yusuke1997/dblp-id-title huggingface dataset:
A Framework for Semisupervised Feature Generation and Its Applications in Biomedical Literature Mining
Optimizing Phylogenetic Queries for Performance
CPU-GPU Cooperative QoS Optimization of Personalized Digital Healthcare Using Machine Learning and Swarm Intelligence
DeepGene: An Efficient Foundation Model for Genomics Based on Pan-Genome Graph Transformer
Sequence-Based Prediction of Putative Transcription Factor Binding Sites in DNA Sequences of Any Length
FMGNN: A Method to Predict Compound-Protein Interaction With Pharmacophore Features and Physicochemical Properties of Amino Acids
Transfer Learning Based Lightweight Ensemble Model for Imbalanced Breast Cancer Classification
Convex Multi-View Clustering Via Robust Low Rank Approximation With Application to Multi-Omic Data
Model Order and Identifiability of Non-Linear Biological Systems in Stable Oscillation
NCMD: Node2vec-Based Neural Collaborative Filtering for Predicting MiRNA-Disease Association
Unsupervised Feature Selection Using an Integrated Strategy of Hierarchical Clustering With Singular Value Decomposition: An Integrative Biomarker Discovery Method With Application to Acute Myeloid Leukemia
Improved and Promising Identificationof Human MicroRNAs by Incorporatinga High-Quality Negative Set
A Multi-Scale Activity Transition Network for Data Translation in EEG Signals Decoding
Identification of Gene Regulatory Networks Using Variational Bayesian Inference in the Presence of Missing Data
Computational Approaches to Detect Illicit Drug Ads and Find Vendor Communities Within Social Media Platforms
Prediction of R5, X4, and R5X4 HIV-1 Coreceptor Usage with Evolved Neural Networks
Colored Network Motif Analysis by Dynamic Programming Approach: An Application in Host Pathogen Interaction Network
A New Efficient Algorithm for the All Sorting Reversals Problem with No Bad Components
Exact Computation of Coalescent Likelihood for Panmictic and Subdivided Populations under the Infinite Sites Model
Improving the Computational Efficiency of Recursive Cluster Elimination for Gene Selection
High Class-Imbalance in pre-miRNA Prediction: A Novel Approach Based on deepSOM
A Kernelization Algorithm for Finding a Perfect Phylogeny From Mixed Tumor Samples
A Resampling Based Clustering Algorithm for Replicated Gene Expression Data
Private Data Analytics on Biomedical Sensing Data via Distributed Computation
Mutation Region Detection for Closely Related Individuals without a Known Pedigree
iSnoDi-MDRF: Identifying snoRNA-Disease Associations Based on Multiple Biological Data by Ranking Framework
3gClust: Human Protein Cluster Analysis
Degradome Assisted Plant MicroRNA Prediction Under Alternative Annotation Criteria
The Impact of Multiple Protein Sequence Alignment on Phylogenetic Estimation
Distinguishing Endogenous Retroviral LTRs from SINE Elements Using Features Extracted from Evolved Side Effect Machines
Ontology-Based Prediction and Prioritization of Gene Functional Annotations
CollHaps: A Heuristic Approach to Haplotype Inference by Parsimony
Structural SCOP Superfamily Level Classification Using Unsupervised Machine Learning
A Clustering Method Unifying Cell-Type Recognition and Subtype Identification for Tumor Heterogeneity Analysis
MCHMDA: Predicting Microbe-Disease Associations Based on Similarities and Low-Rank Matrix Completion
hc-OTU: A Fast and Accurate Method for Clustering Operational Taxonomic Units Based on Homopolymer Compaction
Bi-Level Error Correction for PacBio Long Reads
sigRGCN: A Robust Residual Graph Convolutional Network for scRNA-Seq Data Clustering
ZiPo: A Deep Neural Network to De-Noise Single-Cell RNA Sequencing Data
Protein Domain Level Cancer Drug Targets in the Network of MAPK Pathways
Tropical Density Estimation of Phylogenetic Trees
PhenoBERT: A Combined Deep Learning Method for Automated Recognition of Human Phenotype Ontology
The Structure of Deviations From Maximum Parsimony for Densely-Sampled Data and Applications for Clade Support Estimation
A Slice-based 13 C-detected NMR Spin System Forming and Resonance Assignment Method
Multiparameter Spectral Representation of Noise-Induced Competence in Bacillus Subtilis
SuperQ: Computing Supernetworks from Quartets
Constructing DNA Barcode Sets Based on Particle Swarm Optimization
SelfAT-Fold: Protein Fold Recognition Based on Residue-Based and Motif-Based Self-Attention Networks
Predicting Cancer Lymph-Node Metastasis From LncRNA Expression Profiles Using Local Linear Reconstruction Guided Distance Metric Learning
Advanced Feature Extraction and Outlier Detection for 3D Biological/Biomedical Image Registration
Molecular Simulations and Markov State Modeling Reveal Inactive Form of Quorum Sensing Regulator SdiA of Escherichia Coli
Comparison of Methods for Biological Sequence Clustering
Inferring Sequential Order of Somatic Mutations during Tumorgenesis based on Markov Chain Model
Gene Selection Integrated with Biological Knowledge for Plant Stress Response Using Neighborhood System and Rough Set Theory
FluPMT: Prediction of Predominant Strains of Influenza A Viruses via Multi-Task Learning
Screening Pipeline for Flavivirus Based Inhibitors for Zika Virus NS1
Analyzing Differential Regulatory Networks Modulated by Continuous-State Genomic Features in Glioblastoma Multiforme
Guest Editorial: Application and Development of Bioinformatics
Effective Identification of Bacterial Genomes From Short and Long Read Sequencing Data
An Efficient Algorithm for the Identification of Structured Motifs in DNA Promoter Sequences
Empirical Study of Protein Feature Representation on Deep Belief Networks Trained With Small Data for Secondary Structure Prediction
Data Perturbation and Recovery of Time Series Gene Expression Data
Detecting Essential Proteins Based on Network Topology, Gene Expression Data, and Gene Ontology Information
K2Mem: Discovering Discriminative K-mers From Sequencing Data for Metagenomic Reads Classification
Improve Glioblastoma Multiforme Prognosis Prediction by Using Feature Selection and Multiple Kernel Learning
Incorporating Nonlinear Relationships in Microarray Missing Value Imputation
Identifying TF Binding Motifs from a Partial Set of Target Genes and its Application to Regulatory Network Inference
Analysis of the Genome Sequence and Prediction of B-Cell Epitopes of the Envelope Protein of Middle East Respiratory Syndrome-Coronavirus
An Application of Invertibility of Boolean Control Networks to the Control of the Mammalian Cell Cycle
Using Gaussian Process with Test Rejection to Detect T-Cell Epitopes in Pathogen Genomes
Identification of Differentially Expressed Genes for Time-Course Microarray Data Based on Modified RM ANOVA
Guest Editorial for Special Section on the 14th International Conference on Intelligent Computing (ICIC)
Structured Penalized Logistic Regression for Gene Selection in Gene Expression Data Analysis
Effectively Clustering Single Cell RNA Sequencing Data by Sparse Representation
A Novel Methodology for a Comprehensive Analysis of Genomic Sequence-to-Graph Alignment Tools
A New Efficient Algorithm for the Gene-Team Problem on General Sequences
Stable Breast Cancer Prognosis
Protein Classification with Extended-Sequence Coding by Sliding Window
GECC: Gene Expression Based Ensemble Classification of Colon Samples
A Multi-Task Deep Feature Selection Method for Brain Imaging Genetics
Prognosis of Clinical Outcomes with Temporal Patterns and Experiences with One Class Feature Selection
Modeling Cell Communication with Time-Dependent Signaling Hypergraphs
Boosting the FM-Index on the GPU: Effective Techniques to Mitigate Random Memory Access
On Position-Specific Scoring Matrix for Protein Function Prediction
A Multi-Laplacian Prior and Augmented Lagrangian Approach to the Exploratory Analysis of Time-Varying Gene and Transcriptional Regulatory Networks for Gene Microarray Data
KGRLFF: Detecting Drug-Drug Interactions Based on Knowledge Graph Representation Learning and Feature Fusion
SLIDER: A Generic Metaheuristic for the Discovery of Correlated Motifs in Protein-Protein Interaction Networks
LHPre: Phage Host Prediction With VAE-Based Class Imbalance Correction and Lyase Sequence Embedding
A Novel Cox Proportional Hazards Model for High-Dimensional Genomic Data in Cancer Prognosis
Phylogenetic Networks: Modeling, Reconstructibility, and Accuracy
Optimal Aggregation of Binary Classifiers for Multiclass Cancer Diagnosis Using Gene Expression Profiles
Protein Complex Detection via Effective Integration of Base Clustering Solutions and Co-Complex Affinity Scores
Predicting Protein Function by Multi-Label Correlated Semi-Supervised Learning
A Simple but Powerful Heuristic Methodfor Accelerating $k$ -Means Clusteringof Large-Scale Data in Life Science
Haplotype Frequency Inference From Pooled Genetic Data With a Latent Multinomial Model
IsAProteinDB: An Indexed Database of Trypsinized Proteins for Fast Peptide Mass Fingerprinting
Deep Pathway Analysis V2.0: A Pathway Analysis Framework Incorporating Multi-Dimensional Omics Data
ADmeth: A Manually Curated Database for the Differential Methylation in Alzheimer's Disease
A Deep Neural Network-Based Co-Coding Method to Predict Drug-Protein Interactions by Analyzing the Feature Consistency Between Drugs and Proteins
WeCoMXP: Weighted Connectivity Measure Integrating Co-Methylation, Co-Expression and Protein-Protein Interactions for Gene-Module Detection
The Complexity of Finding Multiple Solutions to Betweenness and Quartet Compatibility
An Integrative Framework for Combining Sequence and Epigenomic Data to Predict Transcription Factor Binding Sites Using Deep Learning
REPA: Applying Pathway Analysis to Genome-Wide Transcription Factor Binding Data
Empirical Investigations into Full-Text Protein Interaction Article Categorization Task (ACT) in the BioCreative II.5 Challenge
Guest Editorial for the 14 th Asia Pacific Bioinformatics Conference
Identifying Gene Network Rewiring Using Robust Differential Graphical Model with Multivariate $t$t-Distribution
MooSeeker: A Metabolic Pathway Design Tool Based on Multi-Objective Optimization Algorithm
Integrating Multiple Heterogeneous Networks for Novel LncRNA-Disease Association Inference
Nonoverlapping Clone Pooling for High-Throughput Sequencing
EvoMD: An Algorithm for Evolutionary Molecular Design
Attention Recognition in EEG-Based Affective Learning Research Using CFS+KNN Algorithm
PPISB: A Novel Network-Based Algorithm of Predicting Protein-Protein Interactions With Mixed Membership Stochastic Blockmodel
Finimizers: Variable-Length Bounded-Frequency Minimizers for $k$-mer Sets
Multiomics Data Integration of Lipid Metabolism in Hepatocellular Carcinoma Studies Using Bioinformatics Networks Based on Vertical and Horizontal Comparisons
Computational Prediction of Drug Phenotypic Effects Based on Substructure-Phenotype Associations
Mining Quasi-Bicliques from HIV-1-Human Protein Interaction Network: A Multiobjective Biclustering Approach
Robust Bayesian Clustering for Replicated Gene Expression Data
Differential Expression Analysis of RNA-seq Reads: Overview, Taxonomy, and Tools
A Hybrid Supervised Approach to Human Population Identification Using Genomics Data
Optimal Fault Detection and Diagnosis in Transcriptional Circuits Using Next-Generation Sequencing
Predicting Carbon Spectrum in Heteronuclear Single Quantum Coherence Spectroscopy for Online Feedback During Surgery
BRWMDA: Predicting Microbe-Disease Associations Based on Similarities and Bi-Random Walk on Disease and Microbe Networks
Biomarker Signature Discovery from Mass Spectrometry Data
Joint Sparse Collaborative Regression on Imaging Genetics Study of Schizophrenia
Improved Gapped Alignment in BLAST
Predicting Anti-Cancer Drug Response Based on Hypergraph Representation Learning
Protein Remote Homology Detection and Fold Recognition Based on Sequence-Order Frequency Matrix
Network-Based Method for Inferring Cancer Progression at the Pathway Level from Cross-Sectional Mutation Data
A New Distance for High Level RNA Secondary Structure Comparison
DGCA-DTA: A Deep Graph Neural Network Based on Co-Attention for Drug Target Affinity Prediction
Nonconvex Penalty Based Low-Rank Representation and Sparse Regression for eQTL Mapping
Active Module Identification From Multilayer Weighted Gene Co-Expression Networks: A Continuous Optimization Approach
Correction to "A Reaction-Based Model of the State Space of Chemical Reaction Systems Enables Efficient Simulations"
A Novel Scoring Based Distributed Protein Docking Application to Improve Enrichment
Computing the Diameter of the Space of Maximum Parsimony Reconciliations in the Duplication-Transfer-Loss Model
MIMOSA: Algorithms for Microbial Profiling
MG-TCCA: Tensor Canonical Correlation Analysis Across Multiple Groups
Graph Convolutional Autoencoder and Generative Adversarial Network-Based Method for Predicting Drug-Target Interactions
Predicting Cancer Metastasis From DNA Methylation and Gene Expression Profiles
Assessment of Semantic Similarity between Proteins Using Information Content and Topological Properties of the Gene Ontology Graph
Multiscale and Multimodal Analysis for Computational Biology
Microarray Missing Value Imputation: A Regularized Local Learning Method
Toward Better Understanding of Protein Secondary Structure: Extracting Prediction Rules
Helical Three Dimensional Reconstruction Using Bayesian Optimization for Cryogenic Electron Microscopy
Normalizing Kernels in the Billera-Holmes-Vogtmann Treespace
Regularized Non-Negative Matrix Factorization for Identifying Differentially Expressed Genes and Clustering Samples: A Survey
Detecting Pairwise Interactive Effects of Continuous Random Variables for Biomarker Identification with Small Sample Size
Netboost: Boosting-Supported Network Analysis Improves High-Dimensional Omics Prediction in Acute Myeloid Leukemia and Huntington's Disease
Inference of Biological S-System Using the Separable Estimation Method and the Genetic Algorithm
A KG-Enhanced Multi-Graph Neural Network for Attentive Herb Recommendation
Clustering 100, 000 Protein Structure Decoys in Minutes
A Note on GRegNetSim: A Tool for the Discrete Simulation and Analysis of Genetic Regulatory Networks
UDoNC: An Algorithm for Identifying Essential Proteins Based on Protein Domains and Protein-Protein Interaction Networks
Analysis of Organization of the Interactome Using Dominating Sets: A Case Study on Cell Cycle Interaction Networks
Drosophila Gene Expression Pattern Annotation through Multi-Instance Multi-Label Learning
Exploring Consensus RNA Substructural Patterns Using Subgraph Mining
Multi-View Clustering for Integration of Gene Expression and Methylation Data With Tensor Decomposition and Self-Representation Learning
An Improved Topology Prediction of Alpha-Helical Transmembrane Protein Based on Deep Multi-Scale Convolutional Neural Network
MedCo: Enabling Secure and Privacy-Preserving Exploration of Distributed Clinical and Genomic Data
A Robust Algorithm Based on Link Label Propagation for Identifying Functional Modules From Protein-Protein Interaction Networks
SAQ: Semi-Algebraic Quartet Reconstruction
Predicting Hub Genes Associated with Cervical Cancer through Gene Co-Expression Networks
Nucleosome Positioning of Intronless Genes in the Human Genome
An Efficient Algorithm for Approximating Geodesic Distances in Tree Space
Capturing Uncertainty by Modeling Local Transposon Insertion Frequencies Improves Discrimination of Essential Genes
Quantitative Prediction of Peptide Binding to HLA-DP1 Protein
MicroRNA Promoter Identification in Human With a Three-level Prediction Method
COMBING: Clustering in Oncology for Mathematical and Biological Identification of Novel Gene Signatures
BiModule: Biclique Modularity Strategy for Identifying Transcription Factor and microRNA Co-Regulatory Modules
Global Biological Network Alignment by Using Efficient Memetic Algorithm
Finding Patterns in Protein Sequences by Using a Hybrid Multiobjective Teaching Learning Based Optimization Algorithm
Prediction of Five-Year Survival Rate for Rectal Cancer Using Markov Models of Convolutional Features of RhoB Expression on Tissue Microarray
protein2vec: Predicting Protein-Protein Interactions Based on LSTM
Evolution and Controllability of CancerNetworks: A Boolean Perspective
A Knowledge Graph-Based Method for Drug-Drug Interaction Prediction With Contrastive Learning
GapReduce: A Gap Filling Algorithm Based on Partitioned Read Sets
Ontology-Based Search of Genomic Metadata
Quantifying Direct Dependencies in Biological Networks by Multiscale Association Analysis
Guest Editorial for the ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics
Spatial Distribution of Antibiotic-Producing Bacteria in Urban Areas. A Case Study in València (Spain)
frDSM: An Ensemble Predictor With Effective Feature Representation for Deleterious Synonymous Mutation in Human Genome
Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing
Stratified Test Accurately Identifies Differentially Expressed Genes Under Batch Effects in Single-Cell Data
DIC: Deep Imputing and Clustering Single Cell RNA Sequencing Data
Optimization of Signal Decomposition Matched Filtering (SDMF) for Improved Detection of Copy-Number Variations
Computational 3D Assembling Methods for DNA: A Survey
BTR-MCL: A Bioinformatics Tool Recommendation Method With Multi-View Contrastive Learning
A New Binary Biclustering Algorithm Based on Weight Adjacency Difference Matrix for Analyzing Gene Expression Data
Discovering Coherent Biclusters from Gene Expression Data Using Zero-Suppressed Binary Decision Diagrams
MORE: Mixed Optimization for Reverse Engineering - An Application to Modeling Biological Networks Response via Sparse Systems of Nonlinear Differential Equations
Index-Based Network Aligner of Protein-Protein Interaction Networks
Improved Fuzzy Cognitive Maps for Gene Regulatory Networks Inference Based on Time Series Data
Prediction of Protein Functions with Gene Ontology and Interspecies Protein Homology Data
A Network-Based Comparison Between Molecular Apocrine Breast Cancer Tumor and Basal and Luminal Tumors by Joint Graphical Lasso
GPU-Based Point Cloud Superpositioning for Structural Comparisons of Protein Binding Sites
Enhancing Protein Function Prediction Through the Fusion of Multi-Type Biological Knowledge With Protein Language Model and Graph Neural Network
DNA Assembly with De Bruijn Graphs Using an FPGA Platform
Multi-Label Classification With Dual Tail-Node Augmentation for Drug Repositioning
GNNDRP: Graph Neural Network With Multi-Task Learning for Drug Response Prediction
Single-Cell RNA Sequencing Data Interpretation by Evolutionary Multiobjective Clustering
Estimating Genome-Wide Gene Networks Using Nonparametric Bayesian Network Models on Massively Parallel Computers
Definition and Usage of Texture Feature for Biological Sequence
Safety in Multi-Assembly via Paths Appearing in All Path Covers of a DAG
Secure Counting Query Protocol for Genomic Data
Detection of Colorectal Carcinoma Based on Microbiota Analysis Using Generalized Regression Neural Networks and Nonlinear Feature Selection
A New Genomic Wave Adjustment Method for DNA Copy Number Variation Detection
NegSPQ: Similar Patient Query Based on Negative Representation of Genomic Data
A Deep Learning Framework for Identifying Essential Proteins by Integrating Multiple Types of Biological Information
Relational Analysis of CpG Islands Methylation and Gene Expression in Human Lymphomas Using Possibilistic C-Means Clustering and Modified Cluster Fuzzy Density
End-to-End Security for Local and Remote Human Genetic Data Applications at the EGA
Scalable De Novo Genome Assembly Using a Pregel-Like Graph-Parallel System
Fast Prediction of DNA Melting Bubbles Using DNA Thermodynamic Stability
Sorting Signed Permutations by Intergenic Reversals
A Novel Approach to Identify the miRNA-mRNA Causal Regulatory Modules in Cancer
Identification of Cancer Driver Genes based on Dynamic Incentive Model
Multi-Site Meta-Analysis of Morphometry
Sparse Deconvolution of Pulsatile Growth Hormone Secretion in Adolescents
Toward an Embedded SoC for Mobile DNA Sequencing Applications
Equivariant Interaction-Aware Graph Network for Predicting the Binding Affinity of Protein-Ligand
A Deep Segmentation Network of Multi-Scale Feature Fusion Based on Attention Mechanism for IVOCT Lumen Contour
Investigating Deep Learning Based Breast Cancer Subtyping Using Pan-Cancer and Multi-Omic Data
A Novel Recursive Gene Selection Method Based on Least Square Kernel Extreme Learning Machine
An Automated Framework for Histopathological Nucleus Segmentation With Deep Attention Integrated Networks
Identifying Driver Nodes in the Human Signaling Network Using Structural Controllability Analysis
A Biomathematical Model of Tumor Response to Radioimmunotherapy With αPDL1 and αCTLA4
A Fast Ranking Algorithm for Predicting Gene Functions in Biomolecular Networks
Identify Consistent Cross-Modality Imaging Genetic Patterns via Discriminant Sparse Canonical Correlation Analysis
KG-SLomics: Synthetic Lethality Prediction Using Knowledge Graph and Cancer Type-Specific Multiomics Integrated Graph Neural Network
Reversal and Indel Distance With Intergenic Region Information
Biologically Supervised Graph Embedding for Disease Comorbidity Prediction: A Versatile Framework for Various Embedding Techniques and Classifiers
Bayesian Multiresolution Variable Selection for Ultra-High Dimensional Neuroimaging Data
Inferring Unknown Biological Function by Integration of GO Annotations and Gene Expression Data
Inference of Genetic Regulatory Networks with Recurrent Neural Network Models Using Particle Swarm Optimization
Hardware Acceleration of the STRIKE String Kernel Algorithm for Estimating Protein to Protein Interactions
An Independent Filter for Gene Set Testing Based on Spectral Enrichment
$k$-Shape Clustering Enhances Group Lasso for Gene Selection and Sample Classification
Protein Fold Recognition From Sequences Using Convolutional and Recurrent Neural Networks
BioLMiner System: Interaction Normalization Task and Interaction Pair Task in the BioCreative II.5 Challenge
Finding Robust Adaptation Gene Regulatory Networks Using Multi-Objective Genetic Algorithm
Automatic Identification and Classification of Noun Argument Structures in Biomedical Literature
Barking Up The Wrong Treelength: The Impact of Gap Penalty on Alignment and Tree Accuracy
TCLUST: A Fast Method for Clustering Genome-Scale Expression Data
Efficient Algorithms for the Computational Design of Optimal Tiling Arrays
The Metropolized Partial Importance Sampling MCMC Mixes Slowly on Minimum Reversal Rearrangement Paths
PScL-SDNNMAE: Protein Subcellular Localization Prediction Using Classical and Masked Autoencoder-Based Multi-View Features With Ensemble Feature Selection
Bioinformatic Workflow Extraction from Scientific Texts based on Word Sense Disambiguation
A Hill-Climbing Approach for Automatic Gridding of cDNA Microarray Images
Chain-RNA: A Comparative ncRNA Search Tool Based on the Two-Dimensional Chain Algorithm
Coevolutionary Structure-Redesigned-Based Bacterial Foraging Optimization
Incremental RPN: Hierarchical Region Proposal Network for Apple Leaf Disease Detection in Natural Environments
Optimizing a Widely Used Protein Structure Alignment Measure in Expected Polynomial Time
Polynomial-Time Algorithms for Phylogenetic Inference Problems Involving Duplication and Reticulation
Discovering Essential Multiple Gene Effects Through Large Scale Optimization: An Application to Human Cancer Metabolism
High-Order Convolutional Neural Network Architecture for Predicting DNA-Protein Binding Sites
Imbalanced Breast Cancer Classification Using Transfer Learning
Knowledge-Aware Synergistic Discovery of Drug Combinations: A Large Language Model Perspective
EnTSSR: A Weighted Ensemble Learning Method to Impute Single-Cell RNA Sequencing Data
Sampled-Data State Estimation of Reaction Diffusion Genetic Regulatory Networks via Space-Dividing Approaches
Data-Fusion in Clustering Microarray Data: Balancing Discovery and Interpretability
A Generalized Framework for Network Component Analysis
Sorting Signed Permutations by Inverse Tandem Duplication Random Losses
Growing Seed Genes from Time Series Data and Thresholded Boolean Networks with Perturbation