yusuke1997/dblp-id-title huggingface dataset:
Network-Based Matching of Patients and Targeted Therapies for Precision Oncology
Multitask Feature Selection with Task Descriptors
TreeQA: Quantitative Genome Wide Association Mapping Using Local Perfect Phylogeny Trees
Constructing Comparative Genome Maps with Unresolved Marker Order
Local Reliability Measures from Sets of Co-Optimal Multiple Sequence Alignments
Boundary Formation by Notch Signaling in Drosophila Multicellular Systems: Experimental Observations and Gene Network Modeling by Genomic Object Net
Extracting Significant Sample-Specific Cancer Mutations Using Their Protein Interactions
Analyzing Search Behavior of Healthcare Professionals for Drug Safety Surveillance
Ontology Driven Dynamic Linking of Biology Resources
One-Class Detection of Cell States in Tumor Subtypes
Unsupervised Feature Construction and Knowledge Extraction from Genome-Wide Assays of Breast Cancer with Denoising Autoencoders
A Bipartite Network Approach to Inferring Interactions Between Environmental Exposures and Human Diseases
Integrating Computation and Visualization for Biomolecular Analysis: An Example Using Python and AVS
Network Representation of Large-Scale Heterogeneous RNA Sequences with Integration of DiverseMulti-omics, Interactions, and Annotations Data
Implementing and Evaluating A Gaussian Mixture Framework for Identifying Gene Function from TnSeq Data
Integration of Multi-Scale Biosimulation Models via Light-Weight Semantics
Part-of Relations in Anatomy Ontologies: A Proposal for RDFS and OWL Formalisations
Errors and Linkage Disequilibrium Interact Multiplicatively When Computing Sample Sizes for Genetic Case-Control Association Studies
Subspace Differential Coexpression Analysis: Problem Definition and a General Approach
Use of an Evolutionary Model to Provide Evidence for a Wide Heterogenity of Required Affinities Between Transcription Factors and Their Binding Sites in Yeast
Crowdsourcing RNA Structural Alignments with an Online Computer Game
Discovering Motifs With Transcription Factor Domain Knowledge
Binary Counting with Chemical Reactions
Transcript Normalization and Segmentation of Tiling Array Data
Protein Threading by Linear Programming
Data Simulation Software for Whole-Genome Association and Other Studies in Human Genetics
ViewFeature: Integrated Feature Analysis and Visualization
Integrating VA's NDF-RT Drug Terminology with PharmGKB: Preliminary Results
RNAz 2.0: Improved Noncoding RNA Detection
Automated disease cohort selection using word embeddings from Electronic Health Records
Session Introduction: Biogeometry: Applications of Computational Geometry to Molecular Structure
Hadoop and PySpark for Reproducibility and Scalability of Genomic Sequencing Studies
Binning Somatic Mutations Based on Biological Knowledge for Predicting Survival: An Application in Renal Cell Carcinoma
A Model for Phylogenetic Inference Using Structural and Chemical Covariates
Pre-mRNA Secondary Structure Prediction Aids Splice Site Prediction
Emergence of pathway-level composite biomarkers from converging gene set signals of heterogeneous transcriptomic responses
Evidence for Showing Gene/Protein Name Suggestions in Bioscience Literature Search Interfaces
A Stability Based Method for Discovering Structure in Clustered Data
A Framework for Analysis of Metagenomic Sequencing Data
Literature Data Mining for Biology - Session Introduction
Global Alignment of Multiple Protein Interaction Networks
Guided Genome Halving: Provably Optimal Solutions Provide Good Insights into the Preduplication Ancestral Genome of Saccharomyces Cerevisiae
Dissection of Complex Gene Expression Using the Combined Analysis of Pleiotropy and Epistasis
Towards Computational Modeling of Excitation-Contraction Coupling in Cardiac Myocytes: Reconstruction of Structures and Proteins from Confocal Imaging
Identifying Mutation Specific Cancer Pathways Using a Structurally Resolved Protein Interaction Network
Analysis of Microrna-Target Interactions by a Target Structure Based Hybridization Model
Causal inference on electronic health records to assess blood pressure treatment targets: An application of the parametric g formula
Graph-Based Information Diffusion Method for Prioritizing Functionally Related Genes in Protein-Protein Interaction Networks
Bidirectional Incremental Parsing for Automatic Pathway Identification with Combinatory Categorial Grammar
Pan-cancer analysis of expressed somatic nucleotide variants in long intergenic non-coding RNA
Computational Challenges of Mass Phenotyping
Session Introduction: Joint Learning from Multiple Types of Genomic Data
Interpretome: A Freely Available, Modular, and Secure Personal Genome Interpretation Engine
Estimation of Genetic Networks and Functional Structures Between Genes by Using Bayesian Networks and Nonparametric Regression
Clinical Concept Embeddings Learned from Massive Sources of Multimodal Medical Data
Filling the Gaps Between Tools and Users: A Tool Comparator, Using Protein-Protein Interactions as an Example
PAGE-Net: Interpretable and Integrative Deep Learning for Survival Analysis Using HistopathologicalImages and Genomic Data
High Performance Computing for Computational Biology - Session Introduction
Molecules to Maps: Tools for Visualization & Interaction - Session Introduction
Cryptic Disorder: An Order-Disorder Transformation Regulates the Function of Nucleophosmin
Identification of Regulatory Binding Sites Using Minimum Spanning Trees
Genome-Wide Detection of Alternative Splicing in Expressed Sequences Using Partial Order Multiple Sequence Alignment Graphs
DeepDom: Predicting protein domain boundary from sequence alone using stacked bidirectional
Meta-Analysis of Differential Gene Co-Expression: Application to Lupus
Session Introduction: Inferring SNP Function Using Evolutionary, Structural and Computational Methods
Mining Metabolic Networks for Optimal Drug Targets
The ERATO Systems Biology Workbench: Enabling Interaction and Exchange Between Software Tools for Computational Biology
Enabling Integrative Genomic Analysis of High Impact Human Diseases Through Text Mining
Detecting Highly Differentiated Copy-Number Variants from Pooled Population Sequencing
Networking Pathways Unveils Association Between Obesity and Non-Insulin Dependent Diabetes Mellitus
Genome-Wide Analysis of Bacterial Promoter Regions
Writing and Compiling Code into Biochemistry
Predictive Systems Biology Approach to Broad-Spectrum, Host-Directed Drug Target Discovery in Infectious Diseases
Implications of Compositionality in the Gene Ontology for Its Curation and Usage
Two-Stage Multi-Class Support Vector Machines to Protein Secondary Structure Prediction
Intimate Partner Violence and Injury Prediction From Radiology Reports
The Spectrum Kernel: A String Kernel for SVM Protein Classification
Predicting Structure and Dynamics of Loosely-Ordered Protein Complexes: Influenza Hemagglutinin Fusion Peptide
Analyzing metabolomics data for association with genotypes using two-component Gaussian mixture distributions
Melancholic Depression Prediction by Identifying Representative Features in Metabolic and Microarray Profiles with Missing Values
Tree-based methods for characterizing tumor density heterogeneity
TEXTQUEST: Document Clustering of MEDLINE Abstracts For Concept Discovery In Molecular Biology
The Protein Non-Folding Problem: Amino Acid Determinants of Intrinsic Order and Disorder
methylDMV: Simultaneous Detection of Differential DNA Methylation and Variability with Confounder Adjustment
Feasibility of the vaccine development for SARS-CoV-2 and other viruses using the shell disorder analysis
Detection of Novel Splice Forms in Human and Mouse Using Cross-Species Approach
Deep integrative analysis for survival prediction
Enforcing Co-expression in Multimodal Regression Framework
Identifying Targets for intervention by Analyzing Basins of Attraction
Biocomputing 2009: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 5-9 January 2009
Haplotype Block Definition and Its Application
Selection of trustworthy crowd workers for telemedical diagnosis of pediatric autism spectrum disorder
Ab initio Prediction of Transcription Factor Binding Sites
FRESCO: Flexible Alignment with Rectangle Scoring Schemes
Discriminative bag-of-cells for imaging-genomics
SemBiosphere: A Semantic Web Approach to Recommending Microarray Clustering Services
An Exact Solver for the DCJ Median Problem
Suitability and Utility of Computational Analysis Tools: Characterization of Erythrocyte Parameter Variation
Collective Reorientational Motion and Nuclear Spin Relaxation in Proteins
Evaluation of Ontology Merging Tools in Bioinformatics
Learning Parsimonious Ensembles for Unbalanced Computational Genomics Problems
Implementing a universal informed consent process for the All of Us Research Program
Identifying Transitional High Cost Users from Unstructured Patient Profiles Written by Primary CarePhysicians
Interpreting Personal Transcriptomes: Personalized Mechanism-Scale Profiling of RNA-seq Data
Including Biological Literature Improves Homology Search
Efficient Multiscale Simulations of Circadian Rhythms Using Automated Phase Macomodelling Techniques
Mining Tandem Mass Spectral Data to Develop a More Accurate Mass Error Model for Peptide Identification
High Throughput Interaction Data Reveals Degree Conservation of Hub Proteins
Precision drug repurposing via convergent eQTL-based molecules and pathway targeting independent disease-associated polymorphisms
Extension of Refractoriness in a Model of Cardiac Defibrillation
An Optimal Policy for Patient Laboratory Tests in Intensive Care Units
DNA Structure, Protein-DNA Interactions, and DNA-Protein Expression - Session Introduction
Representation and Processing of Complex DNA Spatial Architecture and its Annotated Genomic Content
Refining Literature Curated Protein Interactions Using Expert Opinions
Detecting Genome-wide Haplotype Polymorphism by Combined Use of Mendelian Constraints and Local Population Structure
The Power of Dynamic Social Networks to Predict Individuals' Mental Health
Critical Analysis of Transcriptional and Post-Transcriptional Regulatory Networks in Multiple Myeloma
A New Approach for Alignment of Multiple Proteins
Drug Intervention Response Predictions with Paradigm (DIRPP) Identifies Drug Resistant Cancer Cell Lines and Pathway Mechanisms of Resistance
Discovery of Protein Interaction Networks Shared by Diseases
Mitochondrial Variation and the Risk of Age-Related Macular Degeneration Across Diverse Populations
Extracting Conserved Gene Expression Motifs from Gene Expression Data
Translational Bioinformatics: Biobanks in the Precision Medicine Era
Topological Features in Cancer Gene Expression Data>
Automated Construction of Structural Motifs for Predicting Functional Sites on Protein Structures
Maximum Likelihood Analysis of Adaptive Evolution in HIV-1 Gp120 env Gene
The Stream Algorithm: Computationally Efficient Ridge-Regression via Bayesian Model Averaging, and Applications to Pharmacogenomic Prediction of Cancer Cell Line Sensitivity
Obtaining Dual-Energy Computed Tomography (CT) Information from a Single-Energy CT Image forQuantitative Imaging Analysis of Living Subjects by Using Deep Learning
Loss-of-function of neuroplasticity-related genes confers risk for human neurodevelopmental disorders
Protein Evolution and Protein Folding: Non-Functional Conserved Residues and Their Probable Role
Biocomputing 2006, Proceedings of the Pacific Symposium, Maui, Hawaii, USA, 3-7 January 2006
Assessment of the reliability of protein-protein interactions and protein function prediction
Biomediator Data Integration and Inference for Functional Annotation of Anonymous Sequences
Terminological Mapping for High Throughput Comparative Biology of Phenotypes
Data Mining and Knowledge Discovery in Molecular Databases - Session Introduction
ODAL: A one-shot distributed algorithm to perform logistic regressions on electronic health records data from multiple clinical sites
Modeling Gene Expression from Microarray Expression Data with State-Space Equations
Cell-specific prediction and application of drug-induced gene expression
Finding Genome-Transcriptome-Phenome Associations with Structured Association Mapping and Visualization in GenAMap
LitGen: Genetic Literature Recommendation Guided by Human Explanations
Human Genome Variation: Haplotypes, Linkage Disequilibrium, and Populations - Session Introduction
Absent Sequences: Nullomers and Primes
Dissecting the Interface Between Signaling and Transcriptional Regulation in Human B Cells
Recognition Between Disordered Polypeptide Chains from Cleavage of an a/B Domain: Self- versus Non-Self-Association
Open Science: Tools, Approaches, and Implications
Dynamic Programming Algorithms for RNA Structure Prediction with Binding Sites
Biocomputing 2008, Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 4-8 January 2008
Insights from Machine-Learned Diet Success Prediction
Defaults, Context, and Knowledge: Alternatives for OWL-Indexed Knowledge Bases
An Anatomical Ontology for Amphibians
Bootstrapping the Recognition and Anaphoric Linking of Named Entities in Drosophila Articles
Translational informatics of population Health: How large biomolecular and clinical datasets unite
Social Media Mining Shared Task Workshop
Inferring Gene Regulatory Networks from Time-Ordered Gene Expression Data of Bacillus Subtilis Using Differential Equations
Extracting Gene Expression Profiles Common to Colon and Pancreatic Adenocarcinoma Using Simultaneous Nonnegative Matrix Factorization
MicroRNA-Augmented Pathways (mirAP) and Their Applications to Pathway Analysis and Disease Subtyping
MAP: Searching Large Genome Databases
A Flexible Measure of Contextual Similarity for Biomedical Terms
Systematic Assessment of Analytical Methods for Drug Sensitivity Prediction from Cancer Cell Line Data
Data-Driven Ontologies
Markov Chain Monte Carlo Computation of Confidence Intervals for Substitution-Rate Variation in Proteins
Multiscale Dynamics of Macromolecules Using Normal Mode Langevin
Data Sharing and Reproducible Clinical Genetic Testing: Successes and Challenges
A Biospi Model of Lymphocyte-Endothelial Interactions in Inflamed Brain Venules
An Algorithm for the Energy Barrier Problem Without Pseudoknots and Temporary Arcs
Application of Knowledge Discovery to Molecular Biology: Identifying Structural Regularities in Proteins
Creating Knowledge Repositories from Biomedical Reports: The MEDSYNDIKATE Text Mining System
Differential Privacy Protection Against Membership Inference Attack on Machine Learning for Genomic Data
Biocomputing 2017: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2017
The Hydrophilic, Protease-Sensitive Terminal Domains of Eucaryotic DNA Topoisomerases Have Essential Intracellular Functions
Inferring Disease-Related Pathways Using A Probabilistic Epistasis Model
Drug Response Pharmacogenetics for 200, 000 UK Biobank Participants
Advancement in Protein Inference from Shotgun Proteomics Using Peptide Detectability
Quasi-Anharmonic Analysis Reveals Intermediate States in the Nuclear Co-Activator Receptor Binding Domain Ensemble
Network Map of Adverse Health Effects Among Victims of Intimate Partner Violence
Correlation Between Posttranslational Modification and Intrinsic Disorder in Protein
Disorder and Flexibility in Protein Structure and Function - Session Introduction
Discovery of Binding Motif Pairs from Protein Complex Structural Data and Protein Interaction Sequence Data
Frequent Subgraph Mining of Functional Interaction Patterns Across Multiple Cancers
Dynamically Evolving Clinical Practices and Implications for Predicting Medical Decisions
Kernel-Based Data Fusion and Its Application to Protein Function Prediction in Yeast
Evaluation of patient re-identification using laboratory test orders and mitigation via latent space variables
Prediction of Off-Target Drug Effects Through Data Fusion
The Whole Genome TagSNP Selection and Transferability Among HapMap Populations
Tumor Haplotype Assembly Algorithms for Cancer Genomics
Finding Potentially Unsafe Nutritional Supplements from User Reviews with Topic Modeling
Extensive Search for Discriminative Features of Alternative Splicing
PGxMine: Text Mining for Curation of PharmGKB
Inferring Genotype from Clinical Phenotype through a Knowledge Based Algorithm
Multi-Scale Correlations in Continuous Genomic Data
Addressing vital sign alarm fatigue using personalized alarm thresholds
Filling Preposition-Based Templates to Capture Information from Medical Abstracts
Computing Minimum Description Length for Robust Linear Regression Model Selection
The Challenges in Using Electronic Health Records for Pharmacogenomics and Precision Medicine Research
Multiple Approaches to Fine-Grained Indexing of the Biomedical Literature
OWL-NETS: Transforming OWL representations for improved network inference
Tracing Co-Regulatory Network Dynamics in Noisy, Single-Cell Transcriptome Trajectories
The Status of Structural Genomics Defined Through the Analysis of Current Targets and Structures
Establishing the reliability of algorithms
Determining Confidence of Predicted Interactions Between HIV-1 and Human Proteins Using Conformal Method
Querying Parse Tree Database of Medline Text to Synthesize User-Specific Biomolecular Networks
Many-to-One Binding by Intrinsically Disordered Protein Regions
Text Mining and Machine Learning for Precision Medicine
Exact Algorithms for Computing Pairwise Alignments and 3-Medians From Structure-Annotated Sequences (Extended Abstract)
Coalitional game theory as a promising approach to identify candidate autism genes
Ab Initio Folding of Multiple-Chain Proteins
Automated Phenotyping of Patients with Non-Alcoholic Fatty Liver Disease Reveals Clinically RelevantDisease Subtypes
Context-Specific Gene Regulations in Cancer Gene Expression Data
Phenome-wide Association Studies on Cardiovascular Health and Fatty Acids Considering PhenotypeQuality Control Practices for Epidemiological Data
Motif Discovery in Heterogeneous Sequence Data
On the Complementarity of the Consensus-Based Disorder Prediction
Ranking Gene-Drug Relationships in Biomedical Literature Using Latent Dirichlet Allocation
Protein Interactions and Disease Phenotypes in the ABC Transporter Superfamily
Stochastic Transient Analysis of Biochemical Systems and Its Application to the Design of Biochemical Logic Gates
Chalkboard: Ontology-Based Pathway Modeling And Qualitative Inference Of Disease Mechanisms
Chaperonin Function Depends on Structure and Disorder in Co-Chaperonin Mobile Loops
Probabilistic Modeling of Systematic Errors in Two-Hybrid Experiments
Parameter tuning is a key part of dimensionality reduction via deep variational autoencoders for single cell RNA transcriptomics
Best practices and lessons learned from reuse of 4 patient-derived metabolomics datasets in Alzheimer's disease
ATHENA: A Tool for Meta-Dimensional Analysis Applied to Genotypes and Gene Expression Data to Predict HDL Cholesterol Levels
AeQTL: eQTL analysis using region-based aggregation of rare genomic variants
Predictive Modeling of Hospital Readmission Rates Using Electronic Medical Record-Wide Machine Learning: A Case-Study Using Mount Sinai Heart Failure Cohort
Comparing Nonparametric Bayesian Tree Priors for Clonal Reconstruction of Tumors
Computational Biology in the Cloud: Methods and New Insights from Computing at Scale
Translational Bioinformatics: Integrating Electronic Health Record and Omics Data
Development and Performance of Text-Mining Algorithms to Extract Socioeconomic Status from De-Identified Electronic Health Records
Exploring Gene Expression Data with Class Scores
Experimental Design of Time Series Data for Learning from Dynamic Bayesian Networks
Detecting potential pleiotropy across cardiovascular and neurological diseases using univariate, bivariate, and multivariate methods on 43, 870 individuals from the eMERGE network
Investigating Evolutionary Lines of Least Resistance Using the Inverse Protein-Folding Problem
Linking PharmGKB to Phenotype Studies and Animal Models of Disease for Drug Repurposing
Computational Strategy for Discovering Druggable Gene Networks from Genome-Wide RNA Expression Profiles
Bioinformatics of corals: Investigating heterogeneous omics data from coral holobionts for insight into reef health and resillience
Computational Design of Combinatorial Peptide Library for Modulating Protein-Protein Interactions
Integrating RNA expression and visual features for immune infiltrate prediction
No-Boundary Thinking in Bioinformatics
Rate-Independent Constructs for Chemical Computation
Prediction of Interactions Between HIV-1 and Human Proteins by Information Integration
Predicting Gene Function from Gene Expressions and Ontologies
Systems Biology Analyses of Gene Expression and Genome Wide Association Study Data in Obstructive Sleep Apnea
Location of Repetitive Regions in Sequences By Optimizing A Compression Method
Assessment of Imputation Methods for Missing Gene Expression Data in Meta-Analysis of DistinctCohorts of Tuberculosis Patients
Diagnosis-Guided Method for Identifying Multi-Modality Neuroimaging Biomarkers Associated with Genetic Risk Factors in Alzheimer's Disease
Metabolomics Differential Correlation Network Analysis of Osteoarthritis
Inferring Gene Regulatory Networks from Raw Data: A Molecular Epistemics Approach
Parameter Estimation of In Silico Biological Pathways with Particle Filtering Towards a Petascale Computing
Biocomputing 2015: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 4-8, 2015
How powerful are summary-based methods for identifying expression-trait associations under different genetic architectures?
A Stacked Graphical Model for Associating Sub-Images with Sub-Captions
Identifying Master Regulators of Cancer and Their Downstream Targets by Integrating Genomic and Epigenomic Features
Integrating Genetic and Structural Data on Human Protein Kinome in Network-Based Modeling of Kinase Sensitivities and Resistance to Targeted and Personalized Anticancer Drugs
Merging heterogeneous clinical data to enable knowledge discovery
GenesTrace: Phenomic Knowledge Discovery via Structured Terminology
A Nonparametric Scoring Algorithm for Identifying Informative Genes from Microarray Data
Not All C-sections Are the Same: Investigating Emergency vs. Elective C-section deliveries as an Adverse Pregnancy Outcome
Implementing a Cloud Based Method for Protected Clinical Trial Data Sharing
System-Wide Peripheral Biomarker Discovery Using Information Theory
An Integrative Pipeline for Multi-Modal Discovery of Disease Relationships
Human Kinases Display Mutational Hotspots at Cognate Positions Within Cancer
Module Cover - A New Approach to Genotype-Phenotype Studies
Toward Understanding Allosteric Signaling Mechanisms in the ATPase Domain of Molecular Chaperones
Proceedings of the 8th Pacific Symposium on Biocomputing, PSB 2003, Lihue, Hawaii, USA, January 3-7, 2003
Modeling Regulatory Networks with Weight Matrices
Intrasplicing - Analysis of Long Intron Sequences
Fast and Cheap Genome Wide Haplotype Construction via Optical Mapping
Use of Biological Knowledge to Inform The Analysis of Gene-Gene Interactions Involved in Modulating Virologic Failure with Efavirenz-Containing Treatment Regimens in Art-Naive Actg Clinical Trials Participants
Biological Nomenclatures: A Source of Lexical Knowledge and Ambiguity
Identification of Questionable Exclusion Criteria in Mental Disorder Clinical Trials Using a Medical Encyclopedia
Two-stage ML Classifier for Identifying Host Protein Targets of the Dengue Protease
Reconstructing Chain Functions in Genetic Networks
Characteristics of Drug Combination Therapy in Oncology by Analyzing Clinical Trial Data on Clinicaltrials.Gov
The Extraction of Pharmacogenetic and Pharmacogenomic Relations - A Case Study Using PharmGKB
A Bayesian Integration Model of High-Throughput Proteomics and Metabolomics Data for Improved Early Detection of Microbial Infections
Genome-Wide Pathway Analysis and Visualization Using Gene Expression Data
Percolation Clustering: A Novel Algorithm Applied to the Clustering of Gene Expression Patterns in Dictyostelium Development
Natural Language Processing for Biology - Session Introduction
Learning Attributes of Disease Progression from Trajectories of Sparse Lab Values