yusuke1997/dblp-id-title huggingface dataset:
Fast Algorithms for Computing Path-Difference Distances
scMID: A Deep Multi-Omics Integration Framework for Comprehensive Single-Cell Data Analysis
Evasive Spike Variants Elucidate the Preservation of T Cell Immune Response to the SARS-CoV-2 Omicron Variant
Multiple Optimal Reconciliations Under the Duplication-Loss-Coalescence Model
Parallel Mutual Information Based Construction of Genome-Scale Networks on the Intel®Xeon Phi™ Coprocessor
Low Rank Subspace Clustering via Discrete Constraint and Hypergraph Regularization for Tumor Molecular Pattern Discovery
Theory and A Heuristic for the Minimum Path Flow Decomposition Problem
imPhy: Imputing Phylogenetic Trees with Missing Information Using Mathematical Programming
Recovering Hidden Diagonal Structures via Non-Negative Matrix Factorization with Multiple Constraints
ChIP-PIT: Enhancing the Analysis of ChIP-Seq Data Using Convex-Relaxed Pair-Wise Interaction Tensor Decomposition
Identifying Taxonomic Units in Metagenomic DNA Streams on Mobile Devices
LNA: Fast Protein Structural Comparison Using a Laplacian Characterization of Tertiary Structure
Special Section: Phylogenetics
Symbiosis-Based Alternative Learning Multi-Swarm Particle Swarm Optimization
Causal Disturbance Analysis: A Novel Graph Centrality Based Method for Pathway Enrichment Analysis
Mining Gene Regulatory Networks by Neural Modeling of Expression Time-Series
Computational Approaches for Automatic Structural Analysis of Large Biomolecular Complexes
A Metric on the Space of Reduced Phylogenetic Networks
Mutagenic Primer Design for Mismatch PCR-RFLP SNP Genotyping Using a Genetic Algorithm
SASA-Net: A Spatial-Aware Self-Attention Mechanism for Building Protein 3D Structure Directly From Inter- Residue Distances
Multimodal Fusion Framework Based on Low-Rank Interaction for Tumor Prognostic Prediction
Federated Learning Empowered Real-Time Medical Data Processing Method for Smart Healthcare
Identifying Electrocardiogram Abnormalities Using a Handcrafted-Rule-Enhanced Neural Network
Exploratory Consensus of Hierarchical Clusterings for Melanoma and Breast Cancer
A Deep Local Patch Matching Network for Cell Tracking in Microscopy Image Sequences Without Registration
An Evolutionary Algorithm Approach for Feature Generation from Sequence Data and Its Application to DNA Splice Site Prediction
Knowledge Guided Attention and Graph Convolutional Networks for Chemical-Disease Relation Extraction
Integrating Similarities via Local Interaction Consistency and Optimizing Area Under the Curve Measures via Matrix Factorization for Drug-Target Interaction Prediction
Continuous Cotemporal Probabilistic Modeling of Systems Biology Networks from Sparse Data
Exploring the Robustness of the Parsimonious Reconciliation Method in Host-Symbiont Cophylogeny
SgRNA-RF: Identification of SgRNA On-Target Activity With Imbalanced Datasets
BiAtt-GVAE: Molecular Design for Specific Target via Graph Variational Autoencoder Based on Bi-Channel Interactive Attention Network
Bayesian Network Construction and Genotype-Phenotype Inference Using GWAS Statistics
AF2Ring: A Memory Efficient Method for Predicting Quaternary Structure of Cyclic Protein Oligomers
META-BASE: A Novel Architecture for Large-Scale Genomic Metadata Integration
Mining the Enriched Subgraphs for Specific Vertices in a Biological Graph
Amino Acid Encoding Methods for Protein Sequences: A Comprehensive Review and Assessment
Document-Level Biomedical Relation Extraction via Knowledge-Enhanced Graph and Dynamic Generative Adversarial Networks
Improved Multiple Sequence Alignments Using Coupled Pattern Mining
Exploring Molecular Descriptors and Fingerprints to Predict mTOR Kinase Inhibitors using Machine Learning Techniques
A Mathematical Model for the Validation of Gene Selection Methods
Finding Significant Matches of Position Weight Matrices in Linear Time
Drug-Target Interaction Prediction with Graph Regularized Matrix Factorization
A Fast and Furious Bayesian Network and Its Application of Identifying Colon Cancer to Liver Metastasis Gene Regulatory Networks
Complex Disease Genes Identification Using a Heterogeneous Network Embedding Approach
Modelling and Control of Gene Regulatory Networks for Perturbation Mitigation
Optimal Supervised Reduction of High Dimensional Transcription Data
Pattern Discovery in Multilayer Networks
scHOIS: Determining Cell Heterogeneity Through Hierarchical Clustering Based on Optimal Imputation Strategy
Concurrent and Accurate Short Read Mapping on Multicore Processors
A Partial Least Squares Based Procedure for Upstream Sequence Classification in Prokaryotes
Protein-DNA Binding Residue Prediction via Bagging Strategy and Sequence-Based Cube-Format Feature
RNA-Protein Binding Sites Prediction via Multi Scale Convolutional Gated Recurrent Unit Networks
A Hybrid Approach to Survival Model Building Using Integration of Clinical and Molecular Information in Censored Data
Gene Association Networks from Microarray Data Using a Regularized Estimation of Partial Correlation Based on PLS Regression
Identification of Enriched Regions in ChIP-Seq Data via a Linear-Time Multi-Level Thresholding Algorithm
Parallel Implementation of MAFFT on CUDA-Enabled Graphics Hardware
Extra Trees Method for Predicting LncRNA-Disease Association Based On Multi-Layer Graph Embedding Aggregation
Synchronization of Hyper-Lorenz System Based on DNA Strand Displacement
DSTPCA: Double-Sparse Constrained Tensor Principal Component Analysis Method for Feature Selection
iPhosH-PseAAC: Identify Phosphohistidine Sites in Proteins by Blending Statistical Moments and Position Relative Features According to the Chou's 5-Step Rule and General Pseudo Amino Acid Composition
Implementation and Evaluation of an Algorithm for Cryptographically Private Principal Component Analysis on Genomic Data
Flexible Non-Negative Matrix Factorization to Unravel Disease-Related Genes
Seq-BEL: Sequence-Based Ensemble Learning for Predicting Virus-Human Protein-Protein Interaction
SMGCN: Multiple Similarity and Multiple Kernel Fusion Based Graph Convolutional Neural Network for Drug-Target Interactions Prediction
RDCurve: A Nonparametric Method to Evaluate the Stability of Ranking Procedures
A Real-Time de novo DNA Sequencing Assembly Platform Based on an FPGA Implementation
Component-Based Modeling and Reachability Analysis of Genetic Networks
Multi-Block Bipartite Graph for Integrative Genomic Analysis
CPGL: Prediction of Compound-Protein Interaction by Integrating Graph Attention Network With Long Short-Term Memory Neural Network
PNAGMDA: A Principal Neighborhood Aggregation Based Graph Neural Network for miRNA-Disease Association Prediction
D-UNet: A Dimension-Fusion U Shape Network for Chronic Stroke Lesion Segmentation
Resting State Functional Connectivity Analysis During General Anesthesia: A High-Density EEG Study
Machine Learning Techniques for the Automated Classification of Adhesin-Like Proteins in the Human Protozoan Parasite Trypanosoma cruzi
ARHap: Association Rule Haplotype Phasing
RatGene: Gene Deletion-Addition Algorithms Using Growth to Production Ratio for Growth-Coupled Production in Constraint-Based Metabolic Networks
Improved Predicting of The Sequence Specificities of RNA Binding Proteins by Deep Learning
Subcellular Localization Prediction through Boosting Association Rules
Inference of Tumor Progression Patterns in Colon Cancer Using Optimal Cell Order Analysis in Single Cell Resolution
Parallel and Space-Efficient Construction of Burrows-Wheeler Transform and Suffix Array for Big Genome Data
A Characterization of the Set of Species Trees that Produce Anomalous Ranked Gene Trees
Prediction and Informative Risk Factor Selection of Bone Diseases
Parallel Methods for Finding $k$k-Mismatch Shortest Unique Substrings Using GPU
Optimal Block-Based Trimming for Next Generation Sequencing
A Knowledge Graph-Enhanced Tensor Factorisation Model for Discovering Drug Targets
An Effective Swarm Intelligence Optimization Algorithm for Flexible Ligand Docking
Biological Event Trigger Identification with Noise Contrastive Estimation
DeepLigType: Predicting Ligand Types of Protein-Ligand Binding Sites Using a Deep Learning Model
Predicting Novel Human Gene Ontology Annotations Using Semantic Analysis
Optimization of Gene Set Annotations Using Robust Trace-Norm Multitask Learning
Novel Regularization Method for Biomarker Selection and Cancer Classification
Quantum Gate Circuit Model of Signal Integration in Bacterial Quorum Sensing
Similarity Fusion via Exploiting High Order Proximity for Cancer Subtyping
P2GT: Fine-Grained Genomic Data Access Control With Privacy-Preserving Testing in Cloud Computing
Guest Editorial for Special Section on the 7th National Conference on Bioinformatics and Systems Biology of China
A Segmentation-Based Method to Extract Structural and Evolutionary Features for Protein Fold Recognition
A Distributed Feature Selection Algorithm Based on Distance Correlation with an Application to Microarrays
MGOL: Molecule Generation With Ordering Loss
Exact Identification of the Structure of a Probabilistic Boolean Network from Samples
GrapHiC: An Integrative Graph Based Approach for Imputing Missing Hi-C Reads
Machine Learned Replacement of N-Labels for Basecalled Sequences in DNA Barcoding
Robustness of Topological Supertree Methods for Reconciling Dense Incompatible Data
A Generalized Lattice Based Probabilistic Approach for Metagenomic Clustering
Predicting MicroRNA-Disease Associations Based on Improved MicroRNA and Disease Similarities
Oligo Design with Single Primer Binding Site for High Capacity DNA-Based Data Storage
Product Grammars for Alignment and Folding
Genomic Distance with High Indel Costs
Decentralized Reinforcement Learning for Asymmetric Gene Network Interventions
Performance Analysis of Chemotaxis Controllers: Which has Better Chemotaxis Controller, Escherichia coli or Paramecium caudatum?
NTSHMDA: Prediction of Human Microbe-Disease Association Based on Random Walk by Integrating Network Topological Similarity
Noise Reduction Learning Based on XLNet-CRF for Biomedical Named Entity Recognition
Inferring Disease-Associated microRNAs in Heterogeneous Networks with Node Attributes
Protein-Protein Interaction Site Prediction Based on Attention Mechanism and Convolutional Neural Networks
Solving the Secondary Structure MatchingProblem in Cryo-EM De Novo ModelingUsing a Constrained $K$-Shortest Path Graph Algorithm
PairProSVM: Protein Subcellular Localization Based on Local Pairwise Profile Alignment and SVM
A Cell-Cell Interaction Network Based Method for Identifying Lymph Node Metastasis and Characterizing Lung Cancer Progression
A Gene Selection Method for Microarray Data Based on Binary PSO Encoding Gene-to-Class Sensitivity Information
Employing Machine Learning Techniques to Detect Protein Function: A Survey, Experimental, and Empirical Evaluations
TRGH-PPI: Effective and Generalized Prediction of Protein-Protein Interactions Through Transformer and Graph
Compact Class-Conditional Attribute Category Clustering: Amino Acid Grouping for Enhanced HIV-1 Protease Cleavage Classification
Quantitative Analysis of the Self-Assembly Strategies of Intermediate Filaments from Tetrameric Vimentin
Graph Representation Learning Based on Specific Subgraphs for Biomedical Interaction Prediction
DualF-PBR: Dual-Extracting Protein Sequence Features for Predicting Plant Resistance Proteins
GLassonet: Identifying Discriminative Gene Sets Among Molecular Subtypes of Breast Cancer
Are My EHRs Private Enough? Event-Level Privacy Protection
A Novel Teaching-Learning-Based Optimization for Improved Mutagenic Primer Design in Mismatch PCR-RFLP SNP Genotyping
Identifying Spurious Interactions and Predicting Missing Interactions in the Protein-Protein Interaction Networks via a Generative Network Model
Multiobjective Optimization in Bioinformatics and Computational Biology
Optimal ROC-Based Classification and Performance Analysis under Bayesian Uncertainty Models
A Multiple-Filter-Multiple-Wrapper Approach to Gene Selection and Microarray Data Classification
An Eigen-Binding Site Based Method for the Analysis of Anti-EGFR Drug Resistance in Lung Cancer Treatment
Network-Based Methods to Identify Highly Discriminating Subsets of Biomarkers
Laplacian Regularized Sparse Representation Based Classifier for Identifying DNA N4-Methylcytosine Sites via $L_{2,1/2}$L2,1/2-Matrix Norm
TNet: Transmission Network Inference Using Within-Host Strain Diversity and its Application to Geographical Tracking of COVID-19 Spread
Best Match Graphs With Binary Trees
An Efficient and Very Accurate Method for Calculating Steady-State Sensitivities in Metabolic Reaction Systems
In Silico Design and Experimental Validation of Combination Therapy for Pancreatic Cancer
Prediction of Multiple Types of RNA Modifications via Biological Language Model
MPSO-CD: A Multi-Objective Particle Swarm Optimization Community Detection Method for Identifying Disease Modules
acc-Motif: Accelerated Network Motif Detection
Assessing Global-Local Secondary Structure Fingerprints to Classify RNA Sequences With Deep Learning
Imbalance Data Processing Strategy for Protein Interaction Sites Prediction
SeeSite: Characterizing Relationships between Splice Junctions and Splicing Enhancers
Predictive Modeling of Hospital Readmission: Challenges and Solutions
Disruption of Protein Complexes from Weighted Complex Networks
Parallel Clustering Algorithm for Large Data Sets with Applications in Bioinformatics
EMS3: An Improved Algorithm for Finding Edit-Distance Based Motifs
Spatial Stochastic Model of the Pre-B Cell Receptor
UMMAN: Unsupervised Multi-Graph Merge Adversarial Network for Disease Prediction Based on Intestinal Flora
MultiMotifMaker: A Multi-Thread Tool for Identifying DNA Methylation Motifs from Pacbio Reads
MLProbs: A Data-Centric Pipeline for Better Multiple Sequence Alignment
MCNN: Multiple Convolutional Neural Networks for RNA-Protein Binding Sites Prediction
DISHIC: An Effective Method for Identifying Differential Interaction in Single-Cell Hi-C
A Comprehensive Statistical Model for Cell Signaling
LGH: A Fast and Accurate Algorithm for Single Individual Haplotyping Based on a Two-Locus Linkage Graph
A Supervised Ensemble Approach for Sensitive microRNA Target Prediction
Algorithms and Complexity Results for Genome Mapping Problems
Generic Context-Aware Group Contributions
Fast Construction of Near Parsimonious Hybridization Networks for Multiple Phylogenetic Trees
A Markov-Blanket-Based Model for Gene Regulatory Network Inference
Extracting Stage-Specific and Dynamic Modules Through Analyzing Multiple Networks Associated with Cancer Progression
Ranking Top-$k$ Trees in Tree-Based Phylogenetic Networks
Efficient Algorithms for Finding the Closest $l$l-Mers in Biological Data
Efficient Genotype Elimination via Adaptive Allele Consolidation
Network Modeling and Control of Dynamic Disease Pathways, Review and Perspectives
A More Efficient Dynamic Programming Algorithm for Designing a Coding Sequence by Jointly Optimizing Its Structural Stability and Codon Usage
A Machine Learning Based Approach to de novo Sequencing of Glycans from Tandem Mass Spectrometry Spectrum
SSP-Net: A Siamese-Based Structure-Preserving Generative Adversarial Network for Unpaired Medical Image Enhancement
Network Classification Based on Reducibility With Respect to the Stability of Canalizing Power of Genes in a Gene Regulatory Network - A Boolean Network Modeling Perspective
Reconstructing Recombination Network from Sequence Data: The Small Parsimony Problem
A SAT-Based Algorithm for Finding Attractors in Synchronous Boolean Networks
Automatic Myonuclear Detection in IsolatedSingle Muscle Fibers Using Robust EllipseFitting and Sparse Representation
CMStalker: A Combinatorial Tool for Composite Motif Discovery
Automated ICD-9 Coding via A Deep Learning Approach
IsoCell: An Approach to Enhance Single Cell Clustering by Integrating Isoform-Level Expression Through Orthogonal Projection
CIR-Net: Automatic Classification of Human Chromosome Based on Inception-ResNet Architecture
Reinforced Metapath Optimization in Heterogeneous Information Networks for Drug-Target Interaction Prediction
Application of Dempster-Schafer Method in Family-Based Association Studies
Guest Editorial for Special Section on the Sixth National Conference on Bioinformatics and System Biology of China
Genome Rearrangement Based on Reversals that Preserve Conserved Intervals
Measuring Boundedness for Protein Complex Identification in PPI Networks
scCAN: Clustering With Adaptive Neighbor-Based Imputation Method for Single-Cell RNA-Seq Data
Transient Dynamics of Reduced-Order Models of Genetic Regulatory Networks
SRPM-Sol: A Structure Robust Protein Multimodal Model for Solubility Prediction
Constructing a Cancer Patient-Specific Network Based on Second-Order Partial Correlations of Gene Expression and DNA Methylation
DeepDSC: A Deep Learning Method to Predict Drug Sensitivity of Cancer Cell Lines
Ab-Initio Membrane Protein Amphipathic Helix Structure Prediction Using Deep Neural Networks
Discovery of Bioactive Constituents for Colitis From Traditional Chinese Medicine Prescription via Deep Neural Network
A Powerful Approach for Effective Finding of Significantly Differentially Expressed Genes
Multi-Domain Networks Association for Biological Data Using Block Signed Graph Clustering
Intelligent Consensus Modeling for ProlineCis-Trans Isomerization Prediction
Fine-Grained Lesion Classification Framework for Early Auxiliary Diagnosis
Algorithms for Computational Biology: Third Edition
Intra-Cluster Distance Minimization in DNA Methylation Analysis Using an Advanced Tabu-Based Iterative $k$k-Medoids Clustering Algorithm (T-CLUST)
Transductive Learning for Multi-Label Protein Subchloroplast Localization Prediction
Associate Editor Appreciation and Welcome
Learning a Structural and Functional Representation for Gene Expressions: To Systematically Dissect Complex Cancer Phenotypes
Heterogeneous Domain Adaptation for IHC Classification of Breast Cancer Subtypes
Online Estimation Method for Respiratory Parameters Based on a Pneumatic Model
Enhancing the Robustness of Random Boolean Networks by Epigenetic Regulation
Convolution Neural Networks Using Deep Matrix Factorization for Predicting Circrna-Disease Association
Disease Liability Prediction from Large Scale Genotyping Data Using Classifiers with a Reject Option
Identification of Short Exons Disunited by a Short Intron in Eukaryotic DNA Regions
Deep Learning for Drug Discovery and Cancer Research: Automated Analysis of Vascularization Images
Modeling mRNA Translation With Ribosome Abortions
Maximum-Scoring Segment Sets
Gene Mapping and Marker Clustering Using Shannon's Mutual Information
Computational Problems in Perfect Phylogeny Haplotyping: Typing without Calling the Allele
SCAMPP: Scaling Alignment-Based Phylogenetic Placement to Large Trees
Corrections to "Comorbidity Scoring With Causal Disease Networks"
Pattern Classification of Instantaneous Cognitive Task-load Through GMM Clustering, Laplacian Eigenmap, and Ensemble SVMs
An Efficient Ensemble Learning Approach for Predicting Protein-Protein Interactions by Integrating Protein Primary Sequence and Evolutionary Information
An Exact Algorithm for Sorting by Weighted Preserving Genome Rearrangements
A Hybrid Ensemble End-to-End Neural Network for Accurate Protein-Protein Interactions Prediction
Efficient Approach to Correct Read Alignment for Pseudogene Abundance Estimates
Prediction of Growth Factor-Dependent Cleft Formation During Branching Morphogenesis Using A Dynamic Graph-Based Growth Model
A Fusion Model With Effective Multi-Scale Parallel Transformer for Cellular Segmentation
MLDEG: A Machine Learning Approach to Identify Differentially Expressed Genes Using Network Property and Network Propagation
ELF: Extract Landmark Features By Optimizing Topology Maintenance, Redundancy, and Specificity
Relation Extraction From Biomedical and Clinical Text: Unified Multitask Learning Framework
A Review of RNA Structure Prediction: Exploring the Potential of Computational Approaches
Identification of DNA-Binding and Protein-Binding Proteins Using Enhanced Graph Wavelet Features
Soft Ngram Representation and Modeling for Protein Remote Homology Detection
Nature-Inspired Meta-Heuristic Algorithms for Detecting Protein Complexes in Protein-Protein Interaction Networks: A Survey
Predicting TF Proteins by Incorporating Evolution Information Through PSSM
Discovering Protein-DNA Binding Cores by Aligned Pattern Clustering
Predicting RBP Binding Sites of RNA With High-Order Encoding Features and CNN-BLSTM Hybrid Model
Inverse Projection Representation and Category Contribution Rate for Robust Tumor Recognition
CaverDock: A Novel Method for the Fast Analysis of Ligand Transport
A Genomic Analysis Pipeline and Its Application to Pediatric Cancers
Using Uncorrelated Discriminant Analysis for Tissue Classification with Gene Expression Data
Optimization of Highly Robust DNA Storage Schemes Based on Specific Base Sequences
HGNNLDA: Predicting lncRNA-Drug Sensitivity Associations via a Dual Channel Hypergraph Neural Network
A Hierarchical Discriminative Sparse Representation Classifier for EEG Signal Detection
MISSIM: An Incremental Learning-Based Model With Applications to the Prediction of miRNA-Disease Association
M 2 BA-MDA: A Multi-Modal Multi-View Bidirectional Attention Network for Microbe-Disease Association Prediction
PMDAGS: Predicting miRNA-Disease Associations With Graph Nonlinear Diffusion Convolution Network and Similarities
Hybrid Framework Using Multiple-Filters and an Embedded Approach for an Efficient Selection and Classification of Microarray Data
Identifying miRNA-Gene Common and Specific Regulatory Modules for Cancer Subtyping by a High-Order Graph Matching Model
Constructive Prediction of Potential RNA Aptamers for a Protein Target
Prediction of FMN Binding Sites in Electron Transport Chains Based on 2-D CNN and PSSM Profiles
scTECTA: Asymmetric Deep Transfer Learning for Cross-Patient Tumor Microenvironment Single-Cell Annotation
Efficient Formulations for Exact Stochastic Simulation of Chemical Systems
MUSIC-GCN: A Novel Multi-Tasking Pipeline for Analyzing Single-Cell Transcriptomic Data Using Residual Graph Convolution Network
F 2 Dock: Fast Fourier Protein-Protein Docking
A Comparison of Topologically Associating Domain Callers Based on Hi-C Data
PRBP: Prediction of RNA-Binding Proteins Using a Random Forest Algorithm Combined with an RNA-Binding Residue Predictor
NegStacking: Drug-Target Interaction Prediction Based on Ensemble Learning and Logistic Regression
SCJ: A Breakpoint-Like Distance that Simplifies Several Rearrangement Problems
Efficient Constant-Time Complexity Algorithm for Stochastic Simulation of Large Reaction Networks
Pubcast and Genecast: Browsing and Exploring Publications and Associated Curated Content in Biology Through Mobile Devices
Recurrence Network Analysis of Histopathological Images for the Detection of Invasive Ductal Carcinoma in Breast Cancer
Efficient Approaches for Retrieving Protein Tertiary Structures
The JigCell Model Builder: A Spreadsheet Interface for Creating Biochemical Reaction Network Models
SynPAM-A Distance Measure Based on Synonymous Codon Substitutions
Discovery of Spatially Cohesive Itemsets in Three-Dimensional Protein Structures
Deep Conditional Random Field Approach to Transmembrane Topology Prediction and Application to GPCR Three-Dimensional Structure Modeling
Graph Convolutional Networks for Drug Response Prediction
Gene Expressions, Hippocampal Volume Loss, and MMSE Scores in Computation of Progression and Pharmacologic Therapy Effects for Alzheimer's Disease
EMatch: Discovery of High Resolution Structural Homologues of Protein Domains in Intermediate Resolution Cryo-EM Maps
RnaPredict-An Evolutionary Algorithm for RNA Secondary Structure Prediction
Exhaustive Exploitation of Nature-Inspired Computation for Cancer Screening in an Ensemble Manner
Subject-Independent Emotion Recognition of EEG Signals Based on Dynamic Empirical Convolutional Neural Network
An Adaptive Window Length Strategy for Eukaryotic CDS Prediction
Explainable Reasoning Path Inference of Anti-Cancer Drug Sensitivity on Genomic Knowledge Graph via Macro-Micro Agent Collaborative Reinforcement Learning