yusuke1997/dblp-id-title huggingface dataset:
Characterizing the effects of missing data and evaluating imputation methods for chemical prioritization applications using ToxPi
3PFDB - A database of Best Representative PSSM Profiles (BRPs) of Protein Families generated using a novel data mining approach
Enhancing hepatopathy clinical trial efficiency: a secure, large language model-powered pre-screening pipeline
Overlapping filter bank convolutional neural network for multisubject multicategory motor imagery brain-computer interface
Sparse self-attention aggregation networks for neural sequence slice interpolation
Antibody selection strategies and their impact in predicting clinical malaria based on multi-sera data
Exploiting HIV-1 protease and reverse transcriptase cross-resistance information for improved drug resistance prediction by means of multi-label classification
Rapid development of entity-based data models for bioinformatics with persistence object-oriented design and structured interfaces
Decoding the genetic comorbidity network of Alzheimer's disease
Predicting linear B-cell epitopes using amino acid anchoring pair composition
Diagnosis of thyroid nodules for ultrasonographic characteristics indicative of malignancy using random forest
Modeling heterogeneity of Sudanese hospital stay in neonatal and maternal unit: non-parametric random effect models with Gamma distribution
Optimizing accuracy and dimensionality: a swarm intelligence strategy for robust cancer genomics classification
ISLAND: in-silico proteins binding affinity prediction using sequence information
Automatic computational classification of bone marrow cells for B cell pediatric leukemia using UMAP
Motif mining based on network space compression
Electronic medical records imputation by temporal Generative Adversarial Network
An adaptive permutation approach for genome-wide association study: evaluation and recommendations for use
RASMA: a reverse search algorithm for mining maximal frequent subgraphs
A comparison and evaluation of five biclustering algorithms by quantifying goodness of biclusters for gene expression data
Metrics to estimate differential co-expression networks
msBiodat analysis tool, big data analysis for high-throughput experiments
Functional relevance for central cornea thickness-associated genetic variants by using integrative analyses
Skin in the game: a review of computational models of the skin
Multivariate methods and software for association mapping in dose-response genome-wide association studies
WHFDL: an explainable method based on World Hyper-heuristic and Fuzzy Deep Learning approaches for gastric cancer detection using metabolomics data
Polymorphisms in the mTOR-PI3K-Akt pathway, energy balance-related exposures and colorectal cancer risk in the Netherlands Cohort Study
Prediction of synergistic drug combinations using PCA-initialized deep learning
Drug repurposing for Alzheimer's disease using a graph-of-thoughts based large language model to infer drug-disease relationships in a comprehensive knowledge graph
FISM: harnessing deep learning and reinforcement learning for precision detection of microaneurysms and retinal exudates for early diabetic retinopathy diagnosis
Correction: Predictive modeling of ALS progression: an XGBoost approach using clinical features
Compensation of feature selection biases accompanied with improved predictive performance for binary classification by using a novel ensemble feature selection approach
Development, evaluation and comparison of machine learning algorithms for predicting in-hospital patient charges for congestive heart failure exacerbations, chronic obstructive pulmonary disease exacerbations and diabetic ketoacidosis
Application of a spatially-weighted Relief algorithm for ranking genetic predictors of disease
Global tests of P-values for multifactor dimensionality reduction models in selection of optimal number of target genes
Mining the entire Protein DataBank for frequent spatially cohesive amino acid patterns
MediNet: ensemble transfer learning approach for classification of medical drugs-related text reviews using significant combined-embeddings
Recent advances in deep learning for protein-protein interaction: a review
Identification of natural selection in genomic data with deep convolutional neural network
Private pathological assessment via machine learning and homomorphic encryption
An unsupervised tool for biomarker discovery and cancer subtyping applied to glioblastoma
Mining severe drug-drug interaction adverse events using Semantic Web technologies: a case study
Understanding predictions of drug profiles using explainable machine learning models
The ethics of data mining in healthcare: challenges, frameworks, and future directions
From prompt engineering to agent engineering: expanding the AI toolbox with autonomous agentic AI collaborators for biomedical discovery
A comparative study on the unified model based multifactor dimensionality reduction methods for identifying gene-gene interactions associated with the survival phenotype
Vibe coding: a new paradigm for biomedical software development
Visualizing genomic information across chromosomes with PhenoGram
Few-shot biomedical NER empowered by LLMs-assisted data augmentation and multi-scale feature extraction
Analysis of global trends and hotspots of skin microbiome in acne: a bibliometric perspective
Deep learning-based ovarian cancer subtypes identification using multi-omics data
The Matthews correlation coefficient (MCC) is more reliable than balanced accuracy, bookmaker informedness, and markedness in two-class confusion matrix evaluation
Integrative genomics and transcriptomics analysis of human embryonic and induced pluripotent stem cells
Estimating sequencing error rates using families
Supervised learning methods in modeling of CD4+ T cell heterogeneity
Machine learning algorithms for mode-of-action classification in toxicity assessment
subMG automates data submission for metagenomics studies
LAF: Logic Alignment Free and its application to bacterial genomes classification
Multifactor dimensionality reduction reveals a three-locus epistatic interaction associated with susceptibility to pulmonary tuberculosis
Detecting diseases in medical prescriptions using data mining methods
Mycoplasma contamination in the 1000 Genomes Project
Privacy-preserving chi-squared test of independence for small samples
Gene Set Enrichment Analyses: lessons learned from the heart failure phenotype
Neural networks for genetic epidemiology: past, present, and future
Discovery and replication of SNP-SNP interactions for quantitative lipid traits in over 60,000 individuals
eQTpLot: a user-friendly R package for the visualization of colocalization between eQTL and GWAS signals
TaxKB: a knowledge base for new taxane-related drug discovery
Evolutionary triangulation: informing genetic association studies with evolutionary evidence
Erratum to: Meta-analytic support vector machine for integrating multiple omics data
CatBoost with physics-based metaheuristics for thyroid cancer recurrence prediction
Automatic detection and extraction of key resources from tables in biomedical papers
Functional genomics annotation of a statistical epistasis network associated with bladder cancer susceptibility
'MicroRNA Targets', a new AthaMap web-tool for genome-wide identification of miRNA targets in Arabidopsis thaliana
Vinasse fertirrigation alters soil resistome dynamics: an analysis based on metagenomic profiles
Complex systems analysis of bladder cancer susceptibility reveals a role for decarboxylase activity in two genome-wide association studies
Biological knowledge-slanted random forest approach for the classification of calcified aortic valve stenosis
Construction and validation of a machine learning-based model predicting early readmission in patients with decompensated cirrhosis: a prospective two-center cohort study
An ensemble machine learning-based performance evaluation identifies top In-Silico pathogenicity prediction methods that best classify driver mutations in cancer
A bibliometric analysis on tobacco regulation investigators
Microarray enriched gene rank
Prediction of Drosophila melanogaster gene function using Support Vector Machines
Exo-Tox: Identifying Exotoxins from secreted bacterial proteins
Hill-Climbing search and diversification within an evolutionary approach to protein structure prediction
Deep learning-driven TCR$$\beta$$ repertoire analysis enhances diagnosis and enables mining of immunological biomarkers in systemic lupus erythematosus
Variant Set Enrichment: an R package to identify disease-associated functional genomic regions
QIGTD: identifying critical genes in the evolution of lung adenocarcinoma with tensor decomposition
TSPmap, a tool making use of traveling salesperson problem solvers in the efficient and accurate construction of high-density genetic linkage maps
epiACO - a method for identifying epistasis based on ant Colony optimization algorithm
Machine learning approaches for the genomic prediction of rheumatoid arthritis and systemic lupus erythematosus
Risk score modeling of multiple gene to gene interactions using aggregated-multifactor dimensionality reduction
RNA-sequence data normalization through in silico prediction of reference genes: the bacterial response to DNA damage as case study
Optimizing age-related hearing risk predictions: an advanced machine learning integration with HHIE-S
The genetic interacting landscape of 63 candidate genes in Major Depressive Disorder: an explorative study
Automated quantitative trait locus analysis (AutoQTL)
Towards a phenome-wide catalog of human clinical traits impacted by genetic ancestry
Evaluation of different approaches for missing data imputation on features associated to genomic data
Inter-organ correlation based multi-task deep learning model for dynamically predicting functional deterioration in multiple organ systems of ICU patients
Revisiting the approaches to DNA damage detection in genetic toxicology: insights and regulatory implications
gammaMAXT: a fast multiple-testing correction algorithm
MISSEL: a method to identify a large number of small species-specific genomic subsequences and its application to viruses classification
Effective hybrid feature selection using different bootstrap enhances cancers classification performance
MicroRNA-mediated regulation of target genes in several brain regions is correlated to both microRNA-targeting-specific promoter methylation and differential microRNA expression
Integration and comparison of different genomic data for outcome prediction in cancer
mSRFR: a machine learning model using microalgal signature features for ncRNA classification
Neural network methods for diagnosing patient conditions from cardiopulmonary exercise testing data
Within-sample co-methylation patterns in normal tissues
Prediction of short-term mortality in acute heart failure patients using minimal electronic health record data
Label-free data standardization for clinical metabolomics
Advancing preeclampsia prediction: a tailored machine learning pipeline integrating resampling and ensemble models for handling imbalanced medical data
Adaptive swarm cluster-based dynamic multi-objective synthetic minority oversampling technique algorithm for tackling binary imbalanced datasets in biomedical data classification
Deep joint learning diagnosis of Alzheimer's disease based on multimodal feature fusion
Gene set analysis controlling for length bias in RNA-seq experiments
Single_cell_GRN: gene regulatory network identification based on supervised learning method and Single-cell RNA-seq data
DNA microarray integromics analysis platform
A Normalized Tree Index for identification of correlated clinical parameters in microarray experiments
The Dark Proteome Database
Assessment of emerging pretraining strategies in interpretable multimodal deep learning for cancer prognostication
Feature analysis for classification of trace fluorescent labeled protein crystallization images
ViSEAGO: a Bioconductor package for clustering biological functions using Gene Ontology and semantic similarity
A novel biclustering algorithm of binary microarray data: BiBinCons and BiBinAlter
Lumping versus splitting: the need for biological data mining in precision medicine
Learning the therapeutic targets of acute myeloid leukemia through multiscale human interactome network and community analysis
Processing imbalanced medical data at the data level with assisted-reproduction data as an example
Next generation informatics for big data in precision medicine era
Analysis of risk factors progression of preterm delivery using electronic health records
ProtNN: fast and accurate protein 3D-structure classification in structural and topological space
Biclustering of Gene Expression Data by Correlation-Based Scatter Search
Testing multiple hypotheses through IMP weighted FDR based on a genetic functional network with application to a new zebrafish transcriptome study
Comprehensive analysis of human microRNA target networks
G4 & the balanced metric family - a novel approach to solving binary classification problems in medical device validation & verification studies
MOCAT: multi-omics integration with auxiliary classifiers enhanced autoencoder
PathCORE-T: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia
Investigating potential drug targets for IgA nephropathy and membranous nephropathy through multi-queue plasma protein analysis: a Mendelian randomization study based on SMR and co-localization analysis
Towards a potential pan-cancer prognostic signature for gene expression based on probesets and ensemble machine learning
Predicting molecular initiating events using chemical target annotations and gene expression
EnSCAN: ENsemble Scoring for prioritizing CAusative variaNts across multiplatform GWASs for late-onset alzheimer's disease
MultiChem: predicting chemical properties using multi-view graph attention network
Comparing new tools of artificial intelligence to the authentic intelligence of our global health students
Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning
iSuc-ChiDT: a computational method for identifying succinylation sites using statistical difference table encoding and the chi-square decision table classifier
Interaction networks for identifying coupled molecular processes in microbial communities
Identification of the active substances and mechanisms of ginger for the treatment of colon cancer based on network pharmacology and molecular docking
OCDD: an obesity and co-morbid disease database
Functional networks inference from rule-based machine learning models
Genetically improved BarraCUDA
Ideas for how informaticians can get involved with COVID-19 research
Indels in SARS-CoV-2 occur at template-switching hotspots
Non-coding yet non-trivial: a review on the computational genomics of lincRNAs
Correction: Motif clustering and digital biomarker extraction for free-living physical activity analysis
Influenza, dengue and common cold detection using LSTM with fully connected neural network and keywords selection
ScInfoVAE: interpretable dimensional reduction of single cell transcription data with variational autoencoders and extended mutual information regularization
Identifying time-delayed gene regulatory networks via an evolvable hierarchical recurrent neural network
A comparison of machine learning techniques for survival prediction in breast cancer
Genome-wide association studies are enriched for interacting genes
A multi-objective gene clustering algorithm guided by apriori biological knowledge with intensification and diversification strategies
DBSCAN and DBCV application to open medical records heterogeneous data for identifying clinically significant clusters of patients with neuroblastoma
Representing and querying disease networks using graph databases
SEQdata-BEACON: a comprehensive database of sequencing performance and statistical tools for performance evaluation and yield simulation in BGISEQ-500
Genomic analyses with biofilter 2.0: knowledge driven filtering, annotation, and model development
Study of Meta-analysis strategies for network inference using information-theoretic approaches
ClickGene: an open cloud-based platform for big pan-cancer data genome-wide association study, visualization and exploration
nRC: non-coding RNA Classifier based on structural features
FARFOOD: a database of potential interactions between food compounds and drugs
Ten quick tips for machine learning in computational biology
Development of an AI-powered AR glasses system for real-time first aid guidance in emergency situations
Machine learning and statistical approaches for classification of risk of coronary artery disease using plasma cytokines
Discrete derivative: a data slicing algorithm for exploration of sharing biological networks between rheumatoid arthritis and coronary heart disease
Genome-wide predictors of NF-κB recruitment and transcriptional activity
Exploring the common genetic basis of metabolic syndrome-related diseases and chronic kidney disease: insights from extensive genome-wide cross-trait analyses
Erratum to: BioDB extractor: customized data extraction system for commonly used bioinformatics databases
Partitioning clustering algorithms for protein sequence data sets
Mining causal relationships among clinical variables for cancer diagnosis based on Bayesian analysis
A particle swarm optimization-based algorithm for finding gapped motifs
Alignment of gene expression profiles from test samples against a reference database: New method for context-specific interpretation of microarray data
Considerations for higher efficiency and productivity in research activities
Peer2ref: a peer-reviewer finding web tool that uses author disambiguation
ChatGPT and large language models in academia: opportunities and challenges
No-boundary thinking in bioinformatics research
Principal component gene set enrichment (PCGSE)
Performance of genetic programming optimised Bowtie2 on genome comparison and analytic testing (GCAT) benchmarks
Filling the gap between biology and computer science
A network-based drug prioritization and combination analysis for the MEK5/ERK5 pathway in breast cancer
Comparison of 16S and whole genome dog microbiomes using machine learning
Leveraging mixed-effects regression trees for the analysis of high-dimensional longitudinal data to identify the low and high-risk subgroups: simulation study with application to genetic study
Innovation is often unnerving: the door into summer
Prediction of the risk of developing end-stage renal diseases in newly diagnosed type 2 diabetes mellitus using artificial intelligence algorithms
Quantum analysis of squiggle data
Scalable non-negative matrix tri-factorization
ATHENA: A knowledge-based hybrid backpropagation-grammatical evolution neural network algorithm for discovering epistasis among quantitative trait Loci
Knowledge-slanted random forest method for high-dimensional data and small sample size with a feature selection application for gene expression data
Combining functional genomics strategies identifies modular heterogeneity of breast cancer intrinsic subtypes
The optimal crowd learning machine
Correction: Learning the therapeutic targets of acute myeloid leukemia through multiscale human interactome network and community analysis
Correction: A prognostic model based on seven immune-related genes predicts the overall survival of patients with hepatocellular carcinoma
SICTIN: Rapid footprinting of massively parallel sequencing data
circGPAcorr: an integrative tool for functional annotation of circular RNAs using expression data
Identifying genetic interactions associated with late-onset Alzheimer's disease
Interpreting drug synergy in breast cancer with deep learning using target-protein inhibition profiles
Network construction and structure detection with metagenomic count data
Comparative analysis, applications, and interpretation of electronic health record-based stroke phenotyping methods
A robustness study of parametric and non-parametric tests in model-based multifactor dimensionality reduction for epistasis detection
Endoscopy-based IBD identification by a quantized deep learning pipeline
Genetic risk score for ovarian cancer based on chromosomal-scale length variation
TRIQ: a new method to evaluate triclusters
Mining beyond the exome
Identifying heterogeneous subgroups of systemic autoimmune diseases by applying a joint dimension reduction and clustering approach to immunomarkers
A call for biological data mining approaches in epidemiology
Unraveling genomic variation from next generation sequencing data
Search extension transforms Wiki into a relational system: A case for flavonoid metabolite database
Finding semantic patterns in omics data using concept rule learning with an ontology-based refinement operator
Computational dynamic approaches for temporal omics data with applications to systems medicine
Transition-transversion encoding and genetic relationship metric in ReliefF feature selection improves pathway enrichment in GWAS
Knomics-Biota - a system for exploratory analysis of human gut microbiota data
Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient
Fast approximate hierarchical clustering using similarity heuristics
Building a glaucoma interaction network using a text mining approach
A new pipeline for structural characterization and classification of RNA-Seq microbiome data
m1A-Ensem: accurate identification of 1-methyladenosine sites through ensemble models
An R package implementation of multifactor dimensionality reduction
Low-mass-ion discriminant equation (LOME) for ovarian cancer screening
EZCancerTarget: an open-access drug repurposing and data-collection tool to enhance target validation and optimize international research efforts against highly progressive cancers
Improving machine learning reproducibility in genetic association studies with proportional instance cross validation (PICV)
Feature selection using distributions of orthogonal PLS regression vectors in spectral data
Molecular network analysis of human microRNA targetome: from cancers to Alzheimer's disease
A review of estimation of distribution algorithms in bioinformatics
From COVID-19 to monkeypox: a novel predictive model for emerging infectious diseases
A biplot correlation range for group-wise metabolite selection in mass spectrometry
Pathway metrics accurately stratify T cells to their cells states
DeepAutoGlioma: a deep learning autoencoder-based multi-omics data integration and classification tools for glioma subtyping
Deep learning methods improve linear B-cell epitope prediction
Grid-based stochastic search for hierarchical gene-gene interactions in population-based genetic studies of common human diseases
A Classification and Characterization of Two-Locus, Pure, Strict, Epistatic Models for Simulation and Detection
The Venus score for the assessment of the quality and trustworthiness of biomedical datasets
Disease associations depend on visit type: results from a visit-wide association study
Measuring associations between the microbiota and repeated measures of continuous clinical variables using a lasso-penalized generalized linear mixed model
Minimization of occurrence of retained surgical items using machine learning and deep learning techniques: a review
Grammatical evolution decision trees for detecting gene-gene interactions
Statistical quality assessment and outlier detection for liquid chromatography-mass spectrometry experiments
Performance of model-based multifactor dimensionality reduction methods for epistasis detection by controlling population structure
Predictive modeling of ALS progression: an XGBoost approach using clinical features
Robust normalization protocols for multiplexed fluorescence bioimage analysis
Linked vaccine adverse event data from VAERS for biomedical data analysis and longitudinal studies
Enhanced labor pain monitoring using machine learning and ECG waveform analysis for uterine contraction-induced pain
FEDRR: fast, exhaustive detection of redundant hierarchical relations for quality improvement of large biomedical ontologies