefings Bioinform., 2022

2021
Deep Matrix Factorization Improves Prediction of Human CircRNA-Disease Associations.
IEEE J. Biomed. Health Informatics, 2021

An Ensemble Method to Reconstruct Gene Regulatory Networks Based on Multivariate Adaptive Regression Splines.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Deep Learning Framework for Gene Ontology Annotations With Sequence- and Network-Based Information.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

Deletion Detection Method Using the Distribution of Insert Size and a Precise Alignment Strategy.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

DMFLDA: A Deep Learning Framework for Predicting lncRNA-Disease Associations.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Deep Learning Framework for Identifying Essential Proteins by Integrating Multiple Types of Biological Information.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Novel Drug Repositioning Approach Based on Collaborative Metric Learning.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

EPGA-SC : A Framework for de novo Assembly of Single-Cell Sequencing Reads.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

FUNMarker: Fusion Network-Based Method to Identify Prognostic and Heterogeneous Breast Cancer Biomarkers.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

DeepDSC: A Deep Learning Method to Predict Drug Sensitivity of Cancer Cell Lines.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

Essential Protein Prediction Based on node2vec and XGBoost.
J. Comput. Biol., 2021

DeepPPF: A deep learning framework for predicting protein family.
Neurocomputing, 2021

SSRE: Cell Type Detection Based on Sparse Subspace Representation and Similarity Enhancement.
Genom. Proteom. Bioinform., 2021

Improving circRNA-disease association prediction by sequence and ontology representations with convolutional and recurrent neural networks.
Bioinform., 2021

NIDM: network impulsive dynamics on multiplex biological network for disease-gene prediction.
Briefings Bioinform., 2021

DeepDTAF: a deep learning method to predict protein-ligand binding affinity.
Briefings Bioinform., 2021

Biomedical data and computational models for drug repositioning: a comprehensive review.
Briefings Bioinform., 2021

Key residues influencing binding affinities of 2019-nCoV with ACE2 in different species.
Briefings Bioinform., 2021

2020
Predicting Human lncRNA-Disease Associations Based on Geometric Matrix Completion.
IEEE J. Biomed. Health Informatics, 2020

miRTMC: A miRNA Target Prediction Method Based on Matrix Completion Algorithm.
IEEE J. Biomed. Health Informatics, 2020

MEC: Misassembly Error Correction in Contigs based on Distribution of Paired-End Reads and Statistics of GC-contents.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

GapReduce: A Gap Filling Algorithm Based on Partitioned Read Sets.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

An Efficient Trimming Algorithm based on Multi-Feature Fusion Scoring Model for NGS Data.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Improving de novo Assembly Based on Read Classification.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Identification of Protein Complexes by Using a Spatial and Temporal Active Protein Interaction Network.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

United Neighborhood Closeness Centrality and Orthology for Predicting Essential Proteins.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

miRTRS: A Recommendation Algorithm for Predicting miRNA Targets.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

NEDD: a network embedding based method for predicting drug-disease associations.
BMC Bioinform., 2020

MADA: a web service for analysing DNA methylation array data.
BMC Bioinform., 2020

DeepFrag-k: a fragment-based deep learning approach for protein fold recognition.
BMC Bioinform., 2020

Protein-protein interaction site prediction through combining local and global features with deep neural networks.
Bioinform., 2020

Network-based methods for predicting essential genes or proteins: a survey.
Briefings Bioinform., 2020

SPOC: Identification of Drug Targets in Biological Networks via Set Preference Output Control.
Proceedings of the Bioinformatics Research and Applications - 16th International Symposium, 2020

A robust single cell clustering method based on subspace learning and partial imputation.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

A topological AUC-based biomarker ensemble method for the complex disease analysis.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

2019
MGT-SM: A Method for Constructing Cellular Signal Transduction Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019

A Novel Scaffolding Algorithm Based on Contig Error Correction and Path Extension.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Construction of Refined Protein Interaction Network for Predicting Essential Proteins.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Automated ICD-9 Coding via A Deep Learning Approach.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Current challenges and solutions of de novo assembly.
Quant. Biol., 2019

Correlation Analysis of Mental Health Status and Sleep Quality in Helicobacter pylori Positive Patients.
J. Medical Imaging Health Informatics, 2019

Controllability and Its Applications to Biological Networks.
J. Comput. Sci. Technol., 2019

Decoding the Structural Keywords in Protein Structure Universe.
J. Comput. Sci. Technol., 2019

Automatic ICD code assignment of Chinese clinical notes based on multilayer attention BiRNN.
J. Biomed. Informatics, 2019

Automatic ICD-9 coding via deep transfer learning.
Neurocomputing, 2019

Deep learning for biological/clinical data.
Neurocomputing, 2019

DeepEP: a deep learning framework for identifying essential proteins.
BMC Bioinform., 2019

SinNLRR: a robust subspace clustering method for cell type detection by non-negative and low-rank representation.
Bioinform., 2019

BiXGBoost: a scalable, flexible boosting-based method for reconstructing gene regulatory networks.
Bioinform., 2019

SCOP: a novel scaffolding algorithm based on contig classification and optimization.
Bioinform., 2019

Clinical big data and deep learning: Applications, challenges, and future outlooks.
Big Data Min. Anal., 2019

Control principles for complex biological networks.
Briefings Bioinform., 2019

Identification of Prognostic and Heterogeneous Breast Cancer Biomarkers Based on Fusion Network and Multiple Scoring Strategies.
Proceedings of the Intelligent Computing Theories and Application, 2019

LncRNA-disease association prediction through combining linear and non-linear features with matrix factorization and deep learning techniques.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Tentative diagnosis prediction via deep understanding of patient narratives.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Detecting protein complex based on hierarchical compressing network embedding.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

HNEDTI: Prediction of drug-target interaction based on heterogeneous network embedding.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

DualRank: multiplex network-based dual ranking for heterogeneous complex disease analysis.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Classification of Schizophrenia by Iterative Random Forest Feature Selection Based on DNA Methylation Array Data.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

DoRC: Discovery of rare cells from ultra-large scRNA-seq data.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

2018
Classification of Alzheimer's Disease Using Whole Brain Hierarchical Network.
IEEE ACM Trans. Comput. Biol. Bioinform., 2018

Predicting MicroRNA-Disease Associations Based on Improved MicroRNA and Disease Similarities.
IEEE ACM Trans. Comput. Biol. Bioinform., 2018

Biomolecular Networks for Complex Diseases.
Complex., 2018

CytoCtrlAnalyser: a Cytoscape app for biomolecular network controllability analysis.
Bioinform., 2018

Computational drug repositioning using low-rank matrix approximation and randomized algorithms.
Bioinform., 2018

Prediction of lncRNA-disease associations based on inductive matrix completion.
Bioinform., 2018

DyNetViewer: a Cytoscape app for dynamic network construction, analysis and visualization.
Bioinform., 2018

A survey of matrix completion methods for recommendation systems.
Big Data Min. Anal., 2018

Applications of deep learning to MRI images: A survey.
Big Data Min. Anal., 2018

Multi-scale Deep Convolutional Neural Network for Stroke Lesions Segmentation on CT Images.
Proceedings of the Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries, 2018

PBMarsNet: A Multivariate Adaptive Regression Splines Based Method to Reconstruct Gene Regulatory Networks.
Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018

Sprites2: Detection of Deletions Based on an Accurate Alignment Strategy.
Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018

Using Deep Neural Network to Predict Drug Sensitivity of Cancer Cell Lines.
Proceedings of the Intelligent Computing Theories and Application, 2018

A Deep Learning Framework for Identifying Essential Proteins Based on Protein-Protein Interaction Network and Gene Expression Data.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Disease Inference with Symptom Extraction and Bidirectional Recurrent Neural Network.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

2017
Protein Inference from the Integration of Tandem MS Data and Interactome Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2017

Predicting Protein Functions by Using Unbalanced Random Walk Algorithm on Three Biological Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2017

United Complex Centrality for Identification of Essential Proteins from PPI Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2017

ISEA: Iterative Seed-Extension Algorithm for De Novo Assembly Using Paired-End Information and Insert Size Distribution.
IEEE ACM Trans. Comput. Biol. Bioinform., 2017

Complex Brain Network Analysis and Its Applications to Brain Disorders: A Survey.
Complex., 2017

PECC: Correcting contigs based on paired-end read distribution.
Comput. Biol. Chem., 2017

VAliBS: a visual aligner for bisulfite sequences.
BMC Bioinform., 2017

BOSS: a novel scaffolding algorithm based on an optimized scaffold graph.
Bioinform., 2017

LDAP: a web server for lncRNA-disease association prediction.
Bioinform., 2017

Relating Diseases Based on Disease Module Theory.
Proceedings of the Bioinformatics Research and Applications - 13th International Symposium, 2017

Construction of Protein Backbone Fragments Libraries on Large Protein Sets Using a Randomized Spectral Clustering Algorithm.
Proceedings of the Bioinformatics Research and Applications - 13th International Symposium, 2017

LSLS: A Novel Scaffolding Method Based on Path Extension.
Proceedings of the Intelligent Computing Theories and Application, 2017

MEC: Misassembly error correction in contigs using a combination of paired-end reads and GC-contents.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

An interpretable model for predicting side effects of analgesics for osteoarthritis.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

2016
HybridDock: A Hybrid Protein-Ligand Docking Protocol Integrating Protein- and Ligand-Based Approaches.
J. Chem. Inf. Model., 2016

Predicting drug-target interaction using positive-unlabeled learning.
Neurocomputing, 2016

FLEXc: protein flexibility prediction using context-based statistics, predicted structural features, and sequence information.
BMC Bioinform., 2016

Predicting essential proteins based on subcellular localization, orthology and PPI networks.
BMC Bioinform., 2016

C-DEVA: Detection, evaluation, visualization and annotation of clusters from biological networks.
Biosyst., 2016

Drug repositioning based on comprehensive similarity measures and Bi-Random walk algorithm.
Bioinform., 2016

Identifying Essential Proteins by Purifying Protein Interaction Networks.
Proceedings of the Bioinformatics Research and Applications - 12th International Symposium, 2016

The MSS of complex networks with centrality based preference and its application to biomolecular networks.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Construction of the spatial and temporal active protein interaction network for identifying protein complexes.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Predicting microRNA-environmental factor interactions based on bi-random walk and multi-label learning.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

An Apache Spark Implementation of Block Power Method for Computing Dominant Eigenvalues and Eigenvectors of Large-Scale Matrices.
Proceedings of the 2016 IEEE International Conferences on Big Data and Cloud Computing (BDCloud), 2016

2015
ClusterViz: A Cytoscape APP for Cluster Analysis of Biological Network.
IEEE ACM Trans. Comput. Biol. Bioinform., 2015

A Topology Potential-Based Method for Identifying Essential Proteins from PPI Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2015

Discovering essential proteins based on PPI network and protein complex.
Int. J. Data Min. Bioinform., 2015

Identifying protein complexes based on the integration of PPI network and gene expression data.
Int. J. Bioinform. Res. Appl., 2015

Proteins involved in more domain types tend to be more essential.
Int. J. Bioinform. Res. Appl., 2015

Re-alignment of the unmapped reads with base quality score.
BMC Bioinform., 2015

CytoNCA: A cytoscape plugin for centrality analysis and evaluation of protein interaction networks.
Biosyst., 2015

EPGA: <i>de novo</i> assembly using the distributions of reads and insert size.
Bioinform., 2015

EPGA2: memory-efficient <i>de novo</i> assembler.
Bioinform., 2015

Predicting microRNA-disease associations by integrating multiple biological information.
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015

A two-step logistic regression algorithm for identifying individual-cancer-related genes.
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015

2014
Detecting Protein Complexes Basedon Uncertain Graph Model.
IEEE ACM Trans. Comput. Biol. Bioinform., 2014

Improving protein function prediction using domain and protein complexes in PPI networks.
BMC Syst. Biol., 2014

Prediction of disease genes using tissue-specified gene-gene network.
BMC Syst. Biol., 2014

Drug Target Identification Based on Structural Output Controllability of Complex Networks.
Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

Identification of Essential Proteins by Using Complexes and Interaction Network.
Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

Searching SNP Combinations Related to Evolutionary Information of Human Populations on HapMap Data.
Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

A logistic regression based algorithm for identifying human disease genes.
Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

2013
Identification of Essential proteins from Weighted protein-protein Interaction Networks.
J. Bioinform. Comput. Biol., 2013

An effective method for refining predicted protein complexes based on protein activity and the mechanism of protein complex formation.
BMC Syst. Biol., 2013

Identifying protein complexes based on density and modularity in protein-protein interaction network.
BMC Syst. Biol., 2013

A novel algorithm for mining protein complex from the weighted network.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

A clustering algorithm for identifying hierarchical and overlapping protein complexes in large PPI networks.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

A new method for predicting essential proteins based on topology potential.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Identifying dynamic protein complexes based on gene expression profiles and PPI networks.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Prioritization of candidate genes based on disease similarity and protein's proximity in PPI networks.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

2012
Identification of Essential Proteins Based on Edge Clustering Coefficient.
IEEE ACM Trans. Comput. Biol. Bioinform., 2012

A new essential protein discovery method based on the integration of protein-protein interaction and gene expression data.
BMC Syst. Biol., 2012

Towards the identification of protein complexes and functional modules by integrating PPI network and gene expression data.
BMC Bioinform., 2012

Sparse kernel logistic regression for β-turns prediction.
Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

Identifying protein complexes based on local fitness method.
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine, 2012

2011
A Fast Hierarchical Clustering Algorithm for Functional Modules Discovery in Protein Interaction Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2011

A local average connectivity-based method for identifying essential proteins from the network level.
Comput. Biol. Chem., 2011

Integration of breast cancer gene signatures based on graph centrality.
BMC Syst. Biol., 2011

Biological network motif detection and evaluation.
BMC Syst. Biol., 2011

A comparison of the functional modules identified from time course and static PPI network data.
BMC Bioinform., 2011

A New Method for Identifying Essential Proteins Based on Edge Clustering Coefficient.
Proceedings of the Bioinformatics Research and Applications - 7th International Symposium, 2011

Prediction of Essential Proteins by Integration of PPI Network Topology and Protein Complexes Information.
Proceedings of the Bioinformatics Research and Applications - 7th International Symposium, 2011

Active Protein Interaction Network and Its Application on Protein Complex Detection.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

A New Measurement for Evaluating Clusters in Protein Interaction Networks.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

Essential Protein Discovery Based on Network Motif and Gene Ontology.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

2010
Identifying the overlapping complexes in protein interaction networks.
Int. J. Data Min. Bioinform., 2010

An Agglomerate Algorithm for Mining Overlapping and Hierarchical Functional Modules in Protein Interaction Networks.
Proceedings of the Bioinformatics Research and Applications, 6th International Symposium, 2010

Essential Proteins Discovery from Weighted Protein Interaction Networks.
Proceedings of the Bioinformatics Research and Applications, 6th International Symposium, 2010

2009
Hierarchical Organization of Functional Modules in Weighted Protein Interaction Networks Using Clustering Coefficient.
Proceedings of the Bioinformatics Research and Applications, 5th International Symposium, 2009

GO Semantic Similarity-Based False Positive Reduction of Protein-Protein Interactions.
Proceedings of the International Joint Conferences on Bioinformatics, 2009

GO Semantic Similarity Based Analysis for Huaman Protein Interactions.
Proceedings of the International Joint Conferences on Bioinformatics, 2009

2008
Modifying the DPClus algorithm for identifying protein complexes based on new topological structures.
BMC Bioinform., 2008

A Graph-Theoretic Method for Mining Overlapping Functional Modules in Protein Interaction Networks.
Proceedings of the Bioinformatics Research and Applications, 2008

Greedily Mining l-dense Subgraphs in Protein Interaction Networks.
Proceedings of the 9th International Conference for Young Computer Scientists, 2008

An Improved Method Based on Maximal Clique for Predicting Interactions in Protein Interaction Networks.
Proceedings of the 2008 International Conference on BioMedical Engineering and Informatics, 2008

A Fast Agglomerate Algorithm for Mining Functional Modules in Protein Interaction Networks.
Proceedings of the 2008 International Conference on BioMedical Engineering and Informatics, 2008


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