yusuke1997/dblp-id-title huggingface dataset:
Big Data Analytics in Medicine and Healthcare
Nutrilyzer: A Tool for Deciphering Atomic Stoichiometry of Differentially Expressed Paralogous Proteins
ReMatch: a web-based tool to construct, store and share stoichiometric metabolic models with carbon maps for metabolic flux analysis
Exploring the therapeutic potential of Asparagus africanus in polycystic ovarian syndrome: a computational analysis
OMEX metadata specification (version 1.2)
Feature Learning applied to the Estimation of Tensile Strength at Break in Polymeric Material Design
New insights into genotype-phenotype correlation in individuals with different level of general non-specific reactivity of an organism
Cardiac well-being indexes: a decision support tool to monitor cardiovascular health
Knowledge Discovery in Biological Databases for Revealing Candidate Genes Linked to Complex Phenotypes
International symposium on integrative bioinformatics 2024 - editorial
In silico strain optimization by adding reactions to metabolic models
Classification of Breast Cancer Subtypes by combining Gene Expression and DNA Methylation Data
DaTo: an atlas of biological databases and tools
A roadmap for a middleware as a federation service for integrative data retrieval of agricultural data
Using Variable Precision Rough Set for Selection and Classification of Biological Knowledge Integrated in DNA Gene Expression
The Systems Biology Markup Language (SBML) Level 3 Package: Flux Balance Constraints
Classification methods for finding articles describing protein-protein interactions in PubMed
Accurate noise-robust classification of Bacillus species from MALDI-TOF MS spectra using a denoising autoencoder
Data Cleaning and Semantic Improvement in Biological Databases
Data Linkage Graph: computation, querying and knowledge discovery of life science database networks
Integrated Visualization of a Multi-omics Study of Starvation in Mouse Intestine
A High-Level Petri Net Framework for Genetic Regulatory Networks
Integrating omics databases for enhanced crop breeding
Oncology In Vivo Data Integration for Hypothesis Generation
A distributed computational search strategy for the identification of diagnostics targets: Application to finding aptamer targets for methicillin-resistant staphylococci
Towards Multiple Kernel Principal Component Analysis for Integrative Analysis of Tumor Samples
Visual Comparison of Multiple Gene Expression Datasets in a Genomic Context
Identifying the impact of G-Quadruplexes on Affymetrix 3' Arrays using Cloud Computing
Genlight: Interactive high-throughput sequence analysis and comparative genomics
Exploratory and discriminant analysis of plant phenolic profiles obtained by UV-vis scanning spectroscopy
An Evolutionary and Visual Framework for Clustering of DNA Microarray Data
Web-based hybrid-dimensional Visualization and Exploration of Cytological Localization Scenarios
Supervised Learning and Knowledge-Based Approaches Applied to Biomedical Word Sense Disambiguation
Considering best practices in color palettes for molecular visualizations
Synthetic biology open language (SBOL) version 3.0.0
Computational approaches to standard-compliant biofilm data for reliable analysis and integration
Deriving biological applications from domain specific process models
A hybrid of Bees algorithm and regulatory on/off minimization for optimizing lactate and succinate production
Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3
Parallel Niche Pareto AlineaGA - an Evolutionary Multiobjective approach on Multiple Sequence Alignment
Reducing the n-gram feature space of class C GPCRs to subtype-discriminating patterns
A computational model for GPCR-ligand interaction prediction
Integration of Data in Pathogenomics: Three Layers of cellular complexity and an XML-based Framework
An Unusal Distribution of 6-nt Sequences Near The Transcription Start Site
Widespread existence of uncorrelated probe intensities from within the same probeset on Affymetrix GeneChips
Comparison of different algorithms for simultaneous estimation of multiple parameters in kinetic metabolic models
A Bayes Random Field Approach for Integrative Large-Scale Regulatory Network Analysis
Computer Analysis of Glioma Transcriptome Profiling: Alternative Splicing Events
Data integration using scanners with SQL output - The Bioscanners project at sourceforge
On Comparison of SimTandem with State-of-the-Art Peptide Identification Tools, Efficiency of Precursor Mass Filter and Dealing with Variable Modifications
In silico approach to understand epigenetics of POTEE in ovarian cancer
Using surveys of Affymetrix GeneChips to study antisense expression
A Hierarchical Approach to Protein Fold Prediction
Database supported candidate search for Metabolite identification
Prediction of transcription factor binding to DNA using rule induction methods
Life Sciences Data and Application Integration with B-Fabric
Prediction of thioredoxin and glutaredoxin target proteins by identifying reversibly oxidized cysteinyl residues
Modular network inference between miRNA-mRNA expression profiles using weighted co-expression network analysis
Disparity-filtered differential correlation network analysis: a case study on CRC metabolomics
QSAR Modelling to Identify LRRK2 Inhibitors for Parkinson's Disease
Kernel based machine learning algorithm for the efficient prediction of type III polyketide synthase family of proteins
The Systems Biology Markup Language (SBML) Level 3 Package: Qualitative Models, Version 1, Release 1
TREMSUCS-TCGA - an integrated workflow for the identification of biomarkers for treatment success
A System for Extracting Study Design Parameters from Nutritional Genomics Abstracts
Mining Protein Database using Machine Learning Techniques
Re-annotation of the genome sequence of Helicobacter pylori 26695
MUSTv2: An Improved De Novo Detection Program for Recently Active Miniature Inverted Repeat Transposable Elements (MITEs)
Evaluating the effect of unbalanced data in biomedical document classification
OverCOVID: an integrative web portal for SARS-CoV-2 bioinformatics resources
Improving the Quality of Positive Datasets for the Establishment of Machine Learning Models for pre-microRNA Detection
BacillusRegNet: A transcriptional regulation database and analysis platform for Bacillus species
Is there a Function for a Sex Pheromone Precursor?
Constructing networks for comparison of collagen types
A Chemometrics Approach for Nuclear Magnetic Resonance Data to Characterize the Partial Metabolome Banana Peels from Southern Brazil
Detection of Cardiac Geometry via Difference Intensity of Echocardiogram Images
Excemplify: A Flexible Template Based Solution, Parsing and Managing Data in Spreadsheets for Experimentalists
The potential of Mitragyna speciosa leaves as a natural source of antioxidants for disease prevention
PathJam: a new service for integrating biological pathway information
UV-visible scanning spectrophotometry and chemometric analysis as tools for carotenoids analysis in cassava genotypes (Manihot esculenta Crantz)
Integration of constraints documented in SBML, SBO, and the SBML Manual facilitates validation of biological models
SBML Level 3 Package: Flux Balance Constraints version 2
Towards the integration of computational systems biology and high-throughput data: supporting differential analysis of microarray gene expression data
MetaLo: metabolic analysis of Logical models extracted from molecular interaction maps
Computational Analysis of the Hypothetical Protein P9303_05031 from Marine Cyanobacterium Prochlorococcus Marinus MIT 9303
Circular RNA-MicroRNA-MRNA interaction predictions in SARS-CoV-2 infection
Uncovering the Expression Patterns of Chimeric Transcripts Using Surveys of Affymetrix GeneChips
A Tool for Evaluating Strategies for Grouping of Biological Data
Stochastic activation of the response regulator PhoB by noncognate histidine kinases
Special Issue of the 1st International Applied Bioinformatics Conference (iABC'21)
On the identification of potential novel therapeutic targets for spinocerebellar ataxia type 1 (SCA1) neurodegenerative disease using EvoPPI3
Modeling Microarray Data: Interpreting and communicating the biological results
ImageServer, a Tool for On-line Processing and Analysis of Biological Images
CytoMCS: A Multiple Maximum Common Subgraph Detection Tool for Cytoscape
Bridging data management platforms and visualization tools to enable ad-hoc and smart analytics in life sciences
An integrative approach to modeling biological networks
An harmonised vocabulary for communicating and interchanging Biofilms experimental results
shRNA-Induced Knockdown of a Bioinformatically Predicted Target IL10 Influences Functional Parameters in Spontaneously Hypertensive Rats with Asthma
A Study of the Short and Long-term Regulation of E. coli Metabolic Pathways
TidyGEO: preparing analysis-ready datasets from Gene Expression Omnibus
COMBINE Archive Specification Version 1
Exploring PSI-MI XML Collections Using DescribeX
RNAcode_Web - Convenient identification of evolutionary conserved protein coding regions
High Performance Pattern Matching on Heterogeneous Platform
Systematic Prediction of the Impacts of Mutations in MicroRNA Seed Sequences
Diabetes disease prediction system using HNB classifier based on discretization method
A Reliable and Distributed LIMS for Efficient Management of the Microarray Experiment Environment
Enhanced identification of membrane transport proteins: a hybrid approach combining ProtBERT-BFD and convolutional neural networks
Co-expressed gene group analysis (CGGA): An automatic tool for the interpretation of microarray experiments
Knowledge Enrichment Analysis for Human Tissue-Specific Genes Uncover New Biological Insights
Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019
CoryneRegNet 2: An Integrative Bioinformatics Approach for Reconstruction and Comparison of Transcriptional Regulatory Networks in Prokaryotes
VINEdb: a data warehouse for integration and interactive exploration of life science data
Efficient Online Transcription Factor Binding Site Adjustment by Integrating Transitive Graph Projection with MoRAine 2.0
Fcodes update: a kinship encoding framework with F-Tree GUI & LLM inference
Discovering Distinct Patterns in Gene Expression Profiles
Managing and Documenting Legacy Scientific Workflows
Can MiRBase Provide Positive Data for Machine Learning for the Detection of MiRNA Hairpins?
Metalearning approach for leukemia informative genes prioritization
Application of Computational Methods in Planaria Research: A Current Update
History and Future of KALIS: Towards Computer-assisted Decision Making in Prescriptive Medicine
Towards a hybrid user interface for the visual exploration of large biomolecular networks using virtual reality
Integrating data from heterogeneous DNA microarray platforms
Analysis of differential gene expression by RNA-seq data in brain areas of laboratory animals
Multi-agent System for Obtaining Relevant Genes in Expression Analysis between Young and Older Women with Triple Negative Breast Cancer
A Content-Based Retrieval Framework for Whole Metagenome Sequencing Samples
Artificial Bee Colony algorithm in estimating kinetic parameters for yeast fermentation pathway
Leonhard Med , a trusted research environment for processing sensitive research data
Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022
Ancestral Reconstruction and Investigations of Genomic Recombination on some Pentapetalae Chloroplasts
Enhancing Data Integration with Text Analysis to Find Proteins Implicated in Plant Stress Response
Microbase2.0: A Generic Framework for Computationally Intensive Bioinformatics Workflows in the Cloud
Novel perspectives for SARS-CoV-2 genome browsing
Computational Lipidomics and Lipid Bioinformatics: Filling In the Blanks
BGRS: bioinformatics of genome regulation and data integration
Flexible web-based integration of distributed large-scale human protein interaction maps
Computational miRNomics - Integrative Approaches
Use of Chou's 5-steps rule to predict the subcellular localization of gram-negative and gram-positive bacterial proteins by multi-label learning based on gene ontology annotation and profile alignment
IDPredictor: predict database links in biomedical database
ExceS-A: an exon-centric split aligner
PharmoCo: a graph-based visualization of pharmacogenomic plausibility check reports for clinical decision support systems
Comparison of Different Approaches for Measuring Tibial Cartilage Thickness
Unlocking the power of AI models: exploring protein folding prediction through comparative analysis
Integrative Visualization of Temporally Varying Medical Image Patterns
SCARF: a biomedical association rule finding webserver
Exact and Approximate Stochastic Simulations of the MAPK Pathway and Comparisons of Simulations Results
Model checking software for phylogenetic trees using distribution and database methods
The LAILAPS Search Engine: Relevance Ranking in Life Science Databases
Assembling cell context-specific gene sets: a case in cardiomyopathy
Omics Fusion - A Platform for Integrative Analysis of Omics Data
Using Data Warehouse Technology in Crop Plant Bioinformatics
Synthetic biology open language visual (SBOL Visual) version 2.3
Big data in the healthcare system: a synergy with artificial intelligence and blockchain technology
Quality controls in integrative approaches to detect errors and inconsistencies in biological databases
Mining and Analysing Spatio-Temporal Patterns of Gene Expression in an Integrative Database Framework
MEMOPS: Data modelling and automatic code generation.
Metabolite profiles as a reflection of physiological status -- a methodological validation
Diagnosis of diabetes in pregnant woman using a Chaotic-Jaya hybridized extreme learning machine model
Cross-evaluation of social mining for classification of depressed online personas
Clinical presentation of COVID-19 - a model derived by a machine learning algorithm
Stochastic effects in a compartmental model for mitotic checkpoint regulation
Synthetic biology open language visual (SBOL visual) version 2.2
Graph-based sequence annotation using a data integration approach
Dynamic Network Reconstruction from Gene Expression Data Describing the Effect of LiCl Stimulation on Hepatocytes
Towards standardization guidelines for in silico approaches in personalized medicine
BioDWH: A Data Warehouse Kit for Life Science Data Integration
Subgraph Queries by Context-free Grammars
Ion channel classification through machine learning and protein language model embeddings
Reconstruction of biological networks based on life science data integration
Supervised classification of combined copy number and gene expression data
BioNetLink - An Architecture for Working with Network Data
A Survey of Gene Prioritization Tools for Mendelian and Complex Human Diseases
Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024
GraphML-SBGN bidirectional converter for metabolic networks
Inference of Gene Coexpression Networks by Integrative Analysis across Microarray Experiments
Selected Extended Papers of the 11th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB)
Auto-phylo v2 and auto-phylo-pipeliner: building advanced, flexible, and reusable pipelines for phylogenetic inferences, estimation of variability levels and identification of positively selected amino acid sites
Protein analysis tools and services at IBIVU
Layout of anatomical structures and blood vessels based on the foundational model of anatomy
Integrative Bioinformatics: History and Future
Bioinformatic analysis of the regulatory potential of tagging SNPs provides evidence of the involvement of genes encoding the heat-resistant obscure (Hero) proteins in the pathogenesis of cardiovascular diseases
Data management in balance - a decade of balancing pragmatism, sustainability and innovation at plant research center IPK Gatersleben
Identification of Common Carp Innate Immune Genes with Whole-Genome Sequencing and RNA-Seq Data
DBE2 - Management of experimental data for the VANTED system
Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature
Inter-STOP symbol distances for the identification of coding regions
Community structure of non-coding RNA interaction network
SBML level 3 package: spatial processes, version 1, release 1
Specifications of standards in systems and synthetic biology: status and developments in 2020
Multi-model inference of network properties from incomplete data
MADMAX - Management and analysis database for multiple ~omics experiments
A Machine Learning Approach for MicroRNA Precursor Prediction in Retro-transcribing Virus Genomes
From MIN model to ordinary differential equations
Detecting outliers in case-control cohorts for improving deep learning networks on Schizophrenia prediction
Synthetic Biology Open Language (SBOL) Version 2.2.0
Integrative Systems Biology Visualization with MAYDAY
Analyzing Phylogenetic Trees with Timed and Probabilistic Model Checking: The Lactose Persistence Case Study
PGMiner reloaded, fully automated proteogenomic annotation tool linking genomes to proteomes
Current progress of high-throughput microRNA differential expression analysis and random forest gene selection for model and non-model systems: an R implementation
Analysis and construction of pathogenicity island regulatory pathways in Salmonella enterica serovar Typhi
Bioinformatics of genome regulation and structure - 2020 papers collection
SAMNA: accurate alignment of multiple biological networks based on simulated annealing
Interactive Molecular Graphics for Augmented Reality Using HoloLens
Network Expansion and Pathway Enrichment Analysis towards Biologically Significant Findings from Microarrays
CellML 2.0
CellML 2.0.1
Predicting breast cancer chemotherapeutic response using a novel tool for microarray data analysis
A Generalized Approach for Measuring Relationships Among Genes
Inter-dinucleotide distances in the human genome: an analysis of the whole-genome and protein-coding distributions
Functional and Transcriptional Coherency of Modules in the Human Protein Interaction Network
The ABC (Analysing Biomolecular Contacts)-database
2.5D Visualisation of Overlapping Biological Networks
Transformers meets neoantigen detection: a systematic literature review
Specifications of Standards in Systems and Synthetic Biology
Survival risk prediction in hematopoietic stem cell transplantation for multiple myeloma
Towards an Internet of Science
Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2
Specifications of standards in systems and synthetic biology: status and developments in 2021
Model Reference Adaptive Scheme for Multi-drug Infusion for Blood Pressure Control
SBML Level 3 package: Hierarchical Model Composition, Version 1 Release 3
The LAILAPS Search Engine: A Feature Model for Relevance Ranking in Life Science Databases
An Integrative Clinical Database and Diagnostics Platform for Biomarker Identification and Analysis in Ion Mobility Spectra of Human Exhaled Air
Protein-Protein Interaction Article Classification Using a Convolutional Recurrent Neural Network with Pre-trained Word Embeddings
Genome-wide expression reveals potential biomarkers in breast cancer bone metastasis
Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach
A Query Suggestion Workflow for Life Science IR-Systems
Managing Evidence from Multiple Gene Finding Resources via an XML-based Integration Architecture
From Virtual Reality to Immersive Analytics in Bioinformatics
Molecular Dynamics Visualization (MDV): Stereoscopic 3D Display of Biomolecular Structure and Interactions Using the Unity Game Engine
On the Importance of Mathematical Methods for Analysis of MALDI-Imaging Mass Spectrometry Data
Automated mitosis detection in stained histopathological images using Faster R-CNN and stain techniques
Matching of PDB chain sequences to information in public databases as a prerequisite for 3D functional site visualization
Design considerations for representing systems biology information with the Systems Biology Graphical Notation
Transcription Network Analysis by A Sparse Binary Factor Analysis Algorithm
A system for integrative and post-planned analysis of 2-DE/MS centered proteomics data
Integrative illustration of a JCVI-syn3A minimal cell
Colors in the representation of biological structures
Shared bioinformatics databases within the Unipro UGENE platform
The BioRS(TM) Integration and Retrieval System: An open system for distributed data integration
Genomic Islands: an overview of current software and future improvements
Profiling of Genetic Switches using Boolean Implications in Expression Data
Integrating Protein-Protein Interaction Networks with Gene-Gene Co-Expression Networks improves Gene Signatures for Classifying Breast Cancer Metastasis
Systems biology markup language (SBML) level 3 package: multistate, multicomponent and multicompartment species, version 1, release 2
RetroMine, or how to provide in-depth retrospective studies from Medline in a glance: the hepcidin use-case
Stochastic simulation of the spatio-temporal dynamics of reaction-diffusion systems: the case for the bicoid gradient
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2
Online High-throughput Mutagenesis Designer Using Scoring Matrix of Sequence-specific Endonucleases
On the way to plant data commons - a genotyping use case
The simulation experiment description markup language (SED-ML): language specification for level 1 version 5
Web2.0 paves new ways for collaborative and exploratory analysis of chemical compounds in spectrometry data
Community-based Linking of Biological Network Resources: Databases, Formats and Tools
An Integrative Bioinformatics Framework for Genome-scale Multiple Level Network Reconstruction of Rice
Towards a Classification Approach using Meta-Biclustering: Impact of Discretization in the Analysis of Expression Time Series
A Semi-Automated Approach for Anatomical Ontology Mapping
Visualization and Analysis of MicroRNAs within KEGG Pathways using VANESA
Coex-Rank: An approach incorporating co-expression information for combined analysis of microarray data
Monophyletic clustering and characterization of protein families
Integration of Transcriptome and Proteome Data from Human-Pathogenic Fungi by Using a Data Warehouse
Fast alignment of reads to a variation graph with application to SNP detection
Integrating AI and genomics: predictive CNN models for schizophrenia phenotypes
Special issue on COVID-19 data integration opportunities and vaccine development strategies
Data Integration for Spatio-Temporal Patterns of Gene Expression of Zebrafish development: the GEMS database
Gene prediction by multiple syntenic alignment
Noise in Genetic Toggle Switch Models
A Methodology for Comparative Functional Genomics
Widespread Recruitment of Ancient Domain Structures in Modern Enzymes during Metabolic Evolution
Selected Extended Papers of the 12th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB)
Predicting precursors of plant specialized metabolites using DeepMol automated machine learning
Mesoscopic Rigid Body Modelling of the Extracellular Matrix Self-Assembly
A structural keystone for drug design
The CELLmicrocosmos Tools: A Small History of Java-Based Cell and Membrane Modelling Open Source Software Development
Combining biomedical knowledge and transcriptomic data to extract new knowledge on genes
Integrative analysis of chemical properties and functions of drugs for adverse drug reaction prediction based on multi-label deep neural network
Improving imbalanced scientific text classification using sampling strategies and dictionaries
The GeWare data warehouse platform for the analysisof molecular-biological and clinical data
Statistical estimates of multiple transcription factors binding in the model plant genomes based on ChIP-seq data
A generic organ based ontology system, applied to vertebrate heart anatomy, development and physiology