yusuke1997/dblp-id-title huggingface dataset:
A New Approach to Implement Absorbing Boundary Condition in Biomolecular Electrostatics
MGFmiRNAloc: Predicting miRNA Subcellular Localization Using Molecular Graph Feature and Convolutional Block Attention Module
Improving Antifreeze Proteins Prediction With Protein Language Models and Hybrid Feature Extraction Networks
Efficiently Detecting Protein Complexes from Protein Interaction Networks via Alternating Direction Method of Multipliers
Quantitative Regular Expressions for Arrhythmia Detection
GenCoder: A Novel Convolutional Neural Network Based Autoencoder for Genomic Sequence Data Compression
Block Search Stochastic Simulation Algorithm (BlSSSA): A Fast Stochastic Simulation Algorithm for Modeling Large Biochemical Networks
Erratum to "QuickVina: Accelerating AutoDock Vina Using Gradient-Based Heuristics for Global Optimization"
iMRSA-Fuse: A Fast and Accurate Computational Approach for Predicting Anti-MRSA Peptides by Fusing Multi-View Information
DNRLMF-MDA: Predicting microRNA-Disease Associations Based on Similarities of microRNAs and Diseases
SPADIS: An Algorithm for Selecting Predictive and Diverse SNPs in GWAS
A Fast Exact Functional Test for Directional Association and Cancer Biology Applications
On the Complexity of uSPR Distance
Stable Gene Signature Selection for Prediction of Breast Cancer Recurrence Using Joint Mutual Information
Protein-Protein Interaction Sites Prediction Using Batch Normalization Based CNNs and Oversampling Method Borderline-SMOTE
TRIAL: A Tool for Finding Distant Structural Similarities
A Method Based On Dual-Network Information Fusion to Predict MiRNA-Disease Associations
Multiclass Kernel-Imbedded Gaussian Processes for Microarray Data Analysis
Spatial Quantification of Cytosolic Ca 2+ Accumulation in Nonexcitable Cells: An Analytical Study
Sorting Linear Genomes with Rearrangements and Indels
RFCM 3 : Computational Method for Identification of miRNA-mRNA Regulatory Modules in Cervical Cancer
Drug Designing against PfHT1 Coupled With Molecular Dynamics in Plasma Membrane Environment Reveals, Ligand-Induced Conformational Change From Open to Closed State
Two-Step Cross-Entropy Feature Selection for Microarrays - Power Through Complementarity
Probabilistic Model Checking Analysis of Palytoxin Effects on Cell Energy Reactions of the Na+/K+-ATPase
Guest Editorial for Special Section on the 12th International Conference on Intelligent Computing (ICIC)
Classification of Protein-Protein Interaction Full-Text Documents Using Text and Citation Network Features
Jointly Analyzing Gene Expression and Copy Number Data in Breast Cancer Using Data Reduction Models
An Unsupervised Graph Based Continuous Word Representation Method for Biomedical Text Mining
Knowledge-Guided Gene Panel Selection for Label-Free Single-Cell RNA-Seq Data: A Reinforcement Learning Perspective
Computational Drug Repositioning with Random Walk on a Heterogeneous Network
Circadian Rhythm Regulated by Tumor Suppressor p53 and Time Delay in Unstressed Cells
A Theoretical Analysis of the Prodrug Delivery System for Treating Antibiotic-Resistant Bacteria
Two-Stage Distance Feature-based Optimization Algorithm for De novo Protein Structure Prediction
Guest Editorial for Selected Papers from BIOKDD 2018 and DMBIH 2018
Does Relaxing the Infinite Sites Assumption Give Better Tumor Phylogenies? An ILP-Based Comparative Approach
Predicting the Pro-Longevity or Anti-Longevity Effect of Model Organism Genes with New Hierarchical Feature Selection Methods
Improved Exact Enumerative Algorithmsfor the Planted ($l$, $d$)-Motif Search Problem
Improving Clinical Decision Making With a Two-Stage Recommender System
Quality Scores Compression of Genomic Sequencing Data: A Comprehensive Review and Performance Evaluation
On Representing Protein Folding Patterns Using Non-Linear Parametric Curves
MGATMDA: Predicting Microbe-Disease Associations via Multi-Component Graph Attention Network
Identification of Functional piRNAs Using a Convolutional Neural Network
Selected Papers of the First International Conference on Algorithms for Computational Biology (AlCoB 2014)
Algorithms for Computational Biology: Seventh Edition
HodgeRankWeight: An Integration Algorithm for Feature Ranking Based on Weight Quantization
Discovery of Functional Motifs from the Interface Region of Oligomeric Proteins Using Frequent Subgraph Mining
Potential circRNA-Disease Association Prediction Using DeepWalk and Nonnegative Matrix Factorization
PACVP: Prediction of Anti-Coronavirus Peptides Using a Stacking Learning Strategy With Effective Feature Representation
Combined Feature Selection and Cancer Prognosis Using Support Vector Machine Regression
scRAE: Deterministic Regularized Autoencoders With Flexible Priors for Clustering Single-Cell Gene Expression Data
Guest Editorial for Special Section on the 16th International Conference on Intelligent Computing (ICIC)
NGCICM: A Novel Deep Learning-Based Method for Predicting circRNA-miRNA Interactions
Novel Methods for Microglia Segmentation, Feature Extraction, and Classification
Genetic Networks and Soft Computing
Integration of Network Biology and Imaging to Study Cancer Phenotypes and Responses
Alignment-Free Sequence Comparison: A Systematic Survey From a Machine Learning Perspective
Inferring Adaptive Regulation Thresholds and Association Rules from Gene Expression Data through Combinatorial Optimization Learning
Drug-Target Interaction Prediction via Graph Auto-Encoder and Multi-Subspace Deep Neural Networks
Cancer Classification from Gene Expression Data by NPPC Ensemble
Prediction of Novel Drugs for Hepatocellular Carcinoma Based on Multi-Source Random Walk
A Neighborhood-Based Global Network Model to Predict Drug-Target Interactions
Predicting miRNA-Disease Associations From miRNA-Gene-Disease Heterogeneous Network With Multi-Relational Graph Convolutional Network Model
Statistical Association Mapping of Population-Structured Genetic Data
ELMo4m6A: A Contextual Language Embedding-Based Predictor for Detecting RNA N6-Methyladenosine Sites
DMFLDA: A Deep Learning Framework for Predicting lncRNA-Disease Associations
Hierarchical Motif Vectors for Prediction of Functional Sites in Amino Acid Sequences Using Quasi-Supervised Learning
Enhancer-FRL: Improved and Robust Identification of Enhancers and Their Activities Using Feature Representation Learning
Genomic Region Operation Kit for Flexible Processing of Deep Sequencing Data
Computer-Aided Biophysical Modeling: A Quantitative Approach to Complex Biological Systems
Graphical Representation and Similarity Analysis of Protein Sequences Based on Fractal Interpolation
Multiseed Lossless Filtration
Optimizing Multiple Seeds for Protein Homology Search
Improving the Prediction of Clinical Outcomes from Genomic Data Using Multiresolution Analysis
Reconstruction of Gene Regulatory Networks Based on Repairing Sparse Low-Rank Matrices
Gene Regulatory Relationship Mining Using Improved Three-Phase Dependency Analysis Approach
An Automated Cell Tracking Approach With Multi-Bernoulli Filtering and Ant Colony Labor Division
Connectivity Significance for Disease Gene Prioritization in an Expanding Universe
Novelty Indicator for Enhanced Prioritization of Predicted Gene Ontology Annotations
Guest Editorial: Introduction to the Special Section on Emerging Security Trends for Biomedical Computations, Devices, and Infrastructures
Prediction of Glioma Grade Using Intratumoral and Peritumoral Radiomic Features From Multiparametric MRI Images
Unidentifiable Divergence Times in Rates-across-Sites Models
Inference of a Dynamic Aging-related Biological Subnetwork via Network Propagation
Novel Algorithm for Coexpression Detection in Time-Varying Microarray Data Sets
GenomeTools: A Comprehensive Software Library for Efficient Processing of Structured Genome Annotations
Bayesian Lookahead Perturbation Policy for Inference of Regulatory Networks
Artificial Intelligence-Driven Image Analysis of Bacterial Cells and Biofilms
The Intrinsic Similarity of Topological Structure in Biological Neural Networks
Semi-Supervised Deep Learning for Cell Type Identification From Single-Cell Transcriptomic Data
AMP 0 : Species-Specific Prediction of Anti-microbial Peptides Using Zero and Few Shot Learning
Leveraging FPGAs for Accelerating Short Read Alignment
Fourier Transform Inequalities for Phylogenetic Trees
Problem of Domain/Building Block Preservation in the Evolution of Biological Macromolecules and Evolutionary Computation
Predicting Protein Functions by Using Unbalanced Random Walk Algorithm on Three Biological Networks
Prediction of Protein-Protein Interactions Using Vision Transformer and Language Model
Identifying LncRNA-Encoded Short Peptides Using Optimized Hybrid Features and Ensemble Learning
Automated Pulmonary Nodule Classification and Detection Using Deep Learning Architectures
Discovering Binding Cores in Protein-DNA Binding Using Association Rule Mining with Statistical Measures
Evolutionary Model for the Statistical Divergence of Paralogous and Orthologous Gene Pairs Generated by Whole Genome Duplication and Speciation
Calculation of the Weight of Evidence for Combined Single-Cell and Extracellular Forensic DNA
Fast Entropic Profiler: An InformationTheoretic Approach for the Discovery ofPatterns in Genomes
DNA Deformation Energy as an Indirect Recognition Mechanism in Protein-DNA Interactions
Temporal Protein Complex Identification Based on Dynamic Heterogeneous Protein Information Network Representation Learning
A Memory Efficient Method for Structure-Based RNA Multiple Alignment
A New Algorithm for Counting Independent Motifs in Probabilistic Networks
Peak Tree: A New Tool for Multiscale Hierarchical Representation and Peak Detection of Mass Spectrometry Data
Identification of Glucose-Binding Pockets in Human Serum Albumin Using Support Vector Machine and Molecular Dynamics Simulations
Robust KALMAN Filter State Estimation for Gene Regulatory Networks
An Annotation Agnostic Algorithm for Detecting Nascent RNA Transcripts in GRO-Seq
Integrative Data Analysis of Multi-Platform Cancer Data with a Multimodal Deep Learning Approach
Detection of Binding Sites on SARS-CoV-2 Spike Protein Receptor-Binding Domain by Molecular Dynamics Simulations in Mixed Solvents
Global Optimization Approach for Parameter Estimation in Stochastic Dynamic Models of Biosystems
Molecular Design Based on Integer Programming and Splitting Data Sets by Hyperplanes
GenoM7GNet: An Efficient N 7 -Methylguanosine Site Prediction Approach Based on a Nucleotide Language Model
Guest Editorial for the 15th Asia Pacific Bioinformatics Conference
Deciphering Key Genes and miRNAs Associated With Hepatocellular Carcinoma via Network-Based Approach
LRTM: Left-Right Transition Matrices for Molecular Association Prediction
Identification of Local Clusters of Mutation Hotspots in Cancer-Related Genes and Their Biological Relevance
Modelling, Characterization of Data-Dependent and Process-Dependent Errors in DNA Data Storage
Analysis of Subtelomeric REXTAL Assemblies Using QUAST
Schema Matching and Data Integration with Consistent Naming on Protein Crystallization Screens
CPInformer for Efficient and Robust Compound-Protein Interaction Prediction
Computing a Smallest Multilabeled Phylogenetic Tree from Rooted Triplets
2D Meets 4G: G-Quadruplexes in RNA Secondary Structure Prediction
Evaluation of Geometric Complementarity between Molecular Surfaces Using Compactly Supported Radial Basis Functions
Guest Editorial: Transfer Learning Methods Used in Medical Imaging and Health Informatics
Classification of Antibacterial Peptides Using Long Short-Term Memory Recurrent Neural Networks
Fast and Practical Algorithms for Planted (l, d) Motif Search
diffMIN: Reconstructing Sample-Specific Differential Gene Regulatory Networks Based on Mutual Information
A Method of Information Protection for Collaborative Deep Learning under GAN Model Attack
Smolign: A Spatial Motifs-Based Protein Multiple Structural Alignment Method
Deep Ring-Wise Block Network for Joint Association Analysis and Alzheimer's Disease Diagnosis With Interpretability
Multi-View Mammographic Density Classification by Dilated and Attention-Guided Residual Learning
Modular Multi-Source Prediction of Drug Side-Effects With DruGNN
Efficient and Accurate OTU Clustering with GPU-Based Sequence Alignment and Dynamic Dendrogram Cutting
Parametric Estimation of the Local False Discovery Rate for Identifying Genetic Associations
Probing the Relation Between Community Evolution in Dynamic Residue Interaction Networks and Xylanase Thermostability
Combining High Speed ELM Learning with a Deep Convolutional Neural Network Feature Encoding for Predicting Protein-RNA Interactions
Inferring Connectivity of Genetic Regulatory Networks Using Information-Theoretic Criteria
Convolutional Neural Network With Graphical Lasso to Extract Sparse Topological Features for Brain Disease Classification
Dynamic Pooling Improves Nanopore Base Calling Accuracy
An Intelligent Two-Stage Evolutionary Algorithm for Dynamic Pathway Identification From Gene Expression Profiles
SODA: Detecting COVID-19 in Chest X-Rays With Semi-Supervised Open Set Domain Adaptation
Gene Expression and Metadata Based Identification of Key Genes for Hepatocellular Carcinoma Using Machine Learning and Statistical Models
Proteomic Evidence for In-Frame and Out-of-Frame Alternatively Spliced Isoforms in Human and Mouse
Multiobjective Identification of Controlling Areas in Neuronal Networks
XGBoost Model for Chronic Kidney Disease Diagnosis
Guest Editorial for Selected Papers From BIOKDD 2023
A Novel Method Using Abstract Convex Underestimation in Ab-Initio Protein Structure Prediction for Guiding Search in Conformational Feature Space
New Genome Sequence Detection via Natural Vector Convex Hull Method
Local Similarity Matrix for Cysteine Disulfide Connectivity Prediction from Protein Sequences
Comparison of Tree-Child Phylogenetic Networks
Circular Clustering With Polar Coordinate Reconstruction
AGML: Adaptive Graph-Based Multi-Label Learning for Prediction of RBP and as Event Associations During EMT
RefinePocket: An Attention-Enhanced and Mask-Guided Deep Learning Approach for Protein Binding Site Prediction
Fine-Scale Genetic Mapping Using Independent Component Analysis
Guest Editors' Introduction to the Special Section: Computational Intelligence Approaches in Computational Biology and Bioinformatics
An Analytical Review of Computational Drug Repurposing
Improving miRNA Disease Association Prediction Accuracy Using Integrated Similarity Information and Deep Autoencoders
Inferring Gene Regulatory Networks via Nonlinear State-Space Models and Exploiting Sparsity
Biomedical Data and Deep Learning Computational Models for Predicting Compound-Protein Relations
Accelerating the Next Generation Long Read Mapping with the FPGA-Based System
Reliable and Fast Estimation of Recombination Rates by Convergence Diagnosis and Parallel Markov Chain Monte Carlo
Finding Possible Promoter Binding Sites in DNA Sequences by Sequential Patterns Mining With Specific Numbers of Gaps
Intra-Inter Graph Representation Learning for Protein-Protein Binding Sites Prediction
Joint Classification and Pairing of Human Chromosomes
(Differential) Co-Expression Analysis of Gene Expression: A Survey of Best Practices
Omics Informatics: From Scattered Individual Software Tools to Integrated Workflow Management Systems
Secondary Structure and Contact Guided Differential Evolution for Protein Structure Prediction
Parameterized BLOSUM Matrices for Protein Alignment
Gene Selection Using Iterative Feature Elimination Random Forests for Survival Outcomes
Meta-Path Methods for Prioritizing Candidate Disease miRNAs
Deep Multi-Dictionary Learning for Survival Prediction With Multi-Zoom Histopathological Whole Slide Images
VARUN: Discovering Extensible Motifs under Saturation Constraints
ZayyuNet - A Unified Deep Learning Model for the Identification of Epigenetic Modifications Using Raw Genomic Sequences
Stochastic Model Simulation Using Kronecker Product Analysis and Zassenhaus Formula Approximation
Computing Phylogenetic Diversity for Split Systems
DeepHDAC3i: Leveraging an Interpretable Deep Learning-Based Framework for the Accelerated Discovery of HDAC3 Inhibitors
Multi-View Kernel Sparse Representation for Identification of Membrane Protein Types
A New Method to Predict RNA Secondary Structure Based on RNA Folding Simulation
nAPOLI: A Graph-Based Strategy to Detect and Visualize Conserved Protein-Ligand Interactions in Large-Scale
How Many Clusters: A Validation Index for Arbitrary-Shaped Clusters
Using Unlabeled Data to Discover Bivariate Causality with Deep Restricted Boltzmann Machines
CDT-CAD: Context-Aware Deformable Transformers for End-to-End Chest Abnormality Detection on X-Ray Images
A New Feature Vector Based on Gene Ontology Terms for Protein-Protein Interaction Prediction
Statistical Alignment with a Sequence Evolution Model Allowing Rate Heterogeneity along the Sequence
Predicting the Survival of Cancer Patients With Multimodal Graph Neural Network
kmmDE: A Non-Parametric Method for Differential Expression Analysis of Time-Course RNA-Seq Data Using Maximum Mean Discrepancy
Extracting Coevolutionary Features from Protein Sequences for Predicting Protein-Protein Interactions
Detection of Outlier Residues for Improving Interface Prediction in Protein Heterocomplexes
Deep Learning-Driven Protein-Ligand Binding Affinity Prediction: Data, Architecture, Training and Evaluation
Examining De Novo Transcriptome Assemblies via a Quality Assessment Pipeline
An Algorithmic Game-Theory Approach for Coarse-Grain Prediction of RNA 3D Structure
Bidirectional Association Discovery Leads to Precise Identification of Lung Cancer Biomarkers and Genome Taxa Class
Hygeia: A Multilabel Deep Learning-Based Classification Method for Imbalanced Electrocardiogram Data
A Sparse Learning Machine for High-Dimensional Data with Application to Microarray Gene Analysis
Using Machine Learning to Improve the Prediction of Functional Outcome in Ischemic Stroke Patients
Hierarchical Hypergraph Learning in Association- Weighted Heterogeneous Network for miRNA- Disease Association Identification
Exploiting the Functional and Taxonomic Structure of Genomic Data by Probabilistic Topic Modeling
Probabilistic Mixture Regression Models for Alignment of LC-MS Data
VMF-SSD: A Novel V-Space Based Multi-Scale Feature Fusion SSD for Apple Leaf Disease Detection
A Graph-Based Approach for the DNA Word Design Problem
LDAH2V: Exploring Meta-Paths Across Multiple Networks for lncRNA-Disease Association Prediction
Phylogenetic Super-Networks from Partial Trees
Deep Sequencing Data Analysis
DiscMLA: An Efficient Discriminative Motif Learning Algorithm over High-Throughput Datasets
TCBB Special Section on the Brazilian Symposium on Bioinformatics 2013
Dock2D: Synthetic Data for the Molecular Recognition Problem
HA-ResNet: Residual Neural Network With Hidden Attention for ECG Arrhythmia Detection Using Two-Dimensional Signal
MVDINET: A Novel Multi-Level Enzyme Function Predictor With Multi-View Deep Interactive Learning
Enhancement of Protein β-Sheet Topology Prediction Using Maximum Weight Disjoint Path Cover
A Deep Learning Approach for Targeted Contrast-Enhanced Ultrasound Based Prostate Cancer Detection
Mutli-Features Prediction of Protein Translational Modification Sites
An Efficient Alignment Algorithm for Searching Simple Pseudoknots over Long Genomic Sequence
MIN: Multi-Channel Interaction Network for Drug-Target Interaction With Protein Distillation
Calculating the Unrooted Subtree Prune-and-Regraft Distance
A Hybrid Ensemble Algorithm Combining AdaBoost and Genetic Algorithm for Cancer Classification with Gene Expression Data
Phylogenetic Placement of Aligned Genomes and Metagenomes With Non-Tree-Like Evolutionary Histories
MGATRx: Discovering Drug Repositioning Candidates Using Multi-View Graph Attention
An Adaptive Multimeme Algorithm for Designing HIV Multidrug Therapies
PointDE: Protein Docking Evaluation Using 3D Point Cloud Neural Network
Improved Node and Arc Multiplicity Estimation in De Bruijn Graphs Using Approximate Inference in Conditional Random Fields
Alignments of RNA Structures
Integrated Analysis of Gene Expression and Copy Number Data on Gene Shaving Using Independent Component Analysis
An End-to-End Knowledge Graph Fused Graph Neural Network for Accurate Protein-Protein Interactions Prediction
Enhancing Transcription Factor Prediction via Domain Knowledge Integration With Logic Tensor Networks
Defining Phylogenetic Network Distances Using Cherry Operations
Inferring the Functions of Proteins from the Interrelationships between Functional Categories
A Novel Encoding and Decoding Calibration Guiding Pathway for Pathological Image Analysis
Haplotyping for Disease Association: A Combinatorial Approach
Guest Editorial for the International Conference on Genome Informatics (GIW 2013)
Efficient Drug-Pathway Association Analysis via Integrative Penalized Matrix Decomposition
An O(N 2 ) Algorithm for Discovering Optimal Boolean Pattern Pairs
A Bridging Centrality Plugin for GEPHI and a Case Study for Mycobacterium Tuberculosis H37Rv
Algorithms for Genome-Scale Phylogenetics Using Gene Tree Parsimony
On the Importance of Comprehensible Classification Models for Protein Function Prediction
Efficient Algorithms for Genomic Duplication Models
GOGCN: Graph Convolutional Network on Gene Ontology for Functional Similarity Analysis of Genes
Parallel Exchange of Randomized SubGraphs for Optimization of Network Alignment: PERSONA
Bioimage-Based Prediction of Protein Subcellular Location in Human Tissue with Ensemble Features and Deep Networks
Classification of a DNA Microarray for Diagnosing Cancer Using a Complex Network Based Method
A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction
On the Complexity of Duplication-Transfer-Loss Reconciliation with Non-Binary Gene Trees
Deep Bidirectional Classification Model for COVID-19 Disease Infected Patients
De Novo Protein Structure Prediction by Model Quality Assessment Dynamic Feedback Mechanism Using Deep Learning
Robust Diverse Multi-View Learning for Cancer Subtyping
Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment
A Method for Inferring Polymers Based on Linear Regression and Integer Programming
Knowledge Guided Feature Aggregation for the Prediction of Chronic Obstructive Pulmonary Disease With Chinese EMRs
Guest Editorial for the 25th International Conference on Genome Informatics (GIW/ISCB-Asia 2014)
A Novel Cluster Head Selection Algorithm Based on Fuzzy Clustering and Particle Swarm Optimization
An Approach for Peptide Identification by De Novo Sequencing of Mixture Spectra
A Uniform Projection Method for Motif Discovery in DNA Sequences
Exploiting Intrastructure Information for Secondary Structure Prediction with Multifaceted Pipelines
Clustering Based Parameter Estimation of Thyroid Hormone Pathway
Deepgmd: A Graph-Neural-Network-Based Method to Detect Gene Regulator Module
Multi-objective Simulated Annealing Variants to Infer Gene Regulatory Network: A Comparative Study
Dissipativity-Based Filtering for Switched Genetic Regulatory Networks with Stochastic Disturbances and Time-Varying Delays
Parameterized Algorithmics for Finding Connected Motifs in Biological Networks
Enhanced Protein Structural Class Prediction Using Effective Feature Modeling and Ensemble of Classifiers
Shifting-and-Scaling Correlation Based Biclustering Algorithm
DNA Watermarking Using Codon Postfix Technique
promSEMBLE: Hard Pattern Mining and Ensemble Learning for Detecting DNA Promoter Sequences
Robust Output Tracking of Boolean Control Networks Subject to Stochastic Function Perturbations
Higher-Order Proximity-Based MiRNA-Disease Associations Prediction
exp2GO: Improving Prediction of Functions in the Gene Ontology With Expression Data
EEG-Based Brain-Computer Interfaces (BCIs): A Survey of Recent Studies on Signal Sensing Technologies and Computational Intelligence Approaches and Their Applications
A New Efficient Data Structure for Storage and Retrieval of Multiple Biosequences
Automated Isolation of Translational Efficiency Bias That Resists the Confounding Effect of GC(AT)-Content
The LASSO and Sparse Least Squares Regression Methods for SNP Selection in Predicting Quantitative Traits