yusuke1997/dblp-id-title huggingface dataset:
Global Network Alignment In The Context Of Aging
Microbiomarkers Discovery in Inflammatory Bowel Diseases using Network-Based Feature Selection
Crosstalk measures for analyzing biological networks in breast cancer
13th Workshop on Parallel and AI-based Bioinformatics and Biomedicine (ParBio): Editorial
Automatic segmentation and quantification of filamentous structures in electron tomography
Knowledge-based Bayesian network for the classification of Mycobacterium tuberculosis complex sublineages
Collaborative Cloud Computing Framework for Health Data with Open Source Technologies
Differential biclustering for gene expression analysis
Probabilistic ensembles for improved inference in protein-structure determination
Super deduper, fast PCR duplicate detection in fastq files
Identification of significant genetic variants via SLOPE, and its extension to group SLOPE
Cophenetic Median Trees Under the Manhattan Distance
Avocado: Deep tensor factorization characterizes the human epigenome via imputation of tens of thousands of functional experiments
Ensemble multiple sequence alignment via advising
A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks
Inference of protein-protein interaction networks from multiple heterogeneous data
Deep neural network models to automate incident triage in the radiation oncology incident learning system
DeepDrugmiR: a two-stage deep learning method for inferring small molecules' regulatory effects on microRNA expression
Reference-free comparison of microbial communities via de Bruijn graphs
Age-Specific Signatures of Glioblastoma at the Genomic, Genetic, and Epigenetic levels
Human Protein Complex Signatures for Drug Repositioning
Localized, Non-parametric Detection of RNA Structural Modification using Nanopore Basecalling
Modeling Macromolecular Structures and Motions: Computational Methods for Sampling and Analysis of Energy Landscapes
Phase Synchronization in Brain Collective Dynamics
A Preliminary Investigation in the Molecular Basis of Host Shutoff Mechanism in SARS-CoV
Immunological implications of a structural analysis of two different porcine IL1β proteins expressed in macrophages and embryos
The impact of RNA-seq aligners on gene expression estimation
Detection of novel tandem duplication with next-generation sequencing
G-quadruplex Structure Prediction and integration in the GenData2020 data model
An Italian lexicon-based sentiment analysis approach for medical applications
Identification and Prediction of Intrinsically Disordered Regions in Proteins Using n-grams
Learning the regulatory grammar of DNA for gene expression engineering
PeakMatcher: Matching Peaks Across Genome Assemblies
Detection and tracking of T cells in time-lapse imaging
Sparse and Stable Reconstruction of Genetic Regulatory Networks Using Time Series Gene Expression Data
Computational framework for generating synthetic signal peptides
DIGNiFI: Discovering causative genes for orphan diseases using protein-protein interaction networks
Multivariate Multi-step Deep Learning Time Series Approach in Forecasting Parkinson's Disease Future Severity Progression
Application of systems biology for understanding of disease and selection of molecular targets for therapy
Benchmarking of computational error-correction methods for next-generation sequencing data
MEGADOCK-GPU: Acceleration of Protein-Protein Docking Calculation on GPUs
Big data challenges for estimating genome assembler quality
Scalable genome scaffolding using integer linear programming
A two-way multi-dimensional mixture model for clustering metagenomic sequences
Immunoinformatic-driven H. pylori vaccine design
Brain tumor pathway identification by integrating transcriptome and interactome data
Role of Quality in Electronic Health Record Systems
Phylogenomics using Compression Distances: Incorporating Rate Heterogeneity and Amino Acid Properties
Detecting synchronization in brain activity
Application of a MAX-CUT Heuristic to the Contig Orientation Problem in Genome Assembly
A novel mathematical basis for predicting somatic single nucleotide variants from next-generation sequencing
Enhanced flux balance analysis to model metabolic networks
Secure Cloud Computing for Pairwise Sequence Alignment
Convolutional Neural Networks for Predicting Molecular Binding Affinity to HIV-1 Proteins
A Network Science Approach for Determining the Ancestral Phylum of Bacteria
Classification of breast cancer grades through quantitative characterization of ductal structure morphology in three-dimensional cultures
A novel K-mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters
Functional similarities of reaction sets in metabolic pathways
Influenza-Like Symptom Prediction by Analyzing Self-Reported Health Status and Human Mobility Behaviors
Mathematical network model for bone mineral density (BMD) and bone quality assessment
Improving discrimination of essential genes by modeling local insertion frequencies in transposon mutagenesis data
omniClassifier: a desktop grid computing system for big data prediction modeling
Determining positional bias of MHC class I restricted T-cell epitopes in viral antigens
Learning parameter sets for alignment advising
Extracting targets and attributes of medical findings from radiology reports in a mixture of languages
Anaphora resolution in biomedical literature: a hybrid approach
Scalable multipartite subgraph enumeration for integrative analysis of heterogeneous experimental functional genomics data
Integer Linear Programming in Computational and Systems Biology: Tutorial
Predicting Opioid Use Outcomes in Minoritized Communities
rG4detector: convolutional neural network to predict RNA G-quadruplex propensity based on rG4-seq data
Using GenotypeAnalytics to Analyze Pharmacogenomic Datasets
Parallel syntenic alignment on GPUs
KmerEstimate: A Streaming Algorithm for Estimating k-mer Counts with Optimal Space Usage
Feature Selection with Interactions in Logistic Regression Models using Multivariate Synergies for a GWAS Application
Staging Epileptogenesis with Deep Neural Networks
Risk Factor Analysis Based on Deep Learning Models
Inference of Nonlinear ODE-Based Gene Regulatory Networks via Intrinsically Bayesian Robust Kalman Filtering
Integration of Heterogeneous Experimental Data Improves Global Map of Human Protein Complexes
WeSME: Uncovering Mutual Exclusivity of Cancer Mutations
Bipartite matching generalizations for peptide identification in tandem mass spectrometry
Identifying Symptom Clusters in Breast Cancer and Colorectal Cancer Patients using EHR Data
Comparison of tissue/disease specific integrated networks using directed graphlet signatures
Open Information Extraction with Meta-pattern Discovery in Biomedical Literature
Listing Sorting Sequences of Reversals and Translocations
Docking features for predicting binding loss due to protein mutation
An effective filtering gene selection method for microarray data via shuffling and statistical analysis
Discovering de facto diagnosis specialties
Static and multivariate-temporal attentive fusion transformer for readmission risk prediction of ICU patients
Comparative network analysis of gene co-expression networks reveals the conserved and species-specific functions of cell-wall related genes between Arabidopsis and Poplar
Development of Nicotinic Acetylcholine Receptor nAChR α7 Binding Activity Prediction Model: Coupling Machine Learning with Competitive Molecular Docking
Vulture: VULnerabilities in impuTing drUg REsistance
Stochastic Process Model and Its Applications to Analysis of Longitudinal Data
Dimensionality Estimation of Protein Dynamics Using Polymer Models
ISGDRP: a multi-modal learning method for drug response prediction
Dependency and AMR Embeddings for Drug-Drug Interaction Extraction from Biomedical Literature
A computational model for data acquisition in SAXS
Automated Classification of Acute Rejection from Endomyocardial Biopsies
InstantGenotype: a non-parametric model for genotype inference using microarray probe intensities
Applications of Secure Location Sensing in Healthcare
Building a Molecular Taxonomy of Disease
A Novel Workflow for Semi-supervised Annotation of Cell-type Clusters in Mass Cytometry Data
Haplotype-centered mapping for improved alignments and genetic association studies
Learning Deep Representations from Heterogeneous Patient Data for Predictive Diagnosis
High performance phosphorylation site assignment algorithm for mass spectrometry data using multicore systems
Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2017, Boston, MA, USA, August 20-23, 2017
How to select microscopy image similarity metrics?
IPED2: inheritance path based pedigree reconstruction algorithm for complicated pedigrees
Accelerated molecular mechanical and solvation energetics on multicore CPUs and manycore GPUs
Alignment-based versus variation-based transformation methods for clustering microarray time-series data
Tumor Neoantigens Derived from RNA Sequencing Analysis
NetPipe: a network-based pipeline for discovery of genes and protein complexes regulating meiotic recombination hotspots
Formulating a gene signature for diagnosis of autoimmune and infectious diseases
Tutorial: Causal Inference in Biomedical Data Analytics - Basics and Recent Advances
Contrastive Learning in Single-cell Multiomics Clustering
Using Patient Information for the Prediction of Caregiver Burden in Amyotrophic Lateral Sclerosis
An annotated k -deep prefix tree for (1- k )-mer based sequence comparisons
MIXER: Identifying Co-expressed Genes in Multimodal Transcriptomic Sequencing Data
Convolutional neural networks for biomedical text classification: application in indexing biomedical articles
Associating Genomics and Clinical Information by Means of Semantic Based Ranking
CoPhosK: A Method for Comprehensive Kinase Substrate Annotation using Co-phosphorylation Analysis
A web-based tool to analyze semantic similarity networks
Automatic biosystems comparison using semantic and name similarity
Noninvasive Cancer Classification Using Diverse Genomic Features in Circulating Tumor DNA
A Combined Molecular Dynamics, Rigidity Analysis Approach for Studying Protein Complexes
MetaCluster: unsupervised binning of environmental genomic fragments and taxonomic annotation
DCCNV: Enhanced CNV Detection in Single-Cell Sequencing Using Diffusion Process and Contrastive Learning
Suffix-Tree Based Error Correction of NGS Reads Using Multiple Manifestations of an Error
Synthesizing Species Trees from Unrooted Gene Trees: A Parameterized Approach
String-Based Models for Predicting RNA-Protein Interaction
Visual analytics on the spread of pathogens
Submodular sketches of single-cell RNA-seq measurements
PETRA: Protein-ligand Complex Engineering Through Rigidity Analysis
Efficient SNP-sensitive alignment and database-assisted SNP calling for low coverage samples
Dynamic Cluster-based Retrieval and Discovery for Biomedical Literature
An automatic computational pipeline to display MHC binding motifs
MotionTalk: personalized home rehabilitation system for assisting patients with impaired mobility
Multi-omics data integration in the Cloud: Analysis of Statistically Significant Associations Between Clinical and Molecular Features in Breast Cancer
Smart Computational Approaches with Advanced Feature Selection Algorithms for Optimizing the Classification of Mobility Data in Health Informatics
Two-dimensional model of bipolar PopZ polymerization in caulobacter crescentus
Extracting phylogenetic signals from multi-labeled gene trees and its significance for species tree construction
Modeling the Tertiary Structure of a Multi-domain Protein: Structure Prediction of Multi-domain Proteins
Inferring conflict-sensitive phosphorylation dynamics
Predicting protein transport mechanism and immune response using spatial protein motifs and epitopes: a case study of Chlamydophila MOMP
The potential power of dynamics in epistasis analysis
Scalable multiple global network alignment for biological data
Greedy topological sorting on questionnaire directed acyclic graph and its application in patient surveys
Incorporating antigen processing into CD4+ T cell epitope prediction with integer linear programming
Aggregating Personal Health Messages for Scalable Comparative Effectiveness Research
CloudControl: Leveraging many public ChIP-seq control experiments to better remove background noise
A Monte Carlo approach to measure the robustness of Boolean networks
CTDPathSim: Cell line-tumor deconvoluted pathway-based similarity in the context of precision medicine in cancer
Multivariate hypergeometric similarity measure
Multi-omics characterization of Microtubule-actin cross linking factor 1 (MACF1) using the ISB-Cancer Genomics Cloud
The UniFrac significance test generates different outputs given semantically equivalent inputs
Finding Low-Conductance sets with Dense interactions (FLCD) for better protein complex prediction
Genome-Wide Association Study (GWAS) for the Infliximab Responsiveness in Korean Inflammatory Bowel Disease Patients
A deep learning fusion model for brain disorder classification: Application to distinguishing schizophrenia and autism spectrum disorder
A framework for developing epitope prediction tools
TopographyNET: a deep learning model for EEG-based mind wandering detection
Kinetic and Affinity Constraints on Reactions Between Antihapten Antibodies and Nonpeptidic B-Cell Epitopes: Implications for Predicting Antibody-Mediated Modulation of Pharmacokinetics and Pharmacodynamics
pXAlign: A parallel implementation of XAlign
On Interestingness Measures for Mining Statistically Significant and Novel Clinical Associations from EMRs
Multiple Graph Kernel Fusion Prediction of Drug Prescription
Approximation algorithms for sorting by signed short reversals
Graph learning of disentangled representation for accurately aligning multiple spatial slices
Detecting Communities in Biological Bipartite Networks
Asymmetric Mutual Learning for Decentralized Federated Medical Imaging
An efficient algorithm for matching protein binding sites for protein function prediction
Enzymatic target identification with dynamic states
Dual ICA to extract interacting sets of genes and conditions from transcriptomic data
A fast and accurate parallel algorithm for genome mapping assembly aimed at massively parallel sequencers
Time-series as Background Data for Relating Medical Diagnoses Terms
Prioritizing Adverse Drug Reaction and Drug Repositioning Candidates Generated by Literature-Based Discovery
Integrating Prior Information with Bayesian Feature Selection
Fuzzy Prediction of Incipient Alzheimer's Disease cases from Mild Cognitive Impaired cases
Estimating the Number of Manually Segmented Cellular Objects Required to Evaluate the Performance of a Segmentation Algorithm
Boosting the accuracy of protein secondary structure prediction through nearest neighbor search and method hybridization
Varsimlab: A Docker-based Pipeline to Automatically Synthesize Short Reads with Genomic Aberrations
An Integer Linear Programming Solution for the Domain-Gene-Species Reconciliation Problem
Predicting Criticality in COVID-19 Patients
HAPI-Gen: Highly Accurate Phasing and Imputation of Genotype Data
Compare local pocket and global protein structure models by small structure patterns
Low-dimensional genotype embeddings for predictive models
scDBImpute: Dual-branch imputation for single-cell RNA-seq data dropouts
Understanding the Evolutionary Conservation of the Ilp1 gene across Drosophila: Genomics Education Partnership
Breast cancer plasma protein biomarker discovery by coupling LC-MS/MS proteomics and systems biology
Enabling the Informed Patient Paradigm with Secure and Personalized Medical Question Answering
Evidence of a Pathway of Reduction in Bacteria: Reduced Quantities of Restriction Sites Impact tRNA Activity in a Trial Set
Hunting for truly relevant articles in bioinformatics literature: a preliminary study
Neuroinformatics and Analysis of Connectomic Alterations Due to Cerebral Microhemorrhages in Geriatric Mild Neurotrauma: Microhemorrhages in Geriatric Neurotrauma
Contact-assisted Protein Threading: An Evolving New Direction
Effective Clustering for Single Cell Sequencing Cancer Data
A machine learning based approach to improve sidechain optimization
Modeling protein structures from predicted contacts with modern molecular dynamics potentials: accuracy, sensitivity, and refinement
Robinson-Foulds distance between phylogenetic networks and gene trees
A new method for DNA sequencing error verification and correction via an on-disk index tree
Co-occurrence of Medical Conditions: Exposing Patterns Through Probabilistic Topic Modeling
Do microscopy imaging frequency and experiment duration impact the analysis of T cell movement?
FastCount: a fast gene count software for single-cell RNA-seq data
Bermuda: de novo assembly of transcripts with new insights for handling uneven coverage
Super-enhancer Dynamics Throughout Myogenesis
Shape analysis and classification of lgl -type and wild-type neurons
Match2: hybrid self-organizing map and deep learning strategies for treatment effect estimation
Inferring Microbial Interaction Networks from Metagenomic Data Using SgLV-EKF Algorithm
Investigating Rigidity Properties of Protein Cavities
Scaled sparse high-dimensional tests for localizing sequence variants
Semantic querying over knowledge in biomedical text corpora annotated with multiple ontologies
An analysis of conformational changes upon RNA-protein binding
Arrhythmia classification using nearest neighbor search with principal component analysis
Sentence Similarity Measures Revisited: Ranking Sentences in PubMed Documents
An Approach to Developing Benchmark Datasets for Protein Secondary Structure Segmentation from Cryo-EM Density Maps
Experimental comparison of biclustering algorithms for PPI networks
Splice-Aware Multiple Sequence Alignment of Protein Isoforms
Predicting human-immunodeficiency virus rebound after therapy initiation/switch using genetic, laboratory, and clinical data
A fuzzy entropy based approach for development of gene prediction networks (GPNs): detecting altered dependency in carcinogenic state
Advanced Feature-Driven Disease Named Entity Recognition Using Conditional Random Fields
RESTful API for iPTMnet: An Integrated Resource for Protein Post-translational Modification Network Discovery
AW-Net: automatic muscle structure analysis on B-mode ultrasound images for injury prevention
CCVAN: A Conditional Molecular Generation Model based on conditional VAE and Wasserstein GAN
Abstraction of Kinetic Models For Biochemical Networks
Designing novel antimicrobial peptides against multi-drug resistant bacteria
Low-Dimensional Representation of Biological Sequence Data
A Bayesian integration model for improved gene functional inference from heterogeneous data sources
Partial enumeration of solutions traces for the problem of sorting by signed reversals
GOstruct 2.0: Automated Protein Function Prediction for Annotated Proteins
Scoliosis management through apps
PRRSView: an analytical platform for the assessment of PRRSV ORF5 genetic sequences
Investigation of Model Stacking for Drug Sensitivity Prediction
Cox-Path: Biological Pathway-Informed Graph Neural Network for Cancer Survival Prediction
REAL: an efficient REad ALigner for next generation sequencing reads
Random-walk: a stagnation recovery technique for simplified protein structure prediction
Using HLA binding prediction algorithms for epitope mapping in HIV vaccine clinical trials
An Algorithmic Approach to the Representation of Biological Information and Long-term Memory
Exploring Local Features and the Bag-of-Visual-Words Approach for Bioimage Classification
Benchmarking deep learning models and classical de novo sequencing tools for immunopeptidomics
Formulating a method to analyse the differential expression of co-occurrence networks for small-sampled microbiome data
Particle swarm optimization for radiation therapy planning
Functional module identification by block modeling using simulated annealing with path relinking
Application of a systematic exoproteogenomic profiling workflow on lactobacillus mucosae LM1
Defining Functional Redundancy of Epitope Data as Potential Antigenic Cross-Reactivity
Risk Stratification for Hospital Readmission of Heart Failure Patients: A Machine Learning Approach
Constructing a compound mode-of-action network for personalized drug effectiveness prediction
Using mobile phones to simulate pulse oximeters: gait analysis predicts oxygen saturation
Building and implementing data science products to change healthcare IT
Differences in Engagement Among BabyCenter.com Community Forum Contributors: A Pilot Study
Decoding Epigenomic Programs in Immunity and Cancer
Optimal separation of high dimensional transcriptome for complex multigenic traits
Using RDF for managing protein-protein interaction data
MFMF: Multiple Foundation Model Fusion Networks for Whole Slide Image Classification
Probing automated treatment of urinary tract infections for bias: a case-study where machine learning perpetuates structural differences and racial disparities
BioCreative/OHNLP Challenge 2018
Robinson-Foulds Reticulation Networks
SPAN and JBR: analysis and visualization toolkit for peak calling
The TB-IRIS neutrophil proteome: bioinformatic challenges
EpiUNet: Stain-Style Transfer Model for Histology Image Based on Generative Adversarial Network
Aligning Dynamic Networks with DynaWAVE
Coalescent-based method for learning parameters of admixture events from large-scale genetic variation data
Dual-view jointly learning improves personalized drug synergy prediction
Sequence Based Prediction of Hospital Readmissions
Deep learning-based survival prediction using DNA methylation-derived 3D genomic information
Adolescent Idiopathic Scoliosis Patient Subphenotyping for Surgical Planning and Improved Patient Outcomes
Conditional Random Field for Candidate Gene Prioritization
Compound RNN to predict MICs using K-Mer Fingerprints and Antibiotic SMILES
A hybrid deep neural network for robust single-cell genome-wide DNA methylation detection
Data adequacy bias impact in a data-blinded semi-supervised GAN for privacy-aware COVID-19 chest X-ray classification
SeqyClean: A Pipeline for High-throughput Sequence Data Preprocessing
A Dynamics-based Approach for the Target Control of Boolean Networks
Meta-data Study in Autism Spectrum Disorder Classification Based on Structural MRI
Proceedings of the 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2015, Atlanta, GA, USA, September 9-12, 2015
Drug-Drug Interaction Prediction Based on Knowledge Graph Embeddings and Convolutional-LSTM Network
A Hybrid Stochastic Model of the Budding Yeast Cell Cycle Control Mechanism
Multi-Objective Stochastic Search for Sampling Local Minima in the Protein Energy Surface
Filtering STARR-Seq Peaks for Enhancers with Sequence Models
Residual Deep Learning System for Mass Segmentation and Classification in Mammography
Normalized Compression Distance for DNA Classification
ACM-BCB '17 Tutorial: Robotics-inspired Algorithms for Modeling Protein Structures and Motions
Pairwise Versus Multiple Global Network Alignment
Best Setting of Model Parameters in Applying Topic Modeling on Textual Documents
Optimal Clustering with Missing Values
Predicting Future Frequent Users of Emergency Departments in California State
Can Attention Be Used to Explain EHR-Based Mortality Prediction Tasks: A Case Study on Hemorrhagic Stroke
Comparison of discrete- and continuous-state stochastic methods to model neuronal signal transduction
Searching for the relics of primitive codons
Mining Discriminative Patterns to Predict Health Status for Cardiopulmonary Patients
Efficient Distance Calculations Between Genomes Using Mathematical Approximation
Transformer-based named entity recognition for parsing clinical trial eligibility criteria
Improving protein-RNA interface prediction by combining sequence homology based method with a naive Bayes classifier: preliminary results
Volume matching with application in medical treatment planning
Coevolutionary Patterns in HIV-1 Pre-integration Complex Offer Insights into Protein Structural Constraints