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List of works by Fang-Xiang Wu

A Framework of De Novo Peptide Sequencing for Multiple Tandem Mass Spectra.

scientific article published on 29 April 2015

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

scientific article published on 29 July 2019

A New Method for Predicting Protein Functions From Dynamic Weighted Interactome Networks

scientific article published on March 2016

A Novel Drug Repositioning Approach based on Collaborative Metric Learning

scientific article published on 02 July 2019

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

scientific article published on March 2015

A data-driven clustering recommendation method for single-cell RNA-sequencing data

scientific article

A deep learning framework for identifying essential proteins by integrating multiple types of biological information

scientific article published on 05 February 2019

A fast algorithm for nonnegative matrix factorization and its convergence

scientific article published in October 2014

A fast and high performance multiple data integration algorithm for identifying human disease genes

scientific article

A feedback framework for protein inference with peptides identified from tandem mass spectra

scientific article published on 19 November 2012

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

scientific article

A network clustering based feature selection strategy for classifying autism spectrum disorder

scientific article published on 30 December 2019

A novel approach to denoising ion trap tandem mass spectra

scientific article published on 17 March 2009

A novel scaffolding algorithm based on contig error correction and path extension

scientific article published on 20 July 2018

A review of drug repositioning based chemical-induced cell line expression data

article

ABC and IFC: modules detection method for PPI network

scientific article

Alzheimer's Disease Classification Based on Individual Hierarchical Networks Constructed With 3-D Texture Features.

scientific article published on 23 May 2017

An adaptive approach to denoising tandem mass spectra ⬇️

scientific article published on September 7, 2011

An efficient trimming algorithm based on multi-feature fusion scoring model for NGS data

scientific article published on 05 February 2019

An ensemble method to reconstruct gene regulatory networks based on multivariate adaptive regression splines

scientific article published on 20 February 2019

An improved peptide-spectral matching algorithm through distributed search over multiple cores and multiple CPUs

scientific article published on 11 April 2014

An unsupervised machine learning method for assessing quality of tandem mass spectra

scientific article published on 21 June 2012

Applications of graph theory in protein structure identification

scientific article (publication date: 14 October 2011)

Artificial Fish Swarm Optimization Based Method to Identify Essential Proteins

scientific article published on 15 August 2018

Assigning probabilities to Mascot peptide identification using logistic regression

scientific article published in January 2010

Automated ICD-9 Coding via A Deep Learning Approach

scientific article published on 20 March 2018

BRWMDA:Predicting microbe-disease associations based on similarities and bi-random walk on disease and microbe networks

scientific article published on 26 March 2019

Biomolecular Network Controllability With Drug Binding Information.

scientific article published in July 2017

Biomolecular networks and human diseases

scientific article published on 24 June 2014

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

scientific article

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

scientific article

Classification of Alzheimer's Disease Using Whole Brain Hierarchical Network

scientific article published on 2 December 2016

Classification of Schizophrenia Based on Individual Hierarchical Brain Networks Constructed From Structural MRI Images

scientific article

ClusterViz: A Cytoscape APP for Cluster Analysis of Biological Network

scientific article published on July 2015

Clustering PPI data by combining FA and SHC method

scientific article

Complexity analysis and parameter estimation of dynamic metabolic systems

scientific article published on 23 October 2013

Computational Drug Repositioning with Random Walk on a Heterogeneous Network

scientific article published on 02 May 2018

Computational Methods to predict protein functions from protein-protein interaction networks

scientific article

Constructing Disease Similarity Networks Based on Disease Module Theory

scientific article published on 21 March 2018

Construction of refined protein interaction network for predicting essential proteins.

scientific article

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

scientific article published on 22 November 2017

DPCMNE: detecting protein complexes from protein-protein interaction networks via multi-level network embedding

scientific article published on 08 January 2021

Deep belief network-Based Matrix Factorization Model for MicroRNA-Disease Associations Prediction

scientific article published on 18 May 2020

Deep matrix factorization improves prediction of human circRNA-disease associations

scientific article published on 03 June 2020

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

scientific article published on 28 May 2019

Delay-Independent Stability of Genetic Regulatory Networks ⬇️

scientific article published on September 6, 2011

Deletion detection method using the distribution of insert size and a precise alignment strategy

scientific article published on 12 August 2019

Detecting Protein Complexes Based on Uncertain Graph Model

scientific article published on May 2014

Detecting SNP combinations discriminating human populations from HapMap data

scientific article

Detecting protein complexes from active protein interaction networks constructed with dynamic gene expression profiles

scientific article

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

scientific article

Discovering essential proteins based on PPI network and protein complex

scientific article published on January 2015

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

scientific article published on 07 November 2017

Dynamic model-based clustering for time-course gene expression data

scientific article

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

scientific article published on 12 June 2009

Estimating parameters in genetic regulatory networks with SUM logic

scientific article published in January 2011

Estimation of parameters in the linear-fractional models

scientific article published in January 2007

Features-based deisotoping method for tandem mass spectra

scientific article published on January 2011

Finding Community Modules of Brain Networks Based on PSO with Uniform Design

scientific article published on 17 November 2019

Finding Significantly Expressed genes from time-course expression profiles

scientific article published in January 2009

Focus on Computational Proteomics ⬇️

scientific article published on 01 October 2011

GapReduce: a gap filling algorithm based on partitioned read sets

scientific article published on 05 January 2018

Gene Regulatory Network modelling: a state-space approach

scientific article published in January 2008

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

scientific article

Global and robust stability analysis of genetic regulatory networks with time-varying delays and parameter uncertainties

scientific article published on 01 August 2011

Guest editorial: Special focus on bioinformatics and systems biology

scientific article published on 01 March 2011

High-risk Prediction of Cardiovascular Diseases via Attention-based Deep Neural Networks

scientific article published on 14 August 2019

Identification of gene regulatory networks from time course gene expression data

scientific article

Identification of hierarchical and overlapping functional modules in PPI networks

scientific article published on 30 August 2012

Identification of protein complexes by using a spatial and temporal active protein interaction network

scientific article published on 7 September 2017

Identifying Cancer-Specific circRNA-RBP Binding Sites Based on Deep Learning

scientific article published on 07 November 2019

Identifying Individual-Cancer-Related Genes by Rebalancing the Training Samples.

scientific article published on 12 April 2016

Identifying disease genes by integrating multiple data sources

scientific article

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

scientific article

Identifying essential proteins from active PPI networks constructed with dynamic gene expression

scientific article

Identifying protein complexes based on multiple topological structures in PPI networks

scientific article published on 21 August 2013

Improving Alzheimeres Disease Classification by Combining Multiple Measures.

scientific article

Improving de novo Assembly Based on Read Classification

scientific article published on 30 July 2018

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

scientific article

Inference of biological S-system using the separable estimation method and the genetic algorithm

scientific article

Inference of gene regulatory subnetworks from time course gene expression data

scientific article

Integrating Omic Data with a Multiplex Network-based Approach for the Identification of Cancer Subtypes

scientific article

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

scientific article

MCHMDA: Predicting microbe-disease associations based on similarities and low-rank matrix completion

scientific article published on 10 July 2019

MEC: Misassembly Error Correction in contigs based on distribution of paired-end reads and statistics of GC-contents

scientific article published on 18 October 2018

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

scientific article published on 19 May 2017

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

scientific article

Mining, modeling, and evaluation of subnetworks from large biomolecular networks and its comparison study

scientific article published in March 2009

Model based clustering for tandem mass spectrum quality assessment

scientific article published in January 2009

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

scientific article published on 13 August 2020

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

scientific article published on 01 February 2020

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

scientific article published on 30 July 2018

NTD-DR: Nonnegative tensor decomposition for drug repositioning

scientific article published in 2022

Network output controllability-based method for drug target identification

scientific article published on 26 January 2015

Nonlinear model-based method for clustering periodically expressed genes

scientific article published in November 2011

Nonlinear-model-based analysis methods for time-course gene expression data

scientific article published on 2 January 2014

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

scientific article published in October 2012

NovoExD: De novo Peptide Sequencing for ETD/ECD Spectra

scientific article

NovoHCD: de novo peptide sequencing from HCD spectra

scientific article

Optimally-connected hidden markov models for predicting MHC-binding peptides

scientific article published in October 2006

Parameter estimation in rational models of molecular biological systems

scientific article published in January 2009

Parameter estimation method for improper fractional models and its application to molecular biological systems

scientific article published on January 2010

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

scientific article published on 14 October 2011

Peptide identification based on fuzzy classification and clustering

scientific article

Predicting beta-turns in proteins using support vector machines with fractional polynomials

scientific article

Predicting disease‐associated genes: Computational methods, databases, and evaluations

scientific article published on 29 July 2020

Predicting human lncRNA-disease associations based on geometric matrix completion

scientific article published on 09 December 2019

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

scientific article published in 2022

Predicting microRNA-disease associations based on improved microRNA and disease similarities.

scientific article published on 07 July 2016

Predicting β-turns in protein using kernel logistic regression

scientific article

Prediction of Target-Drug Therapy by Identifying Gene Mutations in Lung Cancer With Histopathological Stained Image and Deep Learning Techniques

scientific article published on 13 April 2021

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

scientific article

Prediction of disease-related genes based on weighted tissue-specific networks by using DNA methylation

scientific article

Prediction of essential proteins based on overlapping essential modules

scientific article published on 7 August 2014

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

scientific article

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

scientific article published on 01 February 2020

Proteoform characterization based on top-down mass spectrometry

scientific article published on 02 March 2020

Quality assessment of peptide tandem mass spectra

scientific article

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

scientific article

Recurrent neural network for non-smooth convex optimization problems with application to the identification of genetic regulatory networks

scientific article published on 22 March 2011

Robust and global delay-dependent stability for genetic regulatory networks with parameter uncertainties

scientific article published in September 2012

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

scientific article published in January 2011

Sparse representation for classification of tumors using gene expression data

scientific article

Stability analysis of genetic regulatory networks with multiple time delays

scientific article published in January 2007

Stability and bifurcation analysis of models for zebrafish somitogenesis

scientific article published on 7 December 2011

State observer design for delayed genetic regulatory networks.

scientific article published on 22 May 2014

Symmetry compression method for discovering network motifs

scientific article

Systems Biology Approaches to Mining High Throughput Biological Data

scientific article

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

scientific article published in 2022

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

scientific article published on March 2015

United Complex Centrality for Identification of Essential Proteins from PPI Networks

scientific article

Using a state-space model and location analysis to infer time-delayed regulatory networks

scientific article

miRTRS: A Recommendation Algorithm for Predicting miRNA Targets

scientific article published on 01 October 2018

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