yusuke1997/dblp-id-title huggingface dataset:
Enumerating Substituted Benzene Isomers of Tree-Like Chemical Graphs
Row and Column Structure-Based Biclustering for Gene Expression Data
Kernelized Fuzzy System for Predicting Therapeutic Peptides via Deep Stacked Encoder
DeepCPPred: A Deep Learning Framework for the Discrimination of Cell-Penetrating Peptides and Their Uptake Efficiencies
Wavelet Analysis in Current Cancer Genome Research: A Survey
CORAL: Verification-Aware OpenCL Based Read Mapper for Heterogeneous Systems
Finding the Nearest Neighbors in Biological Databases Using Less Distance Computations
DIVERSE: Bayesian Data IntegratiVE Learning for Precise Drug ResponSE Prediction
Fast Hinge Detection Algorithms for Flexible Protein Structures
Markov Invariants for Phylogenetic Rate Matrices Derived from Embedded Submodels
Probabilistic Biological Network Alignment
Guest Editors' introduction to the special section on bioinformatics research and applications
Graph Transformer for Drug Response Prediction
Classification of Protein Structure Classes on Flexible Neutral Tree
Hierarchical Clustering of High- Throughput Expression Data Based on General Dependences
SOJNMF: Identifying Multidimensional Molecular Regulatory Modules by Sparse Orthogonality-Regularized Joint Non-Negative Matrix Factorization Algorithm
Manipulating the Steady State of Metabolic Pathways
Comment on "SCS: Signal, Context, and Structure Features for Genome-Wide Human Promoter Recognition"
Efficient Approximate Kernel Based Spike Sequence Classification
Identifying Relevant Data for a Biological Database: Handcrafted Rules versus Machine Learning
A Multidimensional Tensor Low Rank Method for Magnetic Resonance Image Denoising
From Optimization to Mapping: An Evolutionary Algorithm for Protein Energy Landscapes
MetNetComp: Database for Minimal and Maximal Gene-Deletion Strategies for Growth-Coupled Production of Genome-Scale Metabolic Networks
RSwitch: A Novel Bioinformatics Database on Riboswitches as Antibacterial Drug Targets
MTGDC: A Multi-Scale Tensor Graph Diffusion Clustering for Single-Cell RNA Sequencing Data
A Drug Combination Prediction Framework Based on Graph Convolutional Network and Heterogeneous Information
A Network Enhancement Method to Identify Spurious Drug-Drug Interactions
LUNAR : Drug Screening for Novel Coronavirus Based on Representation Learning Graph Convolutional Network
Recursive Self-Composite Approach Toward Structural Understanding of Boolean Networks
Editorial: Computational Genomics and Molecular Medicine for Emerging COVID-19
Inference of Gene Regulatory Networks with Variable Time Delay from Time-Series Microarray Data
Boltzmann Machine Learning and Regularization Methods for Inferring Evolutionary Fields and Couplings From a Multiple Sequence Alignment
Deep Learning Enables Accurate Diagnosis of Novel Coronavirus (COVID-19) With CT Images
ParRADMeth: Identification of Differentially Methylated Regions on Multicore Clusters
A Feature Weighting-Assisted Approach for Cancer Subtypes Identification From Paired Expression Profiles
An Attention-Guided CNN Framework for Segmentation and Grading of Glioma Using 3D MRI Scans
An Exact Algorithm for the Zero Exemplar Breakpoint Distance Problem
A Faster cDNA Microarray Gene Expression Data Classifier for Diagnosing Diseases
CASL: Capturing Activity Semantics Through Location Information for Enhanced Activity Recognition
ProtRe-CN: Protein Remote Homology Detection by Combining Classification Methods and Network Methods via Learning to Rank
Reformulated Kemeny Optimal Aggregation with Application in Consensus Ranking of microRNA Targets
Efficient Detection of Network Motifs
TMELand: An End-to-End Pipeline for Quantification and Visualization of Waddington's Epigenetic Landscape Based on Gene Regulatory Network
Residue Specific and Chirality Dependent Interactions between Carbon Nanotubes and Flagellin
Algorithms for Efficient Near-Perfect Phylogenetic Tree Reconstruction in Theory and Practice
Extraction of Blebs in Human Embryonic Stem Cell Videos
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications
MultiTrans: An Algorithm for Path Extraction Through Mixed Integer Linear Programming for Transcriptome Assembly
RGCNPPIS: A Residual Graph Convolutional Network for Protein-Protein Interaction Site Prediction
A Linear Bound on the Number of States in Optimal Convex Characters for Maximum Parsimony Distance
A Secure Parallel Pattern Mining System for Medical Internet of Things
Human Gait Recognition Based on Self-Adaptive Hidden Markov Model
An Application Specific Instruction Set Processor (ASIP) for Adaptive Filters in Neural Prosthetics
Deleterious Non-Synonymous Single Nucleotide Polymorphism Predictions on Human Transcription Factors
GraphPLBR: Protein-Ligand Binding Residue Prediction With Deep Graph Convolution Network
Randomized Subspace Learning for Proline Cis-Trans Isomerization Prediction
SCN-MLTPP: A Multi-Label Classifier for Predicting Therapeutic Properties of Peptides Using the Stacked Capsule Network
Enhancing Multi-Label Protein Interaction Prediction via Hypergraph Modeling of Higher-Order Patterns
Progressive Tree Neighborhood Applied to the Maximum Parsimony Problem
SMDPG: Identifying Metabolite-Disease Associations via Optimized Negative Sampling and Sparse Graph Convolutional Network
A Cooperative Co-Evolutionary Genetic Algorithm for Tree Scoring and Ancestral Genome Inference
A Novel Low-Resource Graph Convolutional Neural Network Approach for Entity Recognition
Big Data Analytics on Lung Cancer Diagnosis Framework With Deep Learning
Probabilistic Analysis of Probe Reliability in Differential Gene Expression Studies with Short Oligonucleotide Arrays
GeneNetFinder2: Improved Inference of Dynamic Gene Regulatory Relations with Multiple Regulators
EnsDeepDP: An Ensemble Deep Learning Approach for Disease Prediction Through Metagenomics
Six Fundamental Behaviors of Immune-Pathogen Feedback Circuits
Modified Half-System Based Method for Reverse Engineering of Gene Regulatory Networks
Network Clustering Analysis Using Mixture Exponential-Family Random Graph Models and Its Application in Genetic Interaction Data
Topology Improves Phylogenetic Motif Functional Site Predictions
Multi-Modality Fusion & Inductive Knowledge Transfer Underlying Non-Sparse Multi-Kernel Learning and Distribution Adaption
A Grouping Particle Swarm Optimizer with Personal-Best-Position Guidance for Large Scale Optimization
WMLRR: A Weighted Multi-View Low Rank Representation to Identify Cancer Subtypes From Multiple Types of Omics Data
ASSA-PBN: A Toolbox for Probabilistic Boolean Networks
Noise Resistant Generalized Parametric Validity Index of Clustering for Gene Expression Data
Identification of Essential Proteins Based on Local Random Walk and Adaptive Multi-View Multi-Label Learning
A Bipartite Network and Resource Transfer-Based Approach to Infer lncRNA-Environmental Factor Associations
Corrections to "A Novel Computational Approach for Global Alignment for Multiple Biological Networks"
Construction and Evaluation of Robust Interpretation Models for Breast Cancer Metastasis Prediction
The $\gamma$γ-OMP Algorithm for Feature Selection With Application to Gene Expression Data
Cortical Thinning and Cognitive Impairment in Parkinson's Disease without Dementia
MatchMaker: A Deep Learning Framework for Drug Synergy Prediction
Improving Alzheimer's Disease Classification by Combining Multiple Measures
Using Emulation to Engineer and Understand Simulations of Biological Systems
A Lightweight and Anonymous Mutual Authentication Scheme for Medical Big Data in Distributed Smart Healthcare Systems
Guest Editorial for Special Section on Semantic-Based Approaches for Analysis of Biological Data
Blockchain-Based Data Access Security Solutions for Medical Wearables
Gelsius: A Literature-Based Workflow for Determining Quantitative Associations between Genes and Biological Processes
Enhancing Spatial Domain Identification in Spatially Resolved Transcriptomics Using Graph Convolutional Networks With Adaptively Feature-Spatial Balance and Contrastive Learning
Parallelizing Epistasis Detection in GWAS on FPGA and GPU-Accelerated Computing Systems
A Comparison Study for DNA Motif Modeling on Protein Binding Microarray
Prediction of Consensus RNA Secondary Structures Including Pseudoknots
DFseq: Distribution-Free Method to Detect Differential Gene Expression for RNA-Sequencing Data
A Novel Knowledge-Driven Systems Biology Approach for Phenotype Prediction upon Genetic Intervention
A Self-Training Subspace Clustering Algorithm under Low-Rank Representation for Cancer Classification on Gene Expression Data
A miRNA-Disease Association Prediction Method Integrating Graph Matrix Factorization With L$_{21}$ Similarity Constraint and Network Projection Fusion
IPP: An Intelligent Privacy-Preserving Scheme for Detecting Interactions in Genome Association Studies
An Efficient Parallel Sketch-Based Algorithmic Workflow for Mapping Long Reads
A Hybrid Heuristic-Exact Optimization for Large-Scale Home Health Care Problem
Function Annotation for Pseudoknot Using Structure Similarity
Improving Detection of Driver Genes: Power-Law Null Model of Copy Number Variation in Cancer
An Ultra Lightweight Interpretable Convolution-Vision Transformer Fusion Model for Plant Disease Identification: ConViTX
Extending the Applicability of Graphlets to Directed Networks
Predicting miRNA-Disease Association Based on Improved Graph Regression
Accurate Estimation of Single-Cell Differentiation Potency Based on Network Topology and Gene Ontology Information
Finding Overlapping Rmaps via Clustering
GaMRed - Adaptive Filtering of High-Throughput Biological Data
Genome-Scale Identification, in Silico Characterization and Interaction Study Between Wheat SNARE and NPSN Gene Families Involved in Vesicular Transport
An Efficient Detection and Classification of Acute Leukemia Using Transfer Learning and Orthogonal Softmax Layer-Based Model
Identification of Novel Scaffolds with Dual Role as Antiepileptic and Anti-Breast Cancer
Deciphering the Structural Code of Proteins With Deep Graph Learning
CRCF: A Method of Identifying Secretory Proteins of Malaria Parasites
Inferring Large-Scale Gene Regulatory Networks Using a Randomized Algorithm Based on Singular Value Decomposition
In Silico Modeling of the Induction of Apoptosis by Cryptotanshinone in Osteosarcoma Cell Lines
Inference of Model Parameters Using Particle Filter Algorithm and Copula Distributions
Predicting Metal-Binding Sites from Protein Sequence
Enhancing Single-Cell RNA-Seq Data Completeness With a Graph Learning Framework
Refining Phylogenetic Trees Given Additional Data: An Algorithm Based on Parsimony
Inferring Synergistic Drug Combinations Based on Symmetric Meta-Path in a Novel Heterogeneous Network
Gene Co-Expression Networks Offer New Perspectives on Sepsis Pathophysiology
Improving Recognition of Antimicrobial Peptides and Target Selectivity through Machine Learning and Genetic Programming
Fence Decompositions and Cherry Covers in Non-Binary Phylogenetic Networks
Integrating Prior Knowledge From Genome-Scale Metabolic Model With Metabolomics for Diet Assessment
Modeling Defensive Response of Cells to Therapies: Equilibrium Interventions for Regulatory Networks
A Multi-Layered Screening Method to Identify Plant Regulatory Genes
Morphological Rule-Constrained Object Detection of Key Structures in Infant Fundus Image
A Novel Approach to Detecting Epistasis using Random Sampling Regularisation
EEG/ERP Adaptive Noise Canceller Design with Controlled Search Space (CSS) Approach in Cuckoo and Other Optimization Algorithms
LWPCMF: Logistic Weighted Profile-Based Collaborative Matrix Factorization for Predicting MiRNA-Disease Associations
A Comparative Study for Identifying the Chromosome-Wide Spatial Clusters from High-Throughput Chromatin Conformation Capture Data
Weakly-Supervised Convolutional Neural Network Architecture for Predicting Protein-DNA Binding
An Effective Application of Bacteria Quorum Sensing and Circular Elimination in MOPSO
Machine Learning-Assisted High-Throughput Screening for Anti-MRSA Compounds
ERDS-Exome: A Hybrid Approach for Copy Number Variant Detection from Whole-Exome Sequencing Data
Explainable Drug Repurposing Approach From Biased Random Walks
Synergy Between Embedding and Protein Functional Association Networks for Drug Label Prediction Using Harmonic Function
Improved Computational Drug-Repositioning by Self-Paced Non-Negative Matrix Tri-Factorization
An Effective Computational Method Incorporating Multiple Secondary Structure Predictions in Topology Determination for Cryo-EM Images
Manipulating Extracellular Matrix Organizations and Parameters to Control Local Cancer Invasion
Automated Spot Counting in Microbiology
GraphGANFed: A Federated Generative Framework for Graph-Structured Molecules Towards Efficient Drug Discovery
Maximum Likelihood Inference of the Evolutionary History of a PPI Network from the Duplication History of Its Proteins
Compression of Multiple DNA Sequences Using Intra-Sequence and Inter-Sequence Similarities
Comparing Compressed Sequences for Faster Nucleotide BLAST Searches
Stable IL-$1\beta$1β-Activation in an Inflammasome Signalling Model Depends on Positive and Negative Feedbacks and Tight Regulation of Protein Production
Comparison of Galled Trees
Identifying "Many-to-Many" Relationships between Gene-Expression Data and Drug-Response Data via Sparse Binary Matching
Potential Effect of Tobacco Consumption through Smoking and Chewing Tobacco on IL1beta Protein Expression in Chronic Periodontitis Patients: In Silico Molecular Docking Study
Foretelling the Phenotype of a Genomic Sequence
Improving the Inference of Co-Occurrence Networks in the Bovine Rumen Microbiome
A Characterization of Minimum Spanning Tree-Like Metric Spaces
Guest Editorial: Deep Learning For Genomics
scVSC: Deep Variational Subspace Clustering for Single-Cell Transcriptome Data
Data-Driven and Knowledge-Based Algorithms for Gene Network Reconstruction on High-Dimensional Data
FastEtch: A Fast Sketch-Based Assembler for Genomes
Improving Retrieval Efficacy of Homology Searches Using the False Discovery Rate
Protein Fold Recognition by Combining Support Vector Machines and Pairwise Sequence Similarity Scores
An Application of the Bayesian Periodicity Test to Identify Diurnal Rhythm Genes in the Brain
Computing the Inversion-Indel Distance
CISA: Combined NMR Resonance Connectivity Information Determination and Sequential Assignment
Artificial Fish Swarm Optimization Based Method to Identify Essential Proteins
Gender Identification of Human Brain Image with A Novel 3D Descriptor
Application of Fractal Theory on Motifs Counting in Biological Networks
Fault Detectability of Asynchronous Switched Boolean Networks: A Set Reachability Approach
Biomarker Identification via a Factorization Machine-Based Neural Network With Binary Pairwise Encoding
A Novel Method for Constructing Classification Models by Combining Different Biomarker Patterns
Synthesis of Genetic Clock with Combinational Biologic Circuits
A Modified Relation and Margin-Based Deep Learning Network for Automatic Breast Cancer Detection
Characterizing Intra-Tumor Heterogeneity From Somatic Mutations Without Copy-Neutral Assumption
Functional Impact of Autophagy-Related Genes on the Homeostasis and Dynamics of Pancreatic Cancer Cell Lines
An Efficient Trimming Algorithm based on Multi-Feature Fusion Scoring Model for NGS Data
SPF-CellTracker: Tracking Multiple Cells with Strongly-Correlated Moves Using a Spatial Particle Filter
Combining Sequence and Time Series Expression Data to Learn Transcriptional Modules
GLAlign: A Novel Algorithm for Local Network Alignment
Composition Vector Method Based on Maximum Entropy Principle for Sequence Comparison
Active Vision and Surface Reconstruction for 3D Plant Shoot Modelling
An Automated Convergence Diagnostic for Phylogenetic MCMC Analyses
PredinID: Predicting Pathogenic Inframe Indels in Human Through Graph Convolution Neural Network With Graph Sampling Technique
miRCoop: Identifying Cooperating miRNAs via Kernel Based Interaction Tests
Correlation Statistics for cDNA Microarray Image Analysis
An Adaptive Robust Control Strategy in a Cancer Tumor-Immune System Under Uncertainties
An Extended Kalman Filtering Approach to Modeling Nonlinear Dynamic Gene Regulatory Networks via Short Gene Expression Time Series
Large-Scale Signaling Network Reconstruction
Network-Based Analysis of Fatal Comorbidities of COVID-19 and Potential Therapeutics
Topology Driven Analysis of Protein - Protein Interactome for Prioritizing Key Comorbid Genes via Sub Graph Based Average Path Length Centrality
Searching High-Order SNP Combinations for Complex Diseases Based on Energy Distribution Difference
A Deep Ensemble Predictor for Identifying Anti-Hypertensive Peptides Using Pretrained Protein Embedding
Guest Editorial for Special Section on the 11th International Conference on Intelligent Computing (ICIC)
A Novel Computational Approach for Global Alignment for Multiple Biological Networks
A Method for Generating Synthetic Electronic Medical Record Text
Network Biomarker Detection From Gene Co-Expression Network Using Gaussian Mixture Model Clustering
A Parkinson's Auxiliary Diagnosis Algorithm Based on a Hyperparameter Optimization Method of Deep Learning
An Integrated Approach to Anti-Cancer Drug Sensitivity Prediction
Time-Dependent Gene Network Modelling by Sequential Monte Carlo
Clustering-Based Compression for Population DNA Sequences
Metrics for Phylogenetic Networks II: Nodal and Triplets Metrics
The Plexus Model for the Inference of Ancestral Multidomain Proteins
Robust Multiobjective Controllability of Complex Neuronal Networks
Improved Algorithms for Finding Gene Teams and Constructing Gene Team Trees
Biological Sequence Classification with Multivariate String Kernels
MeTDiff: A Novel Differential RNA Methylation Analysis for MeRIP-Seq Data
Cross-Domain Classification Model With Knowledge Utilization Maximization for Recognition of Epileptic EEG Signals
Distance-Based Phylogenetic MethodsAround a Polytomy
FexRNA: Exploratory Data Analysis and Feature Selection of Non-Coding RNA
MLCNNF: A Multi-Label Convolutional Neural Network Framework for Predicting Adverse COVID Drug Reactions From the Chemical Structure
Inferring the Number of Contributors to Mixed DNA Profiles
Robust and Privacy-Preserving Decentralized Deep Federated Learning Training: Focusing on Digital Healthcare Applications
United Neighborhood Closeness Centrality and Orthology for Predicting Essential Proteins
Bi-level and Bi-objective p-Median Type Problems for Integrative Clustering: Application to Analysis of Cancer Gene-Expression and Drug-Response Data
Prediction of Protein Backbone Torsion Angles Using Deep Residual Inception Neural Networks
Impact of Synaptic Localization and Subunit Composition of Ionotropic Glutamate Receptors on Synaptic Function: Modeling and Simulation Studies
A Computational Framework for Optimal and Model Predictive Control of Stochastic Gene Regulatory Networks
k-Information Gain Scaled Nearest Neighbors: A Novel Approach to Classifying Protein-Protein Interaction-Related Documents
Exploring Scalable Parallelization for Edit Distance-Based Motif Search
Learning to Refine Expansion Terms for Biomedical Information Retrieval Using Semantic Resources
IAV-CNN: A 2D Convolutional Neural Network Model to Predict Antigenic Variants of Influenza A Virus
Drawing Rooted Phylogenetic Networks
A Novel Vision Transformer Based Multimodal Fusion Approach for Clinical MDD Diagnosis Using EEG and Audio Signals
Evolutionary Pressures on the Yeast Transcriptome
Counting All Possible Ancestral Configurations of Sample Sequences in Population Genetics
Inferring Gene Co-Expression Networks by Incorporating Prior Protein-Protein Interaction Networks
FPGA Accelerated Analysis of Boolean Gene Regulatory Networks
Rearrangement-Based Phylogeny Using the Single-Cut-or-Join Operation
Adaptive Tracking Control for Uncertain Cancer-Tumor-Immune Systems
Quartet-Based Phylogeny Reconstruction with Answer Set Programming
Disease Gene Prediction by Integrating PPI Networks, Clinical RNA-Seq Data and OMIM Data
Compound Interaction Presentation Learning for MHC-Peptide Binding Affinity Prediction
TAPE_selection: Organelle Proteins Classification With TAPE Feature Selection
Extending and Applying Spartan to Perform Temporal Sensitivity Analyses for Predicting Changes in Influential Biological Pathways in Computational Models
Parsimony Score of Phylogenetic Networks: Hardness Results and a Linear-Time Heuristic
Reverse Engineering Molecular Hypergraphs
Cross-Species Protein Function Prediction with Asynchronous-Random Walk
Clustering of Cancer Attributed Networks by Dynamically and Jointly Factorizing Multi-Layer Graphs
SEDA: A Desktop Tool Suite for FASTA Files Processing
Automated Recognition and Analysis of Escape Response in Caenorhabditis Elegans
A Memetic Algorithm for 3D Protein Structure Prediction Problem
Identification of Full and Partial Class Relevant Genes
Assessing the Effectiveness of Causality Inference Methods for Gene Regulatory Networks
Local Traces: An Over-Approximation of the Behavior of the Proteins in Rule-Based Models
Inferring Drug-Target Interactions Based on Random Walk and Convolutional Neural Network
Artificial Intelligence and Blockchain Enabled Smart Healthcare System for Monitoring and Detection of COVID-19 in Biomedical Images
A Generalized Multivariate Approach to Pattern Discovery from Replicated and Incomplete Genome-Wide Measurements
MHGCN: A Multi-Channel Hybrid Graph Convolutional Neural Network for Cancer Drug Response Prediction
Understanding the Limit of Open Search in the Identification of Peptides With Post-translational Modifications - A Simulation-Based Study
Explaining a Weighted DAG with Few Paths for Solving Genome-Guided Multi-Assembly
Effectiveness Analysis of Multiple Initial States Simulated Annealing Algorithm, a Case Study on the Molecular Docking Tool AutoDock Vina
A Stochastic Grammar Approach to Mass Classification in Mammograms
Some Mathematical Refinements Concerning Error Minimization in the Genetic Code
Predicting Protein Function via Semantic Integration of Multiple Networks
Hilbert-Huang Transform for Analysis of Heart Rate Variability in Cardiac Health
An Ontology-Independent Representation Learning for Similar Disease Detection Based on Multi-Layer Similarity Network
A Novel Adaptive Linear Neuron Based on DNA Strand Displacement Reaction Network
Estrogenic Active Stilbene Derivatives as Anti-Cancer Agents: A DFT and QSAR Study
Prediction of DNA Methylation With Long-Range State-Space Models
Dual-Network Cross-Learning for Metabolite-Disease Association Prediction
Quantifying the Effect of Quarantine Control and Optimizing Its Cost in COVID-19 Pandemic
Nonnegative Principal Component Analysis for Cancer Molecular Pattern Discovery
Correction to "Identification of Novel Scaffolds with Dual Role as Antiepileptic and Anti-Breast Cancer"
DeepCGP: A Deep Learning Method to Compress Genome-Wide Polymorphisms for Predicting Phenotype of Rice
Predicting miRNA-Disease Associations via Combining Probability Matrix Feature Decomposition With Neighbor Learning
Guest Editorial: Special Focus on Bioinformatics and Systems Biology
STIC: Predicting Single Nucleotide Variants and Tumor Purity in Cancer Genome
Assortative Mixing in Directed Biological Networks
The Gene-Duplication Problem: Near-Linear Time Algorithms for NNI-Based Local Searches
NGS-FC: A Next-Generation Sequencing Data Format Converter
Computational Methods for the Analysis and Prediction of EGFR-Mutated Lung Cancer Drug Resistance: Recent Advances in Drug Design, Challenges and Future Prospects
DL-m6A: Identification of N6-Methyladenosine Sites in Mammals Using Deep Learning Based on Different Encoding Schemes
Compact Genetic Algorithm-Based Feature Selection for Sequence-Based Prediction of Dengue-Human Protein Interactions
Detecting Differentially Coexpressed Genesfrom Labeled Expression Data: A Brief Review
G-DipC: An Improved Feature Representation Method for Short Sequences to Predict the Type of Cargo in Cell-Penetrating Peptides
Model Reduction Using Piecewise-Linear Approximations Preserves Dynamic Properties of the Carbon Starvation Response in Escherichia coli