yusuke1997/dblp-id-title huggingface dataset:
ILDMSF: Inferring Associations Between Long Non-Coding RNA and Disease Based on Multi-Similarity Fusion
Integrative Biological Network Analysis to Identify Shared Genes in Metabolic Disorders
CAVER: Algorithms for Analyzing Dynamics of Tunnels in Macromolecules
RNA Secondary Structure Prediction Using Soft Computing
Guest Editorial for Special Section on Big Data Computing and Processing in Computational Biology and Bioinformatics
Deep Transfer Learning-Based Multi-Modal Digital Twins for Enhancement and Diagnostic Analysis of Brain MRI Image
RF-NR: Random Forest Based Approach for Improved Classification of Nuclear Receptors
On the Distribution of the Number of Cycles in the Breakpoint Graph of a Random Signed Permutation
APMG: 3D Molecule Generation Driven by Atomic Chemical Properties
A Bin-Based Indexing for Scalable Range Join on Genomic Data
Accurate Reconstruction for DNA Sequencing by Hybridization Based on a Constructive Heuristic
DeepSeqPanII: An Interpretable Recurrent Neural Network Model With Attention Mechanism for Peptide-HLA Class II Binding Prediction
The Discovery of Mutated Driver Pathways in Cancer: Models and Algorithms
Fast and Scalable Feature Selection for Gene Expression Data Using Hilbert-Schmidt Independence Criterion
Toward Verified Biological Models
GNNSynergy: A Multi-View Graph Neural Network for Predicting Anti-Cancer Drug Synergy
Deep Neural Networks for In Situ Hybridization Grid Completion and Clustering
Hardware Accelerator for the Multifractal Analysis of DNA Sequences
Predicting miRNA-Disease Associations via Meta-Path Embedding
Computing Manhattan Path-Difference Median Trees: A Practical Local Search Approach
A Preprocessing Procedure for Haplotype Inference by Pure Parsimony
Effective Cancer Subtype and Stage Prediction via Dropfeature-DNNs
Fast Parallel Markov Clustering in Bioinformatics Using Massively Parallel Computing on GPU with CUDA and ELLPACK-R Sparse Format
Protein Crystallization Identification via Fuzzy Model on Linear Neighborhood Representation
BRANE Clust: Cluster-Assisted Gene Regulatory Network Inference Refinement
An Efficient Approach Towards the Source-Target Control of Boolean Networks
Unsupervised Binning of Metagenomic Assembled Contigs Using Improved Fuzzy C-Means Method
Towards Unsupervised Gene Selection: A Matrix Factorization Framework
Sorting Circular Permutations by Super Short Reversals
Deep Learning for Plant Species Classification Using Leaf Vein Morphometric
Tuberculosis Diagnosis Using Deep Transferred EfficientNet
Infer Metagenomic Abundance and Reveal Homologous Genomes Based on the Structure of Taxonomy Tree
Predicting MHC-II Binding Affinity Using Multiple Instance Regression
Superposition and Alignment of Labeled Point Clouds
LDCMFC: Predicting Long Non-Coding RNA and Disease Association Using Collaborative Matrix Factorization Based on Correntropy
SCRN: Single-Cell Gene Regulatory Network Identification in Alzheimer's Disease
A CNN-LSTM Ensemble Model for Predicting Protein-Protein Interaction Binding Sites
DBgDel: Database-Enhanced Gene Deletion Framework for Growth-Coupled Production in Genome-Scale Metabolic Models
Approximate Graph Edit Distance in Quadratic Time
Search for a Minimal Set of Parameters by Assessing the Total Optimization Potential for a Dynamic Model of a Biochemical Network
From Protein Sequence to Protein Function via Multi-Label Linear Discriminant Analysis
SAU-Net: A Unified Network for Cell Counting in 2D and 3D Microscopy Images
New Deep Learning Methods for Protein Loop Modeling
NCYPred: A Bidirectional LSTM Network With Attention for Y RNA and Short Non-Coding RNA Classification
An Entropy-Based Method for Identifying Mutual Exclusive Driver Genes in Cancer
An Information Theoretic Exploratory Method for Learning Patterns of Conditional Gene Coexpression from Microarray Data
Optimization of cDNA Microarray Experimental Designs Using an Evolutionary Algorithm
Modelling Microbial Fuel Cells Using Lattice Boltzmann Methods
Multiobjective Optimization Based-Approach for Discovering Novel Cancer Therapies
WGRLR: A Weighted Group Regularized Logistic Regression for Cancer Diagnosis and Gene Selection
Effect of Incomplete Lineage SortingOn Tree-Reconciliation-Based Inferenceof Gene Duplication
The Delfos Platform: A Conceptual Model-Based Solution for the Enhancement of Precision Medicine
Predicting Hospital Readmission via Cost-Sensitive Deep Learning
Using GPUs for the Exact Alignment of Short-Read Genetic Sequences by Means of the Burrows-Wheeler Transform
Bio-Driven Cell Region Detection in Human Embryonic Stem Cell Assay
Trans-Driver: A Deep Learning Approach for Cancer Driver Gene Discovery With Multi-Omics Data
Mitigating Catastrophic Forgetting in Molecular Property Prediction via Refresh Learning and Pareto Optimization
Resolution Tradeoffs in Modularity Clustering of Single Cell RNA-Seq Datasets
Accurate Annotation for Differentiating and Imbalanced Cell Types in Single-Cell Chromatin Accessibility Data
An Efficient Method for Modeling Kinetic Behavior of Channel Proteins in Cardiomyocytes
Sampled-Data Stabilization for Fuzzy Genetic Regulatory Networks with Leakage Delays
Recipe for Uncovering Predictive Genes Using Support Vector Machines Based on Model Population Analysis
An Extensive Empirical Comparison of Probabilistic Hierarchical Classifiers in Datasets of Ageing-Related Genes
Optimal Structured Matrix Approximation for Robustness to Incomplete Biosequence Data
A Review of Fusion Methods for Omics and Imaging Data
Peptide Reranking with Protein-Peptide Correspondence and Precursor Peak Intensity Information
Burial Level Change Defines a High Energetic Relevance for Protein Binding Interfaces
TreeDT: Tree Pattern Mining for Gene Mapping
Inferring Markov Chains to Describe Convergent Tumor Evolution With CIMICE
An Optimization Rule for In Silico Identification of Targeted Overproduction in Metabolic Pathways
A Divide and Conquer Approach for Construction of Large-Scale Signaling Networks from PPI and RNAi Data Using Linear Programming
Predicting Microbe-Disease Association Based on Multiple Similarities and LINE Algorithm
Functional Genomics Platform, A Cloud-Based Platform for Studying Microbial Life at Scale
Improving the Robustness of Local Network Alignment: Design and Extensive Assessmentof a Markov Clustering-Based Approach
Network-Regularized Sparse Logistic Regression Models for Clinical Risk Prediction and Biomarker Discovery
IGNSCDA: Predicting CircRNA-Disease Associations Based on Improved Graph Convolutional Network and Negative Sampling
Initializing Partition-Optimization Algorithms
High-Throughput Ligand Screening via Preclustering and Evolved Neural Networks
Visual Life Sciences Workflow Design Using Distributed and Heterogeneous Resources
SLPA-Net: A Real-Time Recognition Network for Intelligent Stomata Localization and Phenotypic Analysis
Guest Editorial: Introduction to the Special Section on Bioinformatics Research and Applications
Computerized Classification of Prostate Cancer Gleason Scores from Whole Slide Images
Unified Deep Learning Architecture for Modeling Biology Sequence
Intervention in Gene Regulatory Networks via Phenotypically Constrained Control Policies Based on Long-Run Behavior
Prediction and Validation of Disease Genes Using HeteSim Scores
A Machine Learning Approach for Accurate Annotation of Noncoding RNAs
A Parallel Tiled and Sparsified Four-Russians Algorithm for Nussinov's RNA Folding
Ranked k-Spectrum Kernel for Comparative and Evolutionary Comparison of Exons, Introns, and CpG Islands
End-to-End Representation Learning for Chemical-Chemical Interaction Prediction
Incorporation of Solvent Effect into Multi-Objective Evolutionary Algorithm for Improved Protein Structure Prediction
Editorial: From the New Editor-in-Chief
An IR-Based Approach Utilizing Query Expansion for Plagiarism Detection in MEDLINE
An Aggregation Method to Identify the RNA Meta-Stable Secondary Structure and its Functionally Interpretable Structure Ensemble
Computing the Hybridization Number of Two Phylogenetic Trees Is Fixed-Parameter Tractable
Deep Nonnegative Matrix Factorization Using a Variational Autoencoder With Application to Single-Cell RNA Sequencing Data
Comparison of Orchard Networks Using Their Extended $\mu$μ-Representation
Identifying Affinity Classes of Inorganic Materials Binding Sequences via a Graph-Based Model
EBWS: Essential Bioinformatics Web Services for Sequence Analyses
Improved Adverse Drug Event Prediction Through Information Component Guided Pharmacological Network Model (IC-PNM)
Inferring Microbial Biomass Yield and Cell Weight Using Probabilistic Macrochemical Modeling
A Robust Deep Learning Framework Based on Spectrograms for Heart Sound Classification
Multiple Network Alignment via MultiMAGNA++
MAGCN: A Multiple Attention Graph Convolution Networks for Predicting Synthetic Lethality
Single-Cell RNA Sequencing Data Clustering by Low-Rank Subspace Ensemble Framework
Robust Gene Circuit Control Design for Time-Delayed Genetic Regulatory Networks Without SUM Regulatory Logic
A Knowledge-Driven Self-Supervised Approach for Molecular Generation
TCR-pMHC Binding Specificity Prediction From Structure Using Graph Neural Networks
Hybrid Ant Bee Algorithm for Fuzzy Expert System Based Sample Classification
Dynamic Graph Attention Meets Pretrained Language Models: Adaptive K-Mer Decomposition for LncRNA-Protein Interaction Prediction
An Inference Attack on Genomic Data Using Kinship, Complex Correlations, and Phenotype Information
Text Mining Biomedical Literature for Discovering Gene-to-Gene Relationships: A Comparative Study of Algorithms
Predicting Drug-Drug Interactions Based on Integrated Similarity and Semi-Supervised Learning
Informative SNPs Selection Based on Two-Locus and Multilocus Linkage Disequilibrium: Criteria of Max-Correlation and Min-Redundancy
Improving Protein-Protein Interaction Pair Ranking with an Integrated Global Association Score
Improve the Resolution and Parallel Performance of the Three-Dimensional Refine Algorithm in RELION Using CUDA and MPI
Selected Articles from the 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2012)
Efficiently Predicting Hot Spots in PPIs by Combining Random Forest and Synthetic Minority Over-Sampling Technique
Prediction of Protein B-Factor Profiles Based on Bidirectional Long Short-Term Memory Network
An Improved Approach for N-Linked Glycan Structure Identification from HCD MS/MS Spectra
Extracting Biomedical Events with Parallel Multi-Pooling Convolutional Neural Networks
Learning Parameter-Advising Sets for Multiple Sequence Alignment
A Computational Monte Carlo Simulation Strategy to Determine the Temporal Ordering of Abnormal Age Onset Among Biomarkers of Alzheimer's Disease
LINgroups as a Robust Principled Approach to Compare and Integrate Multiple Bacterial Taxonomies
Probabilistic Models for Semisupervised Discriminative Motif Discovery in DNA Sequences
Normalized Feature Vectors: A Novel Alignment-Free Sequence Comparison Method Based on the Numbers of Adjacent Amino Acids
Disturbance Analysis of Nonlinear Differential Equation Models of Genetic SUM Regulatory Networks
High-Density Electroencephalography and Speech Signal Based Deep Framework for Clinical Depression Diagnosis
Vina-GPU 2.1: Towards Further Optimizing Docking Speed and Precision of AutoDock Vina and Its Derivatives
Search for Steady States of Piecewise-Linear Differential Equation Models of Genetic Regulatory Networks
Categorical Matrix Completion With Active Learning for High-Throughput Screening
Predicting Protein Relationshipsto Human Pathways througha Relational Learning ApproachBased on Simple Sequence Features
Identifying Condition-Specific Modules by Clustering Multiple Networks
GPU-Powered Evolutionary Auxiliary Multitasking for Fast SNP Interaction Detection
Perfect Phylogeny Problems with Missing Values
Predicting Local Protein 3D Structures Using Clustering Deep Recurrent Neural Network
An Efficient Exact Algorithm for Planted Motif Search on Large DNA Sequence Datasets
Link Prediction in Multipartite Graphs With Application to Drug Repositioning Studies
On the Steady-State Distribution in the Homogeneous Ribosome Flow Model
Guest Editorial: WABI Special Section Part II
Extraction of Long k-mers Using Spaced Seeds
Graph Convolutional Network With Self-Supervised Learning for Brain Disease Classification
Optimal Robust Search for Parameter Values of Qualitative Models of Gene Regulatory Networks
A Novel Scaffolding Algorithm Based on Contig Error Correction and Path Extension
Stability Analysis of the Ribosome Flow Model
Boolean Networks with Multiexpressions and Parameters
Guest Editorial for Special Section on BSB 2012
Fast Optimal Circular Clustering and Applications on Round Genomes
BowMapCL: Burrows-Wheeler Mapping on Multiple Heterogeneous Accelerators
MetalPrognosis: A Biological Language Model-Based Approach for Disease-Associated Mutations in Metal-Binding Site Prediction
Robust Reachability of Boolean Control Networks
Identifying Disease Associated miRNAs Based on Protein Domains
A Novel Approach for Potential Human LncRNA-Disease Association Prediction Based on Local Random Walk
EBST: An Evolutionary Multi-Objective Optimization Based Tool for Discovering Potential Biomarkers in Ovarian Cancer
Naïve Bayesian Classifiers with Multinomial Models for rRNA Taxonomic Assignment
Structure Based in Silico Screening Revealed a Potent Acinetobacter Baumannii Ftsz Inhibitor From Asinex Antibacterial Library
Generalized Gene Adjacencies, Graph Bandwidth, and Clusters in Yeast Evolution
Relational Agreement Measures for Similarity Searching of Cheminformatic Data Sets
Detection of Phenotype-Related Mutations of COVID-19 via the Whole Genomic Data
On the Length of the Longest Exact Position Match in a Random Sequence
Deep Reinforcement Learning-Based Progressive Sequence Saliency Discovery Network for Mitosis Detection In Time-Lapse Phase-Contrast Microscopy Images
Using Semantic Association to Extend and Infer Literature-Oriented Relativity Between Terms
Quantitative Analysis of Live-Cell Growth at the Shoot Apex of Arabidopsis thaliana: Algorithms for Feature Measurement and Temporal Alignment
An Algebraic Spline Model of Molecular Surfaces for Energetic Computations
Gene Expression Data Analysis Using a Novel Approach to Biclustering Combining Discrete and Continuous Data
Gene Regulatory Network Inference from Perturbed Time-Series Expression Data via Ordered Dynamical Expansion of Non-Steady State Actors
Ensemble Learning with Active Example Selection for Imbalanced Biomedical Data Classification
Modeling Healthcare Quality via Compact Representations of Electronic Health Records
Assignment of Orthologous Genes via Genome Rearrangement
Significance-Based Essential Protein Discovery
Common Attractors in Multiple Boolean Networks
Multiview Robust Graph-Based Clustering for Cancer Subtype Identification
Finding Consistent Gene Transmission Patterns on Large and Complex Pedigrees
Chemical Transformation Motifs - Modelling Pathways as Integer Hyperflows
Efficient Classification of Hot Spots and Hub Protein Interfaces by Recursive Feature Elimination and Gradient Boosting
Jointly Integrating VCF-Based Variants and OWL-Based Biomedical Ontologies in MongoDB
A Two-Stage Biomedical Event Trigger Detection Method Integrating Feature Selection and Word Embeddings
Adaptive Particle Filtering for Fault Detection in Partially-Observed Boolean Dynamical Systems
Dynamical Robustness against Multiple Mutations in Signaling Networks
Bayesian Models and Algorithms for Protein β-Sheet Prediction
RLSegNet: An Medical Image Segmentation Network Based on Reinforcement Learning
GenSeg and MR-GenSeg: A Novel Segmentation Algorithm and its Parallel MapReduce Based Approach for Identifying Genomic Regions With Copy Number Variations
Pareto Optimal Pairwise Sequence Alignment
Eigen-Genomic System Dynamic-Pattern Analysis (ESDA): Modeling mRNA Degradation and Self-Regulation
Highly Accurate and Efficient Data-Driven Methods for Genotype Imputation
Maximum Likelihood Estimation ofGEVD: Applications in Bioinformatics
Bayesian Data Fusion of Gene Expression and Histone Modification Profiles for Inference of Gene Regulatory Network
Study of the Paired Change Points in Bacterial Genes
Learning Representation of Molecules in Association Network for Predicting Intermolecular Associations
KGNMDA: A Knowledge Graph Neural Network Method for Predicting Microbe-Disease Associations
A Fast PC Algorithm for High Dimensional Causal Discovery with Multi-Core PCs
PhenoGeneRanker: Gene and Phenotype Prioritization Using Multiplex Heterogeneous Networks
NewGOA: Predicting New GO Annotations of Proteins by Bi-Random Walks on a Hybrid Graph
On Complexity of Protein Structure Alignment Problem under Distance Constraint
A Combined PLS and Negative Binomial Regression Model for Inferring Association Networks from Next-Generation Sequencing Count Data
Multiple Sequence Alignment with HiddenMarkov Models Learned by Random DriftParticle Swarm Optimization
2019nCoVAS: Developing the Web Service for Epidemic Transmission Prediction, Genome Analysis, and Psychological Stress Assessment for 2019-nCoV
GPU Accelerated Drug Application on Signaling Pathways Containing Multiple Faults Using Boolean Networks
Predicting Biomedical Interactions With Higher-Order Graph Convolutional Networks
SGLMDA: A Subgraph Learning-Based Method for miRNA-Disease Association Prediction
A Mutation Model from First Principles of the Genetic Code
Comparison of Machine Learning Approaches for Prediction of Advanced Liver Fibrosis in Chronic Hepatitis C Patients
Studying the Role of Lipid Rafts on Protein Receptor Bindings with Cellular Automata
A Multimodal Framework for Improving in Silico Drug Repositioning With the Prior Knowledge From Knowledge Graphs
Subcellular Localization Prediction with New Protein Encoding Schemes
A Comparative Study on Filtering Protein Secondary Structure Prediction
Accelerating Bioinformatics Applications via Emerging Parallel Computing Systems
Protein-Protein Interaction Identification Using a Similarity-Constrained Graph Model
Variable Selection in High-Dimensional Logistic Regression Models Using a Whitening Approach
Correlated Motions and Dynamics in Different Domains of Epidermal Growth Factor Receptor With L858R and T790M Mutations
MCNF: A Novel Method for Cancer Subtyping by Integrating Multi-Omics and Clinical Data
SecureLR: Secure Logistic Regression Model via a Hybrid Cryptographic Protocol
A Global Network Alignment Method Using Discrete Particle Swarm Optimization
TS-RePSO: A Three-Stage Feature Selection Method Combing ReliefF and PSO in Bioinformatics
Noniterative Convex Optimization Methods for Network Component Analysis
Rapid Reconstruction of Time-varying Gene Regulatory Networks with Limited Main Memory
Sampling Based Tumor Recognition in Whole-Slide Histology Image With Deep Learning Approaches
Patient Graph Deep Learning to Predict Breast Cancer Molecular Subtype
A Monte Carlo EM Algorithm for De Novo Motif Discovery in Biomolecular Sequences
Integrating Imaging Genomic Data in the Quest for Biomarkers of Schizophrenia Disease
Bayesian Inference of Stochastic Dynamic Models Using Early-Rejection Methods Based on Sequential Stochastic Simulations
Rapid Reconstruction of Time-Varying Gene Regulatory Networks
A Study of Cell-Free DNA Fragmentation Pattern and Its Application in DNA Sample Type Classification
Improved Approximation Algorithms for Reconstructing the History of Tandem Repeats
Lung Cancer Subtype Diagnosis by Fusing Image-Genomics Data and Hybrid Deep Networks
Cross-species Data Classification by Domain Adaptation via Discriminative Heterogeneous Maximum Mean Discrepancy
Screening and Predicting Multi-Omics T-ALL Core Genes Based on PU Learning
CodonU: A Python Package for Codon Usage Analysis
Gene Tree Construction and Correction Using SuperTree and Reconciliation
Enhancing of Particle Swarm Optimization Based Method for Multiple Motifs Detection in DNA Sequences Collections
EIC Editorial: Introducing New Associate Editors
Random Sets of Stadiums in Square and Collective Behavior of Bacteria
Multitask Protein Function Prediction through Task Dissimilarity
Reconstruction of Transcriptional Regulatory Networks by Stability-Based Network Component Analysis
Investigating Correlation between Protein Sequence Similarity and Semantic Similarity Using Gene Ontology Annotations
AFExNet: An Adversarial Autoencoder for Differentiating Breast Cancer Sub-Types and Extracting Biologically Relevant Genes
GCSTI: A Single-Cell Pseudotemporal Trajectory Inference Method Based on Graph Compression
LMMO: A Large Margin Approach for Refining Regulatory Motifs
GenoGraph: An Interpretable Graph Contrastive Learning Approach for Identifying Breast Cancer Risk Variants
Triangular Alignment (TAME): A Tensor-Based Approach for Higher-Order Network Alignment
Identification of Minimum Set of Master Regulatory Genes in Gene Regulatory Networks
Estimating Haplotype Frequencies by Combining Data from Large DNA Pools with Database Information
A Clustering Ensemble Method for Cell Type Detection by Multiobjective Particle Optimization
GenSeq+: A Scalable High-Performance Accelerator for Genome Sequencing
Cache-Oblivious Dynamic Programming for Bioinformatics
Advanced Machine-Learning Methods for Brain-Computer Interfacing
Privacy-Preserving Linkage of Genomic and Clinical Data Sets
A Blocking Strategy to Improve Gene Selection for Classification of Gene Expression Data
OntoGene in BioCreative II.5
KATZLGO: Large-Scale Prediction of LncRNA Functions by Using the KATZ Measure Based on Multiple Networks
YamiPred: A Novel Evolutionary Method for Predicting Pre-miRNAs and Selecting Relevant Features
A Cooperative Framework for Fireworks Algorithm
Network-Based Structural Learning Nonnegative Matrix Factorization Algorithm for Clustering of scRNA-Seq Data
Bayesian Normalization Model for Label-Free Quantitative Analysis by LC-MS
DeepHIV: A Sequence-Based Deep Learning Model for Predicting HIV-1 Protease Cleavage Sites
DeepBarcoding: Deep Learning for Species Classification Using DNA Barcoding
Using CHOU'S 5-Steps Rule to Predict O-Linked Serine Glycosylation Sites by Blending Position Relative Features and Statistical Moment
Comparing Tandem Repeats with Duplications and Excisions of Variable Degree
Heuristic Bayesian Segmentation for Discovery of Coexpressed Genes within Genomic Regions
Simple k-RF Metrics for Comparison of Labeled DAGs
MEC: Misassembly Error Correction in Contigs based on Distribution of Paired-End Reads and Statistics of GC-contents
Linear Separability of Gene Expression Data Sets
Explainable Knowledge Distillation for On-Device Chest X-Ray Classification
Efficient Localization of Hot Spots in Proteins Using a Novel S-Transform Based Filtering Approach
Thermodynamic Post-Processing versusGC-Content Pre-Processing for DNA CodesSatisfying the Hamming Distance andReverse-Complement Constraints
BERT2OME: Prediction of 2′-O-Methylation Modifications From RNA Sequence by Transformer Architecture Based on BERT
Guest Editorial for Special Section on ISB/TBC 2014
Integrating Graph Convolutional Networks for Missing Gene Expression Imputation
Modeling and Visualizing Uncertainty in Gene Expression Clusters Using Dirichlet Process Mixtures
In-silico Studies Show Potent Inhibition of HIV-1 Reverse Transcriptase Activity by a Herbal Drug
Plant Species Identification from Occluded Leaf Images
A (1.5 + epsilon)-Approximation Algorithm for Unsigned Translocation Distance
Multiplex Embedding of Biological Networks Using Cross-Network Node Similarities
P-Finder: Reconstruction of Signaling Networks from Protein-Protein Interactions and GO Annotations
HIV Haplotype Inference Using a Propagating Dirichlet Process Mixture Model
Sequence Representations and Their Utility for Predicting Protein-Protein Interactions
A Novel Cluster-Based Computational Method to Identify miRNA Regulatory Modules
EmDL: Extracting miRNA-Drug Interactions from Literature
A Unified Multi-Class Feature Selection Framework for Microarray Data
An Explainable Framework for Predicting Drug-Side Effect Associations via Meta-Path-Based Feature Learning in Heterogeneous Information Network