yusuke1997/dblp-id-title huggingface dataset:
Integrative analysis of gene expression and methylation data for breast cancer cell lines
Mango: combining and analyzing heterogeneous biological networks
Mining the diseasome
Mining tissue specificity, gene connectivity and disease association to reveal a set of genes that modify the action of disease causing genes
Investigating the relationship between mitochondrial genetic variation and cardiovascular-related traits to develop a framework for mitochondrial phenome-wide association studies
XGBoost-enhanced ensemble model using discriminative hybrid features for the prediction of sumoylation sites
Exploring active ingredients and function mechanisms of Ephedra-bitter almond for prevention and treatment of Corona virus disease 2019 (COVID-19) based on network pharmacology
Cancer based pharmacogenomics network supported with scientific evidences: from the view of drug repurposing
Research agenda for using artificial intelligence in health governance: interpretive scoping review and framework
A new challenge for data analytics: transposons
Feature graphs for interpretable unsupervised tree ensembles: centrality, interaction, and application in disease subtyping
A comparison of genomic copy number calls by Partek Genomics Suite, Genotyping Console and Birdsuite algorithms to quantitative PCR
Bioinformatics analysis of Rickettsia typhi autoimmune associations and screening of Streptomyces-derived inhibitors
Semantics-based plausible reasoning to extend the knowledge coverage of medical knowledge bases for improved clinical decision support
Prediction of protein solvent accessibility using PSO-SVR with multiple sequence-derived features and weighted sliding window scheme
The prediction accuracy of dynamic mixed-effects models in clustered data
ExpressionData - A public resource of high quality curated datasets representing gene expression across anatomy, development and experimental conditions
Grasping frequent subgraph mining for bioinformatics applications
Investigating the parameter space of evolutionary algorithms
Merging microarray studies to identify a common gene expression signature to several structural heart diseases
Supervised DNA Barcodes species classification: analysis, comparisons and results
SePIA: RNA and small RNA sequence processing, integration, and analysis
MoRFs_TransFuse: a MoRFs predictor based on multimodal feature fusion and the lightweight Transformer network
LoFTK: a framework for fully automated calculation of predicted Loss-of-Function variants and genes
The disconnect between classical biostatistics and the biological data mining community
Enriched phenotypes in rare variant carriers suggest pathogenic mechanisms in rare disease patients
A simple guide to the use of Student's t-test, Mann-Whitney U test, Chi-squared test, and Kruskal-Wallis test in biostatistics
The spatial dimension in biological data mining
Spatially Uniform ReliefF (SURF) for computationally-efficient filtering of gene-gene interactions
Ensemble feature selection and tabular data augmentation with generative adversarial networks to enhance cutaneous melanoma identification and interpretability
Blurring contact maps of thousands of proteins: what we can learn by reconstructing 3D structure
Towards precision oncology: a multi-level cancer classification system integrating liquid biopsy and machine learning
Network pharmacology reveals the multiple mechanisms of Xiaochaihu decoction in the treatment of non-alcoholic fatty liver disease
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms' representation
Integrative analysis of genetic and epigenetic profiling of lung squamous cell carcinoma (LSCC) patients to identify smoking level relevant biomarkers
Use case driven evaluation of open databases for pediatric cancer research
Visualisation of quadratic discriminant analysis and its application in exploration of microbial interactions
Predicting metabolite-disease associations based on KATZ model
Identification of microbial interaction network: zero-inflated latent Ising model based approach
Construction and application of medication reminder system: intelligent generation of universal medication schedule
Gene set analysis methods: a systematic comparison
PGxClean: a quality control GUI for the Affymetrix DMET chip and other candidate gene studies with non-biallelic alleles
Using artificial intelligence (AI) to model clinical variant reporting for next generation sequencing (NGS) oncology assays
Improving classification on imbalanced genomic data via KDE-based synthetic sampling
Erratum: An iteration normalization and test method for differential expression analysis of RNA-seq data
Identification of severity related mutation hotspots in SARS-CoV-2 using a density-based clustering approach
Principal component analysis based unsupervised feature extraction applied to budding yeast temporally periodic gene expression
A multilevel layout algorithm for visualizing physical and genetic interaction networks, with emphasis on their modular organization
An automated framework for hypotheses generation using literature
Rule based classifier for the analysis of gene-gene and gene-environment interactions in genetic association studies
Arete - candidate gene prioritization using biological network topology with additional evidence types
Enhancing clinical outcome predictions through effective sample size evaluation in graph-based digital twin modeling
Exploring glioma heterogeneity through omics networks: from gene network discovery to causal insights and patient stratification
Mining SOM expression portraits: feature selection and integrating concepts of molecular function
Development and validation of a novel blending machine learning model for hospital mortality prediction in ICU patients with Sepsis
Multivariate longitudinal clustering reveals neuropsychological factors as dementia predictors in an Alzheimer's disease progression study
Mechanistic modeling of the SARS-CoV-2 disease map
An explainable machine learning model for predicting postoperative cholangitis in pediatric surgical patients with pancreaticobiliary maljunction
The limits of p-values for biological data mining
A probabilistic approach for building disease phenotypes across electronic health records
Uncovering correlated variabilityin epigenomic datasets usingthe Karhunen-Loeve transform
Deep learning for automatic calcium detection in echocardiography
CAUSALRLSTACK: adaptive balancing of deep representation and causal effect estimation with application to HIV-related health data
Detection of putative new mutacins by bioinformatic analysis using available web tools
PMLB: a large benchmark suite for machine learning evaluation and comparison
Optimization and visualization of the edge weights in optimal assignment methods for virtual screening
Detecting gene-gene interactions using a permutation-based random forest method
Using graph theory to analyze biological networks
A novel joint analysis framework improves identification of differentially expressed genes in cross disease transcriptomic analysis
DADA: Degree-Aware Algorithms for Network-Based Disease Gene Prioritization
Screening for mouse genes lost in mammals with long lifespans
Data analytics and clinical feature ranking of medical records of patients with sepsis
Revealing third-order interactions through the integration of machine learning and entropy methods in genomic studies
Sparse generalized linear model with L 0 approximation for feature selection and prediction with big omics data
COVID-TRACK: world and USA SARS-COV-2 testing and COVID-19 tracking
Unsupervised encoding selection through ensemble pruning for biomedical classification
Erratum to: Evolving hard problems: generating human genetics datasets with a complex etiology
The tip of the iceberg: challenges of accessing hospital electronic health record data for biological data mining
DIVIS: a semantic DIstance to improve the VISualisation of heterogeneous phenotypic datasets
Seven quick tips for gene-focused computational pangenomic analysis
Visualising associations between paired 'omics' data sets
Combining DNA methylation and RNA sequencing data of cancer for supervised knowledge extraction
Clustering-based approaches to SAGE data mining
Identifying gene-gene interactions that are highly associated with Body Mass Index using Quantitative Multifactor Dimensionality Reduction (QMDR)
A deep learning approach for classifying and predicting children's nutritional status in Ethiopia using LSTM-FC neural networks
Learning and visualizing chronic latent representations using electronic health records
Supervised multiple kernel learning approaches for multi-omics data integration
Motif clustering and digital biomarker extraction for free-living physical activity analysis
Database mining for selection of SNP markers useful in admixture mapping
Machine learning models for reinjury risk prediction using cardiopulmonary exercise testing (CPET) data: optimizing athlete recovery
Clinical assistant decision-making model of tuberculosis based on electronic health records
Developing a modular architecture for creation of rule-based clinical diagnostic criteria
Priority-Elastic net for binary disease outcome prediction based on multi-omics data
Predicting opioid dependence from electronic health records with machine learning
O brave new world that has such machines in it
The accelerated aging model reveals critical mechanisms of late-onset Parkinson's disease
Development of glaucoma predictive model and risk factors assessment based on supervised models
Structural updates of alignment of protein domains and consequences on evolutionary models of domain superfamilies
Identification of therapeutic targets from genetic association studies using hierarchical component analysis
Saliency-driven explainable deep learning in medical imaging: bridging visual explainability and statistical quantitative analysis
Prediction of relevant biomedical documents: a human microbiome case study
Identification of SNPs associated with variola virus virulence
Informative gene network for chemotherapy-induced peripheral neuropathy
Applications of the MapReduce programming framework to clinical big data analysis: current landscape and future trends
Application of network pharmacology and molecular docking to elucidate the potential mechanism of Eucommia ulmoides-Radix Achyranthis Bidentatae against osteoarthritis
Characterizing gene-gene interactions in a statistical epistasis network of twelve candidate genes for obesity
A simple structure-based model for the prediction of HIV-1 co-receptor tropism
Inferring protein from transcript abundances using convolutional neural networks
Geospatial analysis of short sleep duration and cognitive disability in US adults: a multi-state study using machine learning techniques
Machine learning based study for the classification of Type 2 diabetes mellitus subtypes
Transcriptome-based network analysis related to regulatory T cells infiltration identified RCN1 as a potential biomarker for prognosis in clear cell renal cell carcinoma
Large scale analysis of positional effects of single-base mismatches on microarray gene expression data
Gaussian noise up-sampling is better suited than SMOTE and ADASYN for clinical decision making
Reference-free phylogeny from sequencing data
Network-based multi-omics integrative analysis methods in drug discovery: a systematic review
Proteome mining of Yersinia Enterocolitica for drug targets and computational inhibitor identification with ADMET, anti-inflammation potential and formulation characteristics
Logic minimization and rule extraction for identification of functional sites in molecular sequences
Characterizing human genomic coevolution in locus-gene regulatory interactions
An epistatic interaction between pre-natal smoke exposure and socioeconomic status has a significant impact on bronchodilator drug response in African American youth with asthma
A regularized Cox hierarchical model for incorporating annotation information in predictive omic studies
Confounding of linkage disequilibrium patterns in large scale DNA based gene-gene interaction studies
A maximum flow-based network approach for identification of stable noncoding biomarkers associated with the multigenic neurological condition, autism
Accurate prediction of protein relative solvent accessibility using a balanced model
SequenceCEROSENE: a computational method and web server to visualize spatial residue neighborhoods at the sequence level
Identification of influential observations in high-dimensional cancer survival data through the rank product test
Genetics and precision health: the ecological fallacy and artificial intelligence solutions
Building RadiologyNET: an unsupervised approach to annotating a large-scale multimodal medical database
A machine learning approach using conditional normalizing flow to address extreme class imbalance problems in personal health records
A Gated Recurrent Unit based architecture for recognizing ontology concepts from biological literature
Caipirini: using gene sets to rank literature
Unified Cox model based multifactor dimensionality reduction method for gene-gene interaction analysis of the survival phenotype
GAMETES: a fast, direct algorithm for generating pure, strict, epistatic models with random architectures
Evolutionary computation: the next major transition of artificial intelligence?
Connecting genetics and gene expression data for target prioritisation and drug repositioning
STAR_outliers: a python package that separates univariate outliers from non-normal distributions
DAPPER: a data-mining resource for protein-protein interactions
Heart rate transition patterns reveal autonomic dysfunction in heart failure with renal function decline: a symbolic and Markov model approach
Visual programming for next-generation sequencing data analytics
Revisiting the use of graph centrality models in biological pathway analysis
Identification of immune-associated biomarkers of diabetes nephropathy tubulointerstitial injury based on machine learning: a bioinformatics multi-chip integrated analysis
Cross-regional radiomics: a novel framework for relationship-based feature extraction with validation in Parkinson's disease motor subtyping
Risk estimation using probability machines
Ten simple rules for providing bioinformatics support within a hospital
Prescription pattern analysis of Type 2 Diabetes Mellitus: a cross-sectional study in Isfahan, Iran
Unsupervised clustering based coronary artery segmentation
Comparison of cancer subtype identification methods combined with feature selection methods in omics data analysis
Probability calibration-based prediction of recurrence rate in patients with diffuse large B-cell lymphoma
Joint analysis of multiple high-dimensional data types using sparse matrix approximations of rank-1 with applications to ovarian and liver cancer
To know the objective is not (necessarily) to know the objective function
EFS: an ensemble feature selection tool implemented as R-package and web-application
Prediction of MoRFs based on sequence properties and convolutional neural networks
Disclosing transcriptomics network-based signatures of glioma heterogeneity using sparse methods
A comparison of methods for interpreting random forest models of genetic association in the presence of non-additive interactions
Coupling sparse Cox models with clustering of longitudinal transcriptomics data for trauma prognosis
Bacterial rose garden for metagenomic SNP-based phylogeny visualization
Evolutionary methods for variable selection in the epidemiological modeling of cardiovascular diseases
LVQ-SMOTE - Learning Vector Quantization based Synthetic Minority Over-sampling Technique for biomedical data
An association-adjusted consensus deleterious scheme to classify homozygous Mis-sense mutations for personal genome interpretation
Functional dyadicity and heterophilicity of gene-gene interactions in statistical epistasis networks
pGQL: A probabilistic graphical query language for gene expression time courses
Robust and rigorous identification of tissue-specific genes by statistically extending tau score
Classification of breast cancer recurrence based on imputed data: a simulation study
The multiscale backbone of the human phenotype network based on biological pathways
A compact encoding of the genome suitable for machine learning prediction of traits and genetic risk scores
Expanding a database-derived biomedical knowledge graph via multi-relation extraction from biomedical abstracts
DASSI: differential architecture search for splice identification from DNA sequences
Temporal phenotyping and prognostic stratification of patients with sepsis through longitudinal clustering
ParticleChromo3D: a Particle Swarm Optimization algorithm for chromosome 3D structure prediction from Hi-C data
Multifactor dimensionality reduction analysis identifies specific nucleotide patterns promoting genetic polymorphisms
Evaluating risk detection methods to uncover ontogenic-mediated adverse drug effect mechanisms in children
Soft document clustering using a novel graph covering approach
A prognostic model based on seven immune-related genes predicts the overall survival of patients with hepatocellular carcinoma
Detection of changes in gene regulatory patterns, elicited by perturbations of the Hsp90 molecular chaperone complex, by visualizing multiple experiments with an animation
Novel digital approaches to the assessment of problematic opioid use
Transcriptome- and DNA methylation-based cell-type deconvolutions produce similar estimates of differential gene expression and differential methylation
An iteration normalization and test method for differential expression analysis of RNA-seq data
Meta-analytic support vector machine for integrating multiple omics data
Prognostic feature based on androgen-responsive genes in bladder cancer and screening for potential targeted drugs
Algorithm-based detection of acute kidney injury according to full KDIGO criteria including urine output following cardiac surgery: a descriptive analysis
Semi-supervised consensus clustering for gene expression data analysis
The central role of biological data mining in connecting diverse disciplines
Gene ontology analysis of pairwise genetic associations in two genome-wide studies of sporadic ALS
Diverse convergent evidence in the genetic analysis of complex disease: coordinating omic, informatic, and experimental evidence to better identify and validate risk factors
The Interaction Network Ontology-supported modeling and mining of complex interactions represented with multiple keywords in biomedical literature
Prediction of donor splice sites using random forest with a new sequence encoding approach
Inverse problem for parameters identification in a modified SIRD epidemic model using ensemble neural networks
Bacteria spatial tracking in Urban Park soils with MALDI-TOF Mass Spectrometry and Specific PCR
Short- and long-term weekly patient-reported outcomes prediction undergoing radiotherapy: single-patient time series model vs. transformer-based multi-patient time series model
Ten important roles for academic leaders to promote equity, diversity, and inclusion in data science
On predicting regulatory genes by analysis of functional networks in C. elegans
Correction: Confounding of linkage disequilibrium patterns in large scale DNA based gene-gene interaction studies
A network pharmacology-based study on Alzheimer disease prevention and treatment of Qiong Yu Gao
Data mining and the evolution of biological complexity
An extended data mining method for identifying differentially expressed assay-specific signatures in functional genomic studies
Decoding dynamic miRNA: ceRNA interactions unveils therapeutic insights and targets across predominant cancer landscapes
MiCML: a causal machine learning cloud platform for the analysis of treatment effects using microbiome profiles
Weighted multiple testing procedures for genomic studies
An intelligent healthcare system for rare disease diagnosis utilizing electronic health records based on a knowledge-guided multimodal transformer framework
On the utilization of deep and ensemble learning to detect milk adulteration
A multi-feature hybrid classification data mining technique for human-emotion
matK-QR classifier: a patterns based approach for plant species identification
Discovering feature relevancy and dependency by kernel-guided probabilistic model-building evolution
Data integration to prioritize drugs using genomics and curated data
LightCUD: a program for diagnosing IBD based on human gut microbiome data
iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes
Using random walks to identify cancer-associated modules in expression data
Innovative strategies for annotating the "relationSNP" between variants and molecular phenotypes
Correction: Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning
Iteratively refining breast cancer intrinsic subtypes in the METABRIC dataset
Encodings and models for antimicrobial peptide classification for multi-resistant pathogens
A fast forward 3D connection algorithm for mitochondria and synapse segmentations from serial EM images
Gene function finding through cross-organism ensemble learning
Examining the effector mechanisms of Xuebijing injection on COVID-19 based on network pharmacology
Correction to: iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes
Gene-Interaction-Sensitive enrichment analysis in congenital heart disease
Detection of iron deficiency anemia by medical images: a comparative study of machine learning algorithms
Cluster ensemble based on Random Forests for genetic data
Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration
GenoVault: a cloud based genomics repository
Therapeutic mechanism of Toujie Quwen granules in COVID-19 based on network pharmacology
Application of an interpretable classification model on Early Folding Residues during protein folding
Can open source large language models be used for tumor documentation in Germany? - An evaluation on urological doctors' notes
Accurate prediction of major histocompatibility complex class II epitopes by sparse representation via l1-minimization
Machine-learning-based models to predict cardiovascular risk using oculomics and clinic variables in KNHANES
Protein folding prediction in the HP model using ions motion optimization with a greedy algorithm
Conservation machine learning
An automated pipeline for bouton, spine, and synapse detection of in vivo two-photon images
Deciphering the tissue-specific functional effect of Alzheimer risk SNPs with deep genome annotation
Finding biomarkers in non-model species: literature mining of transcription factors involved in bovine embryo development
r2VIM: A new variable selection method for random forests in genome-wide association studies
Machine learning approaches to identify systemic lupus erythematosus in anti-nuclear antibody-positive patients using genomic data and electronic health records
Big data - a 21st century science Maginot Line? No-boundary thinking: shifting from the big data paradigm
A survey of visualization tools for biological network analysis
Modeling gene-by-environment interaction in comorbid depression with alcohol use disorders via an integrated bioinformatics approach
The effects of electronic medical record phenotyping details on genetic association studies: HDL-C as a case study
RNSCLC-PRSP software to predict the prognostic risk and survival in patients with resected T1-3N0-2 M0 non-small cell lung cancer
Assessment of the causal relationship between gut microbiota and cardiovascular diseases: a bidirectional Mendelian randomization analysis
Interpretable recurrent neural network models for dynamic prediction of the extubation failure risk in patients with invasive mechanical ventilation in the intensive care unit
Improved Bevirimat resistance prediction by combination of structural and sequence-based classifiers