Yadong Wang

Orcid: 0000-0001-6500-6217

Affiliations:
  • Harbin Institute of Technology, Harbin, Heilongjiang, China


According to our database1, Yadong Wang authored at least 115 papers between 2005 and 2024.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

Legend:

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PhD thesis 
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Links

On csauthors.net:

Bibliography

2024
DVA: predicting the functional impact of single nucleotide missense variants.
BMC Bioinform., March, 2024

DIRMC: a database of immunotherapy-related molecular characteristics.
Database J. Biol. Databases Curation, January, 2024

Special Issue on Methods and Applications for Large-Scale Intelligent Transportation Systems [Guest Editorial].
IEEE Intell. Transp. Syst. Mag., 2024

SCancerRNA: Expression at the Single-cell Level and Interaction Resource of Non-coding RNA Biomarkers for Cancers.
Genom. Proteom. Bioinform., 2024

miniSNV: accurate and fast single nucleotide variant calling from nanopore sequencing data.
Briefings Bioinform., 2024

2023
Predicting Drug-Disease Associations Through Similarity Network Fusion and Multi-View Feature Projection Representation.
IEEE J. Biomed. Health Informatics, October, 2023

Struct2GO: protein function prediction based on graph pooling algorithm and AlphaFold2 structure information.
Bioinform., October, 2023

Real-time Image Enhancement with Attention Aggregation.
ACM Trans. Multim. Comput. Commun. Appl., 2023

Prot2GO: Predicting GO Annotations From Protein Sequences and Interactions.
IEEE ACM Trans. Comput. Biol. Bioinform., 2023

PSPGO: Cross-Species Heterogeneous Network Propagation for Protein Function Prediction.
IEEE ACM Trans. Comput. Biol. Bioinform., 2023

ScCCL: Single-Cell Data Clustering Based on Self-Supervised Contrastive Learning.
IEEE ACM Trans. Comput. Biol. Bioinform., 2023

Identification of risk genes and biological pathways influencing myopia via transcriptome association study and biomedical ontology methods.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

Comprehensive evaluation of RNA-seq alignment methods based on long-read sequencing data.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

2022
Deepgmd: A Graph-Neural-Network-Based Method to Detect Gene Regulator Module.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

A Neighborhood-Based Global Network Model to Predict Drug-Target Interactions.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

OTUCD: Unsupervised GCN based metagenomics non-overlapping community detection.
Comput. Biol. Chem., 2022

Prediction of the disease causal genes based on heterogeneous network and multi-feature combination method.
Comput. Biol. Chem., 2022

M2PP: a novel computational model for predicting drug-targeted pathogenic proteins.
BMC Bioinform., 2022

Evaluation of classification in single cell atac-seq data with machine learning methods.
BMC Bioinform., 2022

Correction to: Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.
Briefings Bioinform., 2022

Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.
Briefings Bioinform., 2022

NSAP: A Neighborhood Subgraph Aggregation Method for Drug-Disease Association Prediction.
Proceedings of the Intelligent Computing Theories and Application, 2022

Comparison of the Nanopore and PacBio sequencing technologies for DNA 5-methylcytosine detection.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

2021
WMMDCA: Prediction of Drug Responses by Weight-Based Modular Mapping in Cancer Cell Lines.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

deGSM: Memory Scalable Construction Of Large Scale de Bruijn Graph.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

ScGSLC: An unsupervised graph similarity learning framework for single-cell RNA-seq data clustering.
Comput. Biol. Chem., 2021

A pipeline for RNA-seq based eQTL analysis with automated quality control procedures.
BMC Bioinform., 2021

Fast and SNP-aware short read alignment with SALT.
BMC Bioinform., 2021

IIMLP: integrated information-entropy-based method for LncRNA prediction.
BMC Bioinform., 2021

Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation.
BMC Bioinform., 2021

Factor graph-aggregated heterogeneous network embedding for disease-gene association prediction.
BMC Bioinform., 2021

SKSV: ultrafast structural variation detection from circular consensus sequencing reads.
Bioinform., 2021

Erratum to: abPOA: an SIMD-based C library for fast partial order alignment using adaptive band.
Bioinform., 2021

abPOA: an SIMD-based C library for fast partial order alignment using adaptive band.
Bioinform., 2021

An integrated approach for copy number variation discovery in parent-offspring trios.
Briefings Bioinform., 2021

A deep learning approach for filtering structural variants in short read sequencing data.
Briefings Bioinform., 2021

ScSSC: Semi-supervised Single Cell Clustering Based on 2D Embedding.
Proceedings of the Intelligent Computing Theories and Application, 2021

PocaCNV: A Tool to Detect Copy Number Variants from Population-Scale Genome Sequencing Data.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

Differentially Expressed Mutant Genes Reveal Potential Prognostic Markers For Lung Adenocarcinoma.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

2020
Mining Relationships among Multiple Entities in Biological Networks.
IEEE ACM Trans. Comput. Biol. Bioinform., 2020

Prognostic prediction of carcinoma by a differential-regulatory-network-embedded deep neural network.
Comput. Biol. Chem., 2020

Filtering de novo indels in parent-offspring trios.
BMC Bioinform., 2020

HGAlinker: Drug-Disease Association Prediction Based on Attention Mechanism of Heterogeneous Graph.
Proceedings of the Intelligent Computing Theories and Application, 2020

An Approximate Multiplane Network-on-Chip.
Proceedings of the 2020 Design, Automation & Test in Europe Conference & Exhibition, 2020

GONET: A Deep Network to Annotate Proteins via Recurrent Convolution Networks.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

Assessment of Machine Learning Methods for Classification in Single Cell ATAC-seq.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

2019
Fast read alignment with incorporation of known genomic variants.
BMC Medical Informatics Decis. Mak., 2019

Simulating genetically heterozygous genomes in the tumour tissue according to its clonal evolution history.
Int. J. Comput. Biol. Drug Des., 2019

LncDisAP: a computation model for LncRNA-disease association prediction based on multiple biological datasets.
BMC Bioinform., 2019

Prioritizing candidate diseases-related metabolites based on literature and functional similarity.
BMC Bioinform., 2019

Integrated entropy-based approach for analyzing exons and introns in DNA sequences.
BMC Bioinform., 2019

Joint detection of germline and somatic copy number events in matched tumor-normal sample pairs.
Bioinform., 2019

rMETL: sensitive mobile element insertion detection with long read realignment.
Bioinform., 2019

TideHunter: efficient and sensitive tandem repeat detection from noisy long-reads using seed-and-chain.
Bioinform., 2019

An Approximate Bufferless Network-on-Chip.
IEEE Access, 2019

Prediction of Human LncRNAs Based on Integrated Information Entropy Features.
Proceedings of the Intelligent Computing Theories and Application, 2019

An automated quality control pipeline for eQTL analysis with RNA-seq data.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

A Bidirectional Fuzzy Index and Approximate Search Algorithm for Next Generation Sequencing.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

SALT: a fast, memory-efficient and SNP-aware short read alignment tool.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

DNMFilter_Indel: Filtering de novo Indels in Parent-Offspring Trios.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Y-SPCR: A new dimensionality reduction method for gene expression data classification.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

2018
Modeling and correct the GC bias of tumor and normal WGS data for SCNA based tumor subclonal population inferring.
BMC Bioinform., 2018

Identifying Representative Network Motifs for Inferring Higher-order Structure of Biological Networks.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Predicting candidate disease-related lncRNAs based on network random walk.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

DeepDNA: a hybrid convolutional and recurrent neural network for compressing human mitochondrial genomes.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Fast variation-aware read alignment with deBGA-VARA.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

deSPI: efficient classification of metagenomics reads with lightweight de Bruijn graph-based reference indexing.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

rCANID: read Clustering and Assembly-based Novel Insertion Detection tool.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

A Network-on-Chip Accelerator for Genome Variant Analysis.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

2017
WDNfinder: A method for minimum driver node set detection and analysis in directed and weighted biological network.
J. Bioinform. Comput. Biol., 2017

Accurate annotation of metagenomic data without species-level references.
Int. J. Data Min. Bioinform., 2017

A novel method to measure the semantic similarity of HPO terms.
Int. J. Data Min. Bioinform., 2017

DTWscore: differential expression and cell clustering analysis for time-series single-cell RNA-seq data.
BMC Bioinform., 2017

Identifying term relations cross different gene ontology categories.
BMC Bioinform., 2017

DisSetSim: an online system for calculating similarity between disease sets.
J. Biomed. Semant., 2017

rMFilter: acceleration of long read-based structure variation calling by chimeric read filtering.
Bioinform., 2017

LAMSA: fast split read alignment with long approximate matches.
Bioinform., 2017

ABDTR: Approximation-Based Dynamic Traffic Regulation for Networks-on-Chip Systems.
Proceedings of the 2017 IEEE International Conference on Computer Design, 2017

Pysubsim-tree: A package for simulating tumor genomes according to tumor evolution history.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

Pre-SCNAClonal: Efficient GC bias correction for SCNA based tumor subclonal populations inferring.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

2016
Comparison among dimensionality reduction techniques based on Random Projection for cancer classification.
Comput. Biol. Chem., 2016

A network-based pathway-expanding approach for pathway analysis.
BMC Bioinform., 2016

Extending gene ontology with gene association networks.
Bioinform., 2016

deBWT: parallel construction of Burrows-Wheeler Transform for large collection of genomes with de Bruijn-branch encoding.
Bioinform., 2016

Joint detection of copy number variations in parent-offspring trios.
Bioinform., 2016

rHAT: fast alignment of noisy long reads with regional hashing.
Bioinform., 2016

deBGA: read alignment with de Bruijn graph-based seed and extension.
Bioinform., 2016

DMcompress: Dynamic Markov models for bacterial genome compression.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

ERDS-pe: A paired hidden Markov model for copy number variant detection from whole-exome sequencing data.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Measuring phenotype semantic similarity using Human Phenotype Ontology.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

2015
GLProbs: Aligning Multiple Sequences Adaptively.
IEEE ACM Trans. Comput. Biol. Bioinform., 2015

Using Semantic Association to Extend and Infer Literature-Oriented Relativity Between Terms.
IEEE ACM Trans. Comput. Biol. Bioinform., 2015

LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression.
Nucleic Acids Res., 2015

misFinder: identify mis-assemblies in an unbiased manner using reference and paired-end reads.
BMC Bioinform., 2015

Improving multiple sequence alignment by using better guide trees.
BMC Bioinform., 2015

Measuring semantic similarities by combining gene ontology annotations and gene co-function networks.
BMC Bioinform., 2015

Family genome browser: visualizing genomes with pedigree information.
Bioinform., 2015

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks.
Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2014
The personal genome browser: visualizing functions of genetic variants.
Nucleic Acids Res., 2014

An integrative approach for measuring semantic similarities using gene ontology.
BMC Syst. Biol., 2014

Towards integrative gene functional similarity measurement.
BMC Bioinform., 2014

A gradient-boosting approach for filtering <i>de novo</i> mutations in parent-offspring trios.
Bioinform., 2014

2013
Identifying cross-category relations in gene ontology and constructing genome-specific term association networks.
BMC Bioinform., 2013

PERGA: A Paired-End Read Guided De Novo Assembler for Extending Contigs Using SVM Approach.
Proceedings of the ACM Conference on Bioinformatics, 2013

2012
A differentor-based adaptive ontology-matching approach.
J. Inf. Sci., 2012

regSNPs: a strategy for prioritizing regulatory single nucleotide substitutions.
Bioinform., 2012

PRISM: Pair-read informed split-read mapping for base-pair level detection of insertion, deletion and structural variants.
Bioinform., 2012

2011
A modulated empirical Bayes model for identifying topological and temporal estrogen receptor α regulatory networks in breast cancer.
BMC Syst. Biol., 2011

Empirical bayes model comparisons for differential methylation analysis.
Proceedings of the 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, 2011

2010
Prioritization of disease microRNAs through a human phenome-microRNAome network.
BMC Syst. Biol., 2010

Alignment results of SOBOM for OAEI 2010.
Proceedings of the 5th International Workshop on Ontology Matching (OM-2010), 2010

2009
miR2Disease: a manually curated database for microRNA deregulation in human disease.
Nucleic Acids Res., 2009

Global Similarity and Local Variance in Human Gene Coexpression Networks.
Proceedings of the Artificial Intelligence and Computational Intelligence, 2009

2008
Constructing disease-specific gene networks using pair-wise relevance metric: Application to colon cancer identifies interleukin 8, desmin and enolase 1 as the central elements.
BMC Syst. Biol., 2008

2005
A Novel Feature Ensemble Technology to Improve Prediction Performance of Multiple Heterogeneous Phenotypes Based on Microarray Data.
Proceedings of the Fuzzy Systems and Knowledge Discovery, Second International Conference, 2005


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