OOIR: Observatory of International Research

Papers

(The median citation count of Biodata Mining is 1. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-05-01 to 2025-05-01.)

Article	Citations
MOCAT: multi-omics integration with auxiliary classifiers enhanced autoencoder	277
Transcriptome-based network analysis related to regulatory T cells infiltration identified RCN1 as a potential biomarker for prognosis in clear cell renal cell carcinoma	209
Deep joint learning diagnosis of Alzheimer’s disease based on multimodal feature fusion	49
A new pipeline for structural characterization and classification of RNA-Seq microbiome data	40
Correction: Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning	39
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 analys	39
Processing imbalanced medical data at the data level with assisted-reproduction data as an example	29
Comparing new tools of artificial intelligence to the authentic intelligence of our global health students	23
Neural network methods for diagnosing patient conditions from cardiopulmonary exercise testing data	22
Ten simple rules for providing bioinformatics support within a hospital	22
Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient	21
Unsupervised clustering based coronary artery segmentation	21
Polygenic risk modeling of tumor stage and survival in bladder cancer	18
Machine learning approaches to identify systemic lupus erythematosus in anti-nuclear antibody-positive patients using genomic data and electronic health records	18
Colorectal cancer subtype identification from differential gene expression levels using minimalist deep learning	15
The biomedical knowledge graph of symptom phenotype in coronary artery plaque: machine learning-based analysis of real-world clinical data	14
Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning	13
Decoding dynamic miRNA:ceRNA interactions unveils therapeutic insights and targets across predominant cancer landscapes	13
Supervised multiple kernel learning approaches for multi-omics data integration	13
Genetics and precision health: the ecological fallacy and artificial intelligence solutions	10
Advancing preeclampsia prediction: a tailored machine learning pipeline integrating resampling and ensemble models for handling imbalanced medical data	9
Comparison of 16S and whole genome dog microbiomes using machine learning	9
New neural network classification method for individuals ancestry prediction from SNPs data	9
Gaussian noise up-sampling is better suited than SMOTE and ADASYN for clinical decision making	9
Using GPT-4 to write a scientific review article: a pilot evaluation study	8

Understanding predictions of drug profiles using explainable machine learning models	8
m1A-Ensem: accurate identification of 1-methyladenosine sites through ensemble models	7
Motif clustering and digital biomarker extraction for free-living physical activity analysis	7
GenoVault: a cloud based genomics repository	7
Machine learning models for reinjury risk prediction using cardiopulmonary exercise testing (CPET) data: optimizing athlete recovery	7
Assessment of the causal relationship between gut microbiota and cardiovascular diseases: a bidirectional Mendelian randomization analysis	7
Effective hybrid feature selection using different bootstrap enhances cancers classification performance	7
Predictive modeling of ALS progression: an XGBoost approach using clinical features	7
A maximum flow-based network approach for identification of stable noncoding biomarkers associated with the multigenic neurological condition, autism	6
From COVID-19 to monkeypox: a novel predictive model for emerging infectious diseases	6
Interpreting drug synergy in breast cancer with deep learning using target-protein inhibition profiles	6
6mA-StackingCV: an improved stacking ensemble model for predicting DNA N6-methyladenine site	5
Deep learning-based Emergency Department In-hospital Cardiac Arrest Score (Deep EDICAS) for early prediction of cardiac arrest and cardiopulmonary resuscitation in the emergency department	5
An unsupervised image segmentation algorithm for coronary angiography	5
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms’ representation	5
Saliency-driven explainable deep learning in medical imaging: bridging visual explainability and statistical quantitative analysis	5
Open challenges and opportunities in federated foundation models towards biomedical healthcare	5
Disclosing transcriptomics network-based signatures of glioma heterogeneity using sparse methods	5
A machine learning approach using conditional normalizing flow to address extreme class imbalance problems in personal health records	5
Ensemble feature selection and tabular data augmentation with generative adversarial networks to enhance cutaneous melanoma identification and interpretability	5
Detection of iron deficiency anemia by medical images: a comparative study of machine learning algorithms	5
Reference-free phylogeny from sequencing data	5
Changing word meanings in biomedical literature reveal pandemics and new technologies	4
Network-based multi-omics integrative analysis methods in drug discovery: a systematic review	4
Identification of immune-associated biomarkers of diabetes nephropathy tubulointerstitial injury based on machine learning: a bioinformatics multi-chip integrated analysis	4
ChatGPT and large language models in academia: opportunities and challenges	4
Biological knowledge-slanted random forest approach for the classification of calcified aortic valve stenosis	4
Optimizing age-related hearing risk predictions: an advanced machine learning integration with HHIE-S	4
The Matthews correlation coefficient (MCC) should replace the ROC AUC as the standard metric for assessing binary classification	4
Correction: A prognostic model based on seven immune-related genes predicts the overall survival of patients with hepatocellular carcinoma	4
Revealing third-order interactions through the integration of machine learning and entropy methods in genomic studies	3
Construction and application of medication reminder system: intelligent generation of universal medication schedule	3
Analysis of risk factors progression of preterm delivery using electronic health records	3
Algorithm-based detection of acute kidney injury according to full KDIGO criteria including urine output following cardiac surgery: a descriptive analysis	3
ScInfoVAE: interpretable dimensional reduction of single cell transcription data with variational autoencoders and extended mutual information regularization	3
A Gated Recurrent Unit based architecture for recognizing ontology concepts from biological literature	3
Endoscopy-based IBD identification by a quantized deep learning pipeline	3
MultiChem: predicting chemical properties using multi-view graph attention network	3
Machine Learning Algorithms for understanding the determinants of under-five Mortality	3
Polymorphisms in the mTOR-PI3K-Akt pathway, energy balance-related exposures and colorectal cancer risk in the Netherlands Cohort Study	3
TGNet: tensor-based graph convolutional networks for multimodal brain network analysis	3
Evaluation of network-guided random forest for disease gene discovery	3
Integrating pathway knowledge with deep neural networks to reduce the dimensionality in single-cell RNA-seq data	3
Machine-learning-based models to predict cardiovascular risk using oculomics and clinic variables in KNHANES	3
Prediction of MoRFs based on sequence properties and convolutional neural networks	3
Novel digital approaches to the assessment of problematic opioid use	2
ParticleChromo3D: a Particle Swarm Optimization algorithm for chromosome 3D structure prediction from Hi-C data	2
QIGTD: identifying critical genes in the evolution of lung adenocarcinoma with tensor decomposition	2
A regularized Cox hierarchical model for incorporating annotation information in predictive omic studies	2
Priority-Elastic net for binary disease outcome prediction based on multi-omics data	2

Electronic medical records imputation by temporal Generative Adversarial Network	2
Quantum analysis of squiggle data	2
Comparison of cancer subtype identification methods combined with feature selection methods in omics data analysis	2
Machine learning based study for the classification of Type 2 diabetes mellitus subtypes	2
eQTpLot: a user-friendly R package for the visualization of colocalization between eQTL and GWAS signals	2
mSRFR: a machine learning model using microalgal signature features for ncRNA classification	2
Enhanced labor pain monitoring using machine learning and ECG waveform analysis for uterine contraction-induced pain	2
Towards a potential pan-cancer prognostic signature for gene expression based on probesets and ensemble machine learning	2
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	2
Deciphering the tissue-specific functional effect of Alzheimer risk SNPs with deep genome annotation	2
PAGER: A novel genotype encoding strategy for modeling deviations from additivity in complex trait association studies	2
iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes	2
Distinct network patterns emerge from Cartesian and XOR epistasis models: a comparative network science analysis	2
AI as an accelerator for defining new problems that transcends boundaries	2
iSuc-ChiDT: a computational method for identifying succinylation sites using statistical difference table encoding and the chi-square decision table classifier	1
Agenda setting for health equity assessment through the lenses of social determinants of health using machine learning approach: a framework and preliminary pilot study	1
Unsupervised encoding selection through ensemble pruning for biomedical classification	1
Expanding a database-derived biomedical knowledge graph via multi-relation extraction from biomedical abstracts	1
Multivariate longitudinal clustering reveals neuropsychological factors as dementia predictors in an Alzheimer’s disease progression study	1
A generative deep neural network for pan-digestive tract cancer survival analysis	1
A deep learning approach for classifying and predicting children's nutritional status in Ethiopia using LSTM-FC neural networks	1
Feature graphs for interpretable unsupervised tree ensembles: centrality, interaction, and application in disease subtyping	1
Influenza, dengue and common cold detection using LSTM with fully connected neural network and keywords selection	1
Automated quantitative trait locus analysis (AutoQTL)	1
Taxonomy-based data representation for data mining: an example of the magnitude of risk associated with H. pylori infection	1
Prognostic feature based on androgen-responsive genes in bladder cancer and screening for potential targeted drugs	1
Minimization of occurrence of retained surgical items using machine learning and deep learning techniques: a review	1
Prediction of the risk of developing end-stage renal diseases in newly diagnosed type 2 diabetes mellitus using artificial intelligence algorithms	1
Correction to: iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes	1
Private pathological assessment via machine learning and homomorphic encryption	1
Inverse problem for parameters identification in a modified SIRD epidemic model using ensemble neural networks	1
Predicting molecular initiating events using chemical target annotations and gene expression	1
Correction: Predictive modeling of ALS progression: an XGBoost approach using clinical features	1
Assessing the limitations of relief-based algorithms in detecting higher-order interactions	1
Seven quick tips for gene-focused computational pangenomic analysis	1
Correction: Confounding of linkage disequilibrium patterns in large scale DNA based gene-gene interaction studies	1
The Venus score for the assessment of the quality and trustworthiness of biomedical datasets	1
DIVIS: a semantic DIstance to improve the VISualisation of heterogeneous phenotypic datasets	1
Overlapping filter bank convolutional neural network for multisubject multicategory motor imagery brain-computer interface	1
Deep learning-based approaches for multi-omics data integration and analysis	1