Fang-Xiang Wu

Proceedings of the Bioinformatics Research and Applications - 20th International Symposium, 2024

Deciphering Bladder Cancer-Related circRNA Biomarkers: An Ensemble Model Integrating Deep Learning and Statistics for circRNA Analysis.

[BibT_eX]

[DOI]

Yulian Ding

Yi Pan

Ronald C. Geyer

Franco J. Vizeacoumar

Frederick S. Vizeacoumar

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

QLABGrad: A Hyperparameter-Free and Convergence-Guaranteed Scheme for Deep Learning.

[BibT_eX]

[DOI]

Minghan Fu

Proceedings of the Thirty-Eighth AAAI Conference on Artificial Intelligence, 2024

2023

invMap: a sensitive mapping tool for long noisy reads with inversion structural variants.

[BibT_eX]

[DOI]

Bioinform., December, 2023

Identify potential circRNA-disease associations through a multi-objective evolutionary algorithm.

[BibT_eX]

[DOI]

Inf. Sci., November, 2023

Sparse2Noise: Low-dose synchrotron X-ray tomography without high-quality reference data.

[BibT_eX]

[DOI]

Comput. Biol. Medicine, October, 2023

A multi-modal deep neural network for multi-class liver cancer diagnosis.

[BibT_eX]

[DOI]

Neural Networks, August, 2023

A Two-Branch Neural Network for Short-Axis PET Image Quality Enhancement.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, June, 2023

Multi-level GAN based enhanced CT scans for liver cancer diagnosis.

[BibT_eX]

[DOI]

Biomed. Signal Process. Control., March, 2023

CLAIRE: contrastive learning-based batch correction framework for better balance between batch mixing and preservation of cellular heterogeneity.

[BibT_eX]

[DOI]

Bioinform., March, 2023

DeepCellEss: cell line-specific essential protein prediction with attention-based interpretable deep learning.

[BibT_eX]

[DOI]

Bioinform., January, 2023

NMTF-DTI: A Nonnegative Matrix Tri-factorization Approach With Multiple Kernel Fusion for Drug-Target Interaction Prediction.

[BibT_eX]

[DOI]

Ali Akbar Jamali

IEEE ACM Trans. Comput. Biol. Bioinform., 2023

Biomarker Identification via a Factorization Machine-Based Neural Network With Binary Pairwise Encoding.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2023

QLAB: Quadratic Loss Approximation-Based Optimal Learning Rate for Deep Learning.

[BibT_eX]

[DOI]

Minghan Fu

Swaroop Adrashyappanamath

CoRR, 2023

MIPI 2023 Challenge on Nighttime Flare Removal: Methods and Results.

[BibT_eX]

[DOI]

Allabakash Ghodesawar

Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, 2023

Prediction of piRNA-mRNA interactions based on an interactive inference network.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

Imputing single-cell RNA-seq data by graph autoencoder with multi-kernel.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

2022

Temporal-Spatial Analysis of the Essentiality of Hub Proteins in Protein-Protein Interaction Networks.

[BibT_eX]

[DOI]

IEEE Trans. Netw. Sci. Eng., 2022

Predicting miRNA-Disease Associations Based On Multi-View Variational Graph Auto-Encoder With Matrix Factorization.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2022

Predicting Drug-Drug Interactions Based on Integrated Similarity and Semi-Supervised Learning.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Identifying Gene Signatures for Cancer Drug Repositioning Based on Sample Clustering.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

DPCMNE: Detecting Protein Complexes From Protein-Protein Interaction Networks Via Multi-Level Network Embedding.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

An Ensemble Hybrid Feature Selection Method for Neuropsychiatric Disorder Classification.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

A Dual Ranking Algorithm Based on the Multiplex Network for Heterogeneous Complex Disease Analysis.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

NIMCE: A Gene Regulatory Network Inference Approach Based on Multi Time Delays Causal Entropy.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Drug-Target Interaction Prediction Using Multi-Head Self-Attention and Graph Attention Network.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Corrigendum to "Deep learning for brain disorder diagnosis based on fMRI images" [Neurocomputing 469 (2022) 332-345].

[BibT_eX]

[DOI]

Neurocomputing, 2022

A semi-supervised autoencoder for autism disease diagnosis.

[BibT_eX]

[DOI]

Neurocomputing, 2022

Deep learning for brain disorder diagnosis based on fMRI images.

[BibT_eX]

[DOI]

Neurocomputing, 2022

KAICD: A knowledge attention-based deep learning framework for automatic ICD coding.

[BibT_eX]

[DOI]

Neurocomputing, 2022

Guest editorial: Deep neural networks for precision medicine.

[BibT_eX]

[DOI]

Neurocomputing, 2022

Machine learning based liver disease diagnosis: A systematic review.

[BibT_eX]

[DOI]

Neurocomputing, 2022

Multi-scale GAN with residual image learning for removing heterogeneous blur.

[BibT_eX]

[DOI]

IET Image Process., 2022

CircR2Disease v2.0: An Updated Web Server for Experimentally Validated circRNA-disease Associations and Its Application.

[BibT_eX]

[DOI]

Genom. Proteom. Bioinform., 2022

PDMDA: predicting deep-level miRNA-disease associations with graph neural networks and sequence features.

[BibT_eX]

[DOI]

Bioinform., 2022

ACP_MS: prediction of anticancer peptides based on feature extraction.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

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

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

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

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

HyMM: hybrid method for disease-gene prediction by integrating multiscale module structure.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

Predicting drug-drug interactions by graph convolutional network with multi-kernel.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

An integrated brain-specific network identifies genes associated with neuropathologic and clinical traits of Alzheimer's disease.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

MLRDFM: a multi-view Laplacian regularized DeepFM model for predicting miRNA-disease associations.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

RMS-UNet: Residual multi-scale UNet for liver and lesion segmentation.

[BibT_eX]

[DOI]

Artif. Intell. Medicine, 2022

Chinese clinical named entity recognition via multi-head self-attention based BiLSTM-CRF.

[BibT_eX]

[DOI]

Artif. Intell. Medicine, 2022

A Deep Neural Network for Cervical Cell Classification Based on Cytology Images.

[BibT_eX]

[DOI]

IEEE Access, 2022

EMDS: predicting essential miRNAs based on deep learning and sequences.

[BibT_eX]

[DOI]

Cheng Yan

Guihua Duan

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

Unseen Epitope-TCR Interaction Prediction based on Amino Acid Physicochemical Properties.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

Prediction of exosomal piRNAs based on deep learning for sequence embedding with attention mechanism.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

BayesImpute: a Bayesian imputation method for single-cell RNA-seq data.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

2021

Predicting disease-associated genes: Computational methods, databases, and evaluations.

[BibT_eX]

[DOI]

WIREs Data Mining Knowl. Discov., 2021

Human Protein Complex-Based Drug Signatures for Personalized Cancer Medicine.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2021

Deep Matrix Factorization Improves Prediction of Human CircRNA-Disease Associations.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2021

scASK: A Novel Ensemble Framework for Classifying Cell Types Based on Single-cell RNA-seq Data.

[BibT_eX]

[DOI]

Bo Liu

Xiufen Zou

IEEE J. Biomed. Health Informatics, 2021

An Ensemble Method to Reconstruct Gene Regulatory Networks Based on Multivariate Adaptive Regression Splines.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Deep Learning Framework for Gene Ontology Annotations With Sequence- and Network-Based Information.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

Deletion Detection Method Using the Distribution of Insert Size and a Precise Alignment Strategy.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

DMFLDA: A Deep Learning Framework for Predicting lncRNA-Disease Associations.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Deep Learning Framework for Identifying Essential Proteins by Integrating Multiple Types of Biological Information.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

MCHMDA: Predicting Microbe-Disease Associations Based on Similarities and Low-Rank Matrix Completion.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Gene Rank Based Approach for Single Cell Similarity Assessment and Clustering.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

A Novel Drug Repositioning Approach Based on Collaborative Metric Learning.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

EPGA-SC : A Framework for de novo Assembly of Single-Cell Sequencing Reads.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

FUNMarker: Fusion Network-Based Method to Identify Prognostic and Heterogeneous Breast Cancer Biomarkers.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

DeepDSC: A Deep Learning Method to Predict Drug Sensitivity of Cancer Cell Lines.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

High-Risk Prediction of Cardiovascular Diseases via Attention-Based Deep Neural Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

Diagnosis of Autism Spectrum Disorder Based on Functional Brain Networks with Deep Learning.

[BibT_eX]

[DOI]

Sakib Mostafa

J. Comput. Biol., 2021

Essential Protein Prediction Based on node2vec and XGBoost.

[BibT_eX]

[DOI]

J. Comput. Biol., 2021

SSRE: Cell Type Detection Based on Sparse Subspace Representation and Similarity Enhancement.

[BibT_eX]

[DOI]

Genom. Proteom. Bioinform., 2021

A dynamic predictor selection algorithm for predicting stock market movement.

[BibT_eX]

[DOI]

Expert Syst. Appl., 2021

MMHGE: detecting mild cognitive impairment based on multi-atlas multi-view hybrid graph convolutional networks and ensemble learning.

[BibT_eX]

[DOI]

Clust. Comput., 2021

Identifying cell types from single-cell data based on similarities and dissimilarities between cells.

[BibT_eX]

[DOI]

BMC Bioinform., 2021

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

[BibT_eX]

[DOI]

Bioinform., 2021

IsoResolve: predicting splice isoform functions by integrating gene and isoform-level features with domain adaptation.

[BibT_eX]

[DOI]

Bioinform., 2021

Parallel computing for genome sequence processing.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Proteoform characterization based on top-down mass spectrometry.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

A survey on predicting microbe-disease associations: biological data and computational methods.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Identifying the tissues-of-origin of circulating cell-free DNAs is a promising way in noninvasive diagnostics.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Biomedical data and computational models for drug repositioning: a comprehensive review.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Single Cell Clustering with Sparse Similarity Matrix Learning.

[BibT_eX]

[DOI]

Wenjing Zhang

Yuting Tan

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

Improving human essential protein prediction using only protein sequences via ensemble learning.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

A Graph Attention Neural Network for Diagnosing ASD with fMRI Data.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

EFCA: An Extended Formal Concept Analysis Method for Aspect Extraction in Healthcare Informatics.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

2020

Ensemble disease gene prediction by clinical sample-based networks.

[BibT_eX]

[DOI]

BMC Bioinform., March, 2020

Predicting Human lncRNA-Disease Associations Based on Geometric Matrix Completion.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2020

Multi-Receptive-Field CNN for Semantic Segmentation of Medical Images.

[BibT_eX]

[DOI]

IEEE J. Biomed. Health Informatics, 2020

BRWMDA: Predicting Microbe-Disease Associations Based on Similarities and Bi-Random Walk on Disease and Microbe Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

MEC: Misassembly Error Correction in Contigs based on Distribution of Paired-End Reads and Statistics of GC-contents.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Constructing Disease Similarity Networks Based on Disease Module Theory.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

GapReduce: A Gap Filling Algorithm Based on Partitioned Read Sets.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

An Efficient Trimming Algorithm based on Multi-Feature Fusion Scoring Model for NGS Data.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Improving de novo Assembly Based on Read Classification.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

MultiMotifMaker: A Multi-Thread Tool for Identifying DNA Methylation Motifs from Pacbio Reads.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Identification of Protein Complexes by Using a Spatial and Temporal Active Protein Interaction Network.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Artificial Fish Swarm Optimization Based Method to Identify Essential Proteins.

[BibT_eX]

[DOI]

Xiaoqin Yang

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

miRTRS: A Recommendation Algorithm for Predicting miRNA Targets.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Deep convolutional neural network for automatically segmenting acute ischemic stroke lesion in multi-modality MRI.

[BibT_eX]

[DOI]

Neural Comput. Appl., 2020

Attention convolutional neural network for accurate segmentation and quantification of lesions in ischemic stroke disease.

[BibT_eX]

[DOI]

Medical Image Anal., 2020

Enhancing the feature representation of multi-modal MRI data by combining multi-view information for MCI classification.

[BibT_eX]

[DOI]

Neurocomputing, 2020

Deep convolutional neural network for accurate segmentation and quantification of white matter hyperintensities.

[BibT_eX]

[DOI]

Neurocomputing, 2020

A survey on U-shaped networks in medical image segmentations.

[BibT_eX]

[DOI]

Neurocomputing, 2020

A network enhancement-based method for clustering of single cell RNA-seq data.

[BibT_eX]

[DOI]

Int. J. Data Min. Bioinform., 2020

Predicting novel CircRNA-disease associations based on random walk and logistic regression model.

[BibT_eX]

[DOI]

Comput. Biol. Chem., 2020

PESM: predicting the essentiality of miRNAs based on gradient boosting machines and sequences.

[BibT_eX]

[DOI]

BMC Bioinform., 2020

RepAHR: an improved approach for de novo repeat identification by assembly of the high-frequency reads.

[BibT_eX]

[DOI]

BMC Bioinform., 2020

MADA: a web service for analysing DNA methylation array data.

[BibT_eX]

[DOI]

BMC Bioinform., 2020

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

[BibT_eX]

[DOI]

Bioinform., 2020

MultiGuideScan: a multi-processing tool for designing CRISPR guide RNA libraries.

[BibT_eX]

[DOI]

Bioinform., 2020

MDIPA: a microRNA-drug interaction prediction approach based on non-negative matrix factorization.

[BibT_eX]

[DOI]

Ali Akbar Jamali

Bioinform., 2020

ALSBMF: Predicting lncRNA-Disease Associations by Alternating Least Squares Based on Matrix Factorization.

[BibT_eX]

[DOI]

IEEE Access, 2020

MiRNA-Disease Associations Prediction Based on Negative Sample Selection and Multi-layer Perceptron.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 16th International Symposium, 2020

Diagnosis of ASD from rs-fMRI Images Based on Brain Dynamic Networks.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 16th International Symposium, 2020

SPOC: Identification of Drug Targets in Biological Networks via Set Preference Output Control.

[BibT_eX]

[DOI]

Hao Gao

Proceedings of the Bioinformatics Research and Applications - 16th International Symposium, 2020

A topological AUC-based biomarker ensemble method for the complex disease analysis.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

2019

DDIGIP: predicting drug-drug interactions based on Gaussian interaction profile kernels.

[BibT_eX]

[DOI]

BMC Bioinform., December, 2019

CSA: a web service for the complete process of ChIP-Seq analysis.

[BibT_eX]

[DOI]

BMC Bioinform., December, 2019

DNRLMF-MDA: Predicting microRNA-Disease Associations Based on Similarities of microRNAs and Diseases.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Computational Drug Repositioning with Random Walk on a Heterogeneous Network.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

MGT-SM: A Method for Constructing Cellular Signal Transduction Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

A Novel Scaffolding Algorithm Based on Contig Error Correction and Path Extension.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Construction of Refined Protein Interaction Network for Predicting Essential Proteins.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Automated ICD-9 Coding via A Deep Learning Approach.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Disease Gene Prediction by Integrating PPI Networks, Clinical RNA-Seq Data and OMIM Data.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2019

Current challenges and solutions of de novo assembly.

[BibT_eX]

[DOI]

Quant. Biol., 2019

Overlap matrix completion for predicting drug-associated indications.

[BibT_eX]

[DOI]

PLoS Comput. Biol., 2019

Controllability and Its Applications to Biological Networks.

[BibT_eX]

[DOI]

J. Comput. Sci. Technol., 2019

Automatic ICD code assignment of Chinese clinical notes based on multilayer attention BiRNN.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2019

Deep learning for biological/clinical data.

[BibT_eX]

[DOI]

Neurocomputing, 2019

Efficient multi-kernel DCNN with pixel dropout for stroke MRI segmentation.

[BibT_eX]

[DOI]

Liangliang Liu

Neurocomputing, 2019

DeepEP: a deep learning framework for identifying essential proteins.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

IILLS: predicting virus-receptor interactions based on similarity and semi-supervised learning.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

Protein complex detection based on flower pollination mechanism in multi-relation reconstructed dynamic protein networks.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

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

[BibT_eX]

[DOI]

Bioinform., 2019

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

[BibT_eX]

[DOI]

Bioinform., 2019

Enhancing the prediction of disease-gene associations with multimodal deep learning.

[BibT_eX]

[DOI]

Bioinform., 2019

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

[BibT_eX]

[DOI]

Bioinform., 2019

Control principles for complex biological networks.

[BibT_eX]

[DOI]

Briefings Bioinform., 2019

Diagnosis of Autism Spectrum Disorder Based on Eigenvalues of Brain Networks.

[BibT_eX]

[DOI]

Sakib Mostafa

Lingkai Tang

IEEE Access, 2019

IDNDDI: An Integrated Drug Similarity Network Method for Predicting Drug-Drug Interactions.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 15th International Symposium, 2019

Identification of Prognostic and Heterogeneous Breast Cancer Biomarkers Based on Fusion Network and Multiple Scoring Strategies.

[BibT_eX]

[DOI]

Proceedings of the Intelligent Computing Theories and Application, 2019

Improved Spectral Clustering Method for Identifying Cell Types from Single-Cell Data.

[BibT_eX]

[DOI]

Proceedings of the Intelligent Computing Theories and Application, 2019

Autoencoder Based Methods for Diagnosis of Autism Spectrum Disorder.

[BibT_eX]

[DOI]

Sakib Mostafa

Proceedings of the Computational Advances in Bio and Medical Sciences, 2019

A Global Similarity Learning for Clustering of Single-Cell RNA-Seq Data.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

LncRNA-disease association prediction through combining linear and non-linear features with matrix factorization and deep learning techniques.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Tentative diagnosis prediction via deep understanding of patient narratives.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Detecting protein complex based on hierarchical compressing network embedding.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

de novo repeat detection based on the third generation sequencing reads.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

DualRank: multiplex network-based dual ranking for heterogeneous complex disease analysis.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Drug and disease similarity calculation platform for drug repositioning.

[BibT_eX]

[DOI]

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.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

DoRC: Discovery of rare cells from ultra-large scRNA-seq data.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Human Protein Complex Signatures for Drug Repositioning.

[BibT_eX]

[DOI]

Proceedings of the 10th ACM International Conference on Bioinformatics, 2019

2018

Improving Alzheimer's Disease Classification by Combining Multiple Measures.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2018

Classification of Alzheimer's Disease Using Whole Brain Hierarchical Network.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2018

Predicting MicroRNA-Disease Associations Based on Improved MicroRNA and Disease Similarities.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2018

M-Matrix-Based State Observer Design for Genetic Regulatory Networks With Mixed Delays.

[BibT_eX]

[DOI]

Venkat Palgat

IEEE Trans. Circuits Syst. II Express Briefs, 2018

Topology potential based seed-growth method to identify protein complexes on dynamic PPI data.

[BibT_eX]

[DOI]

Inf. Sci., 2018

CASNMF: A Converged Algorithm for symmetrical nonnegative matrix factorization.

[BibT_eX]

[DOI]

Neurocomputing, 2018

Biomolecular Networks for Complex Diseases.

[BibT_eX]

[DOI]

Complex., 2018

Improved flower pollination algorithm for identifying essential proteins.

[BibT_eX]

[DOI]

BMC Syst. Biol., 2018

DWNN-RLS: regularized least squares method for predicting circRNA-disease associations.

[BibT_eX]

[DOI]

Cheng Yan

BMC Bioinform., 2018

CytoCtrlAnalyser: a Cytoscape app for biomolecular network controllability analysis.

[BibT_eX]

[DOI]

Bioinform., 2018

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

[BibT_eX]

[DOI]

Bioinform., 2018

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

[BibT_eX]

[DOI]

Bioinform., 2018

CircR2Disease: a manually curated database for experimentally supported circular RNAs associated with various diseases.

[BibT_eX]

[DOI]

Database J. Biol. Databases Curation, 2018

A review on machine learning principles for multi-view biological data integration.

[BibT_eX]

[DOI]

Yifeng Li

Alioune Ngom

Briefings Bioinform., 2018

Predicting Disease Genes from Clinical Single Sample-Based PPI Networks.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics and Biomedical Engineering, 2018

PBMarsNet: A Multivariate Adaptive Regression Splines Based Method to Reconstruct Gene Regulatory Networks.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018

Sprites2: Detection of Deletions Based on an Accurate Alignment Strategy.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018

Predicting Gene-Disease Associations with Manifold Learning.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018

Using Deep Neural Network to Predict Drug Sensitivity of Cancer Cell Lines.

[BibT_eX]

[DOI]

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.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Disease Inference with Symptom Extraction and Bidirectional Recurrent Neural Network.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

2017

Protein Inference from the Integration of Tandem MS Data and Interactome Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2017

NovoExD: De novo Peptide Sequencing for ETD/ECD Spectra.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2017

United Complex Centrality for Identification of Essential Proteins from PPI Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2017

Predicting Protein Complexes in Weighted Dynamic PPI Networks Based on ICSC.

[BibT_eX]

[DOI]

Jie Zhao

Complex., 2017

SDTRLS: Predicting Drug-Target Interactions for Complex Diseases Based on Chemical Substructures.

[BibT_eX]

[DOI]

Complex., 2017

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

[BibT_eX]

[DOI]

Complex., 2017

PECC: Correcting contigs based on paired-end read distribution.

[BibT_eX]

[DOI]

Comput. Biol. Chem., 2017

VAliBS: a visual aligner for bisulfite sequences.

[BibT_eX]

[DOI]

BMC Bioinform., 2017

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

[BibT_eX]

[DOI]

Bioinform., 2017

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

[BibT_eX]

[DOI]

Bioinform., 2017

Protein-protein interactions: detection, reliability assessment and applications.

[BibT_eX]

[DOI]

Briefings Bioinform., 2017

Relating Diseases Based on Disease Module Theory.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 13th International Symposium, 2017

LSLS: A Novel Scaffolding Method Based on Path Extension.

[BibT_eX]

[DOI]

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.

[BibT_eX]

[DOI]

Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

An interpretable model for predicting side effects of analgesics for osteoarthritis.

[BibT_eX]

[DOI]

Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

2016

Protein complex identification through Markov clustering with firefly algorithm on dynamic protein-protein interaction networks.

[BibT_eX]

[DOI]

Inf. Sci., 2016

Predicting drug-target interaction using positive-unlabeled learning.

[BibT_eX]

[DOI]

Neurocomputing, 2016

Detecting protein complexes from DPINs by density based clustering with Pigeon-Inspired Optimization Algorithm.

[BibT_eX]

[DOI]

Yulian Ding

Sci. China Inf. Sci., 2016

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

[BibT_eX]

[DOI]

BMC Bioinform., 2016

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

[BibT_eX]

[DOI]

Biosyst., 2016

Sprites: detection of deletions from sequencing data by re-aligning split reads.

[BibT_eX]

[DOI]

Bioinform., 2016

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

[BibT_eX]

[DOI]

Bioinform., 2016

Identifying protein complexes in dynamic protein-protein interaction networks based on Cuckoo Search algorithm.

[BibT_eX]

[DOI]

Jie Zhao

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

The MSS of complex networks with centrality based preference and its application to biomolecular networks.

[BibT_eX]

[DOI]

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.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Identifying disease genes from PPI networks weighted by gene expression under different conditions.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Mining protein complexes based on topology potential from weighted dynamic PPI network.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Detecting protein complexes from DPINs by OPTICS based on particle swarm optimization.

[BibT_eX]

[DOI]

Huan Li

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.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

2015

ClusterViz: A Cytoscape APP for Cluster Analysis of Biological Network.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2015

UDoNC: An Algorithm for Identifying Essential Proteins Based on Protein Domains and Protein-Protein Interaction Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2015

A Topology Potential-Based Method for Identifying Essential Proteins from PPI Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2015

Discovering essential proteins based on PPI network and protein complex.

[BibT_eX]

[DOI]

Int. J. Data Min. Bioinform., 2015

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

[BibT_eX]

[DOI]

Biosyst., 2015

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

[BibT_eX]

[DOI]

Bioinform., 2015

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

[BibT_eX]

[DOI]

Bioinform., 2015

Detecting conserved protein complexes using a dividing-and-matching algorithm and unequally lenient criteria for network comparison.

[BibT_eX]

[DOI]

Algorithms Mol. Biol., 2015

Estimation of control Energy and control Strategies for Complex Networks.

[BibT_eX]

[DOI]

Adv. Complex Syst., 2015

Predicting Protein Functions Based on Dynamic Protein Interaction Networks.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 11th International Symposium, 2015

A two-step logistic regression algorithm for identifying individual-cancer-related genes.

[BibT_eX]

[DOI]

Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015

2014

A Fast Algorithm for Nonnegative Matrix Factorization and Its Convergence.

[BibT_eX]

[DOI]

IEEE Trans. Neural Networks Learn. Syst., 2014

Detecting Protein Complexes Basedon Uncertain Graph Model.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2014

Discovering biological patterns from short time-series gene expression profiles with integrating PPI data.

[BibT_eX]

[DOI]

Neurocomputing, 2014

State Observer Design for Delayed Genetic Regulatory Networks.

[BibT_eX]

[DOI]

Comput. Math. Methods Medicine, 2014

Improving protein function prediction using domain and protein complexes in PPI networks.

[BibT_eX]

[DOI]

BMC Syst. Biol., 2014

A group LASSO-based method for robustly inferring gene regulatory networks from multiple time-course datasets.

[BibT_eX]

[DOI]

BMC Syst. Biol., 2014

Prediction of disease genes using tissue-specified gene-gene network.

[BibT_eX]

[DOI]

Gamage Upeksha Ganegoda

BMC Syst. Biol., 2014

Identifying protein complexes and functional modules - from static PPI networks to dynamic PPI networks.

[BibT_eX]

[DOI]

Briefings Bioinform., 2014

NovoGMET: De Novo Peptide Sequencing Using Graphs with Multiple Edge Types (GMET) for ETD/ECD Spectra.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

Drug Target Identification Based on Structural Output Controllability of Complex Networks.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

Identification of Essential Proteins by Using Complexes and Interaction Network.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

Searching SNP Combinations Related to Evolutionary Information of Human Populations on HapMap Data.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications - 10th International Symposium, 2014

NovoPair: De novo peptide sequencing for tandem mass spectra pair.

[BibT_eX]

[DOI]

Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

Detecting functional modules in dynamic protein-protein interaction networks using Markov Clustering and Firefly Algorithm.

[BibT_eX]

[DOI]

Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

A logistic regression based algorithm for identifying human disease genes.

[BibT_eX]

[DOI]

Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

2013

Robust identification method for nonlinear model structures and its application to high-performance aircraft.

[BibT_eX]

[DOI]

Int. J. Syst. Sci., 2013

Complexity Analysis and Parameter Estimation of Dynamic Metabolic Systems.

[BibT_eX]

[DOI]

Comput. Math. Methods Medicine, 2013

Characterizing dynamic regulatory programs in mouse lung development and their potential association with tumourigenesis via miRNA-TF-mRNA circuits.

[BibT_eX]

[DOI]

Juan Liu

Xinghuo Ye

BMC Syst. Biol., 2013

Construction of Uncertain Protein-Protein Interaction Networks and Its Applications.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications, 9th International Symposium, 2013

A multi-edge graph based de novo peptide sequencing method for HCD spectra.

[BibT_eX]

[DOI]

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

A dividing-and-matching algorithm to detect conserved protein complexes via local network alignment.

[BibT_eX]

[DOI]

Wei Peng

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Robust inference of gene regulatory networks from multiple microarray datasets.

[BibT_eX]

[DOI]

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Identifying dynamic protein complexes based on gene expression profiles and PPI networks.

[BibT_eX]

[DOI]

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

PPI modules detection method through ABC-IFC algorithm.

[BibT_eX]

[DOI]

Jianfang Tian

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.

[BibT_eX]

[DOI]

Gamage Upeksha Ganegoda

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Prioritizing human disease genes by multiple data integration.

[BibT_eX]

[DOI]

Bolin Chen

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

2012

Reverse engineering of gene regulatory networks from biological data.

[BibT_eX]

[DOI]

WIREs Data Mining Knowl. Discov., 2012

Symmetry Compression Method for Discovering Network Motifs.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2012

Inference of Biological S-System Using the Separable Estimation Method and the Genetic Algorithm.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2012

Stability and Bifurcation of Ring-Structured Genetic Regulatory Networks With Time Delays.

[BibT_eX]

[DOI]

IEEE Trans. Circuits Syst. I Regul. Pap., 2012

Two recursive least squares parameter estimation algorithms for multirate multiple-input systems by using the auxiliary model.

[BibT_eX]

[DOI]

Math. Comput. Simul., 2012

Iteration method for predicting essential proteins based on orthology and protein-protein interaction networks.

[BibT_eX]

[DOI]

BMC Syst. Biol., 2012

Inference of gene regulatory subnetworks from time course gene expression data.

[BibT_eX]

[DOI]

BMC Bioinform., 2012

Dynamic miRNA-TF-mRNA circuits in mouse lung development.

[BibT_eX]

[DOI]

Xinghuo Ye

Juan Liu

Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

New global stability conditions for genetic regulatory networks with time-varying delays.

[BibT_eX]

[DOI]

Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

Alternating weighted least squares parameter estimation for biological S-systems.

[BibT_eX]

[DOI]

Murtada Khalafallah Elbashir

Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

Sparse kernel logistic regression for β-turns prediction.

[BibT_eX]

[DOI]

Murtada Khalafallah Elbashir

Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

A fuzzy cluster-based algorithm for peptide identification.

[BibT_eX]

[DOI]

Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012

A hybrid approach of support vector machines with logistic regression for β-turn prediction.

[BibT_eX]

[DOI]

Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012

Not AU protein complexes exhibit dense structures in S. cerevisiae PPI network.

[BibT_eX]

[DOI]

Bolin Chen

Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine, 2012

2011

Delay-Independent Stability of Genetic Regulatory Networks.

[BibT_eX]

[DOI]

IEEE Trans. Neural Networks, 2011

Recurrent Neural Network for Non-Smooth Convex Optimization Problems With Application to the Identification of Genetic Regulatory Networks.

[BibT_eX]

[DOI]

IEEE Trans. Neural Networks, 2011

Guest Editorial: Special Focus on Bioinformatics and Systems Biology.

[BibT_eX]

[DOI]

Jun Huan

IEEE ACM Trans. Comput. Biol. Bioinform., 2011

Global and Robust Stability Analysis of Genetic Regulatory Networks With Time-Varying Delays and Parameter Uncertainties.

[BibT_eX]

[DOI]

IEEE Trans. Biomed. Circuits Syst., 2011

SVM-RFE based feature selection for tandem mass spectrum quality assessment.

[BibT_eX]

[DOI]

Jiarui Ding

Int. J. Data Min. Bioinform., 2011

Features-Based Deisotoping Method for Tandem Mass Spectra.

[BibT_eX]

[DOI]

Adv. Bioinformatics, 2011

Parallelizing Peptide-Spectrum scoring using modern graphics processing units.

[BibT_eX]

[DOI]

Jian Zhang

Ian McQuillan

Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

Estimating parameters in genetic regulatory networks with SUM logic.

[BibT_eX]

[DOI]

Proceedings of the 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2011

Globally delay-independent stability of ring-structured genetic regulatory networks.

[BibT_eX]

[DOI]

Proceedings of the 24th Canadian Conference on Electrical and Computer Engineering, 2011

Delay-Dependent Stability for Genetic Regulatory Networks.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

Improve Accuracy of Peptide Identification with Consistency between Peptides.

[BibT_eX]

[DOI]

Bolin Chen

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

Modeling Gene Regulatory Subnetworks from Time Course Gene Expression Data.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

An Improved Graph Entropy-based Method for Identifying Protein Complexes.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

2010

Charge state determination of peptide tandem mass spectra using support vector machine (SVM).

[BibT_eX]

[DOI]

IEEE Trans. Inf. Technol. Biomed., 2010

Dynamic-model-based method for selecting significantly expressed genes from time-course expression profiles.

[BibT_eX]

[DOI]

IEEE Trans. Inf. Technol. Biomed., 2010

Estimation of parameters in rational reaction rates of molecular biological systems via weighted least squares.

[BibT_eX]

[DOI]

Lei Mu

Int. J. Syst. Sci., 2010

Speed improvements of peptide-spectrum matching using SIMD instructions.

[BibT_eX]

[DOI]

Jian Zhang

Ian McQuillan

Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2010

Peptide charge state determination of tandem mass spectra from low-resolution collision induced dissociation.

[BibT_eX]

[DOI]

Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

Structure identification and parameter estimation of biological s-systems.

[BibT_eX]

[DOI]

Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

An adaptive approach to denoising tandem mass spectra.

[BibT_eX]

[DOI]

Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2010

2009

Mining, Modeling, and Evaluation of Subnetworks From Large Biomolecular Networks and Its Comparison Study.

[BibT_eX]

[DOI]

IEEE Trans. Inf. Technol. Biomed., 2009

Finding Significantly Expressed genes from time-course expression profiles.

[BibT_eX]

[DOI]

Zhonghang Xia

Lei Mu

Int. J. Bioinform. Res. Appl., 2009

Using a State-Space Model and Location Analysis to Infer Time-Delayed Regulatory Networks.

[BibT_eX]

[DOI]

EURASIP J. Bioinform. Syst. Biol., 2009

Quality assessment of tandem mass spectra using support vector machine (SVM).

[BibT_eX]

[DOI]

BMC Bioinform., 2009

Delay-Independent Stability of Genetic Regulatory Networks with Time Delays.

[BibT_eX]

[DOI]

Adv. Complex Syst., 2009

Subspace pursuit for gene profile classificaiton.

[BibT_eX]

[DOI]

Xiyi Hang

Wei Dai

Proceedings of the 2009 IEEE International Workshop on Genomic Signal Processing and Statistics, 2009

2008

An approach to assessing peptide mass spectral quality without prior information.

[BibT_eX]

[DOI]

Jiarui Ding

Guy G. Poirier

Int. J. Funct. Informatics Pers. Medicine, 2008

Gene Regulatory Network modelling: a state-space approach.

[BibT_eX]

[DOI]

Int. J. Data Min. Bioinform., 2008

Quality assessment of peptide tandem mass spectra.

[BibT_eX]

[DOI]

BMC Bioinform., 2008

Genetic weighted k-means algorithm for clustering large-scale gene expression data.

[BibT_eX]

[DOI]

BMC Bioinform., 2008

Adaptive dynamic surface control of a class of uncertain nonlinear systems in pure-feedback form using fuzzy backstepping approach.

[BibT_eX]

[DOI]

Proceedings of the 2008 IEEE International Conference on Automation Science and Engineering, 2008

Detecting Significantly Expressed Genes from Their Time-Course Expression Profiles and Its Validation.

[BibT_eX]

[DOI]

Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008

Feature Selection for Tandem Mass Spectrum Quality Assessment.

[BibT_eX]

[DOI]

Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008

Stability and oscillation of genetic regulatory networks with time delays.

[BibT_eX]

[DOI]

Proceedings of the 8th IEEE International Conference on Bioinformatics and Bioengineering, 2008

2007

Mining and state-space modeling and verification of sub-networks from large-scale biomolecular networks.

[BibT_eX]

[DOI]

Xiaohua Hu

BMC Bioinform., 2007

Significance Analysis of Time-Course Gene Expression Profiles.

[BibT_eX]

[DOI]

Proceedings of the Bioinformatics Research and Applications, Third International Symposium, 2007

A Genetic Weighted K-means Algorithm for Clustering Gene Expression Data.

[BibT_eX]

[DOI]

Proceedings of the Proceeding of the Second International Multi-Symposium of Computer and Computational Sciences (IMSCCS 2007), 2007

Mining and Dynamic Simulation of Sub-Networks from Large Biomolecular Networks.

[BibT_eX]

Proceedings of the 2007 International Conference on Artificial Intelligence, 2007

A Framework for Mass Spectral Quality Assessment without Prior Information.

[BibT_eX]

[DOI]

Jiarui Ding

Guy G. Poirier

Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, 2007

2006

Optimally-connected Hidden Markov Models for Predicting Mhc-binding Peptides.

[BibT_eX]

[DOI]

J. Bioinform. Comput. Biol., 2006

Determination of the minimum number of microarray experiments for discovery of gene expression patterns.

[BibT_eX]

[DOI]

BMC Bioinform., 2006

On Determination of Minimum Sample Size for Discovery of Temporal Gene Expression Patterns.

[BibT_eX]

[DOI]

Proceedings of the Interdisciplinary and Multidisciplinary Research in Computer Science, 2006

2005

Control of hybrid Machines with 2-DOF for trajectory tracking problems.

[BibT_eX]

[DOI]

IEEE Trans. Control. Syst. Technol., 2005

Dynamic Model-based Clustering for Time-course Gene Expression Data.

[BibT_eX]

[DOI]

J. Bioinform. Comput. Biol., 2005

Genetic Weighted K-means for Large-Scale Clustering Problems.

[BibT_eX]

[DOI]

Proceedings of the Eighteenth International Florida Artificial Intelligence Research Society Conference, 2005

2004

Modeling Gene Expression from Microarray Expression Data with State-Space Equations.

[BibT_eX]

[DOI]

Proceedings of the Biocomputing 2004, 2004

State-Space Model for Gene Regulatory Networks with Time Delays.

[BibT_eX]

[DOI]

Proceedings of the 3rd International IEEE Computer Society Computational Systems Bioinformatics Conference, 2004

A. Genetic Algorithm for Inferring Time Delays in Gene Regulatory Networks.

[BibT_eX]

[DOI]

Proceedings of the 3rd International IEEE Computer Society Computational Systems Bioinformatics Conference, 2004

Model-Based Clustering with Genes Expression Dynamics for Time-Course Gene Expression Data.

[BibT_eX]

[DOI]

Proceedings of the 4th IEEE International Symposium on BioInformatics and BioEngineering (BIBE 2004), 2004

2003

Determination of the Minimum Sample Size in Microarray Experiments to Cluster Genes Using K-means Clustering.

[BibT_eX]

[DOI]

Proceedings of the 3rd IEEE International Symposium on BioInformatics and BioEngineering (BIBE 2003), 2003

An Algorithm to Reconstruct a Target DNA Sequence from Its Spectrum Connected at a Given Level.

[BibT_eX]

[DOI]

Proceedings of the 3rd IEEE International Symposium on BioInformatics and BioEngineering (BIBE 2003), 2003

A Genetic K-means Clustering Algorithm Applied to Gene Expression Data.

[BibT_eX]

[DOI]

Proceedings of the Advances in Artificial Intelligence, 2003

2002

Nonlinear PD Control for Trajectory Tracking with Consideration of the Design for Control Methodology.

[BibT_eX]

[DOI]

Puren R. Ouyang