OOIR: Observatory of International Research

Papers

(The median citation count of Biodata Mining is 2. 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 2021-07-01 to 2025-07-01.)

Article	Citations
MOCAT: multi-omics integration with auxiliary classifiers enhanced autoencoder	324
Transcriptome-based network analysis related to regulatory T cells infiltration identified RCN1 as a potential biomarker for prognosis in clear cell renal cell carcinoma	243
A new pipeline for structural characterization and classification of RNA-Seq microbiome data	52
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	43
Correction: Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning	43
Processing imbalanced medical data at the data level with assisted-reproduction data as an example	41
Deep joint learning diagnosis of Alzheimer’s disease based on multimodal feature fusion	33
Comparing new tools of artificial intelligence to the authentic intelligence of our global health students	26
Machine learning approaches to identify systemic lupus erythematosus in anti-nuclear antibody-positive patients using genomic data and electronic health records	25
Unsupervised clustering based coronary artery segmentation	22
Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient	22
Ten simple rules for providing bioinformatics support within a hospital	22
Neural network methods for diagnosing patient conditions from cardiopulmonary exercise testing data	22
Polygenic risk modeling of tumor stage and survival in bladder cancer	21
Colorectal cancer subtype identification from differential gene expression levels using minimalist deep learning	19
Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning	17
Decoding dynamic miRNA:ceRNA interactions unveils therapeutic insights and targets across predominant cancer landscapes	17
The biomedical knowledge graph of symptom phenotype in coronary artery plaque: machine learning-based analysis of real-world clinical data	14
Supervised multiple kernel learning approaches for multi-omics data integration	13
Genetics and precision health: the ecological fallacy and artificial intelligence solutions	13
Comparison of 16S and whole genome dog microbiomes using machine learning	10
Correction: Motif clustering and digital biomarker extraction for free-living physical activity analysis	9
Gaussian noise up-sampling is better suited than SMOTE and ADASYN for clinical decision making	9
m1A-Ensem: accurate identification of 1-methyladenosine sites through ensemble models	9
Advancing preeclampsia prediction: a tailored machine learning pipeline integrating resampling and ensemble models for handling imbalanced medical data	9

Using GPT-4 to write a scientific review article: a pilot evaluation study	9
Interpreting drug synergy in breast cancer with deep learning using target-protein inhibition profiles	8
Effective hybrid feature selection using different bootstrap enhances cancers classification performance	8
GenoVault: a cloud based genomics repository	8
Assessment of the causal relationship between gut microbiota and cardiovascular diseases: a bidirectional Mendelian randomization analysis	8
Motif clustering and digital biomarker extraction for free-living physical activity analysis	8
Predictive modeling of ALS progression: an XGBoost approach using clinical features	8
From COVID-19 to monkeypox: a novel predictive model for emerging infectious diseases	8
Understanding predictions of drug profiles using explainable machine learning models	7
Reference-free phylogeny from sequencing data	7
Ensemble feature selection and tabular data augmentation with generative adversarial networks to enhance cutaneous melanoma identification and interpretability	7
An unsupervised image segmentation algorithm for coronary angiography	7
Machine learning models for reinjury risk prediction using cardiopulmonary exercise testing (CPET) data: optimizing athlete recovery	7
Disclosing transcriptomics network-based signatures of glioma heterogeneity using sparse methods	7
Detection of iron deficiency anemia by medical images: a comparative study of machine learning algorithms	7
A machine learning approach using conditional normalizing flow to address extreme class imbalance problems in personal health records	6
Open challenges and opportunities in federated foundation models towards biomedical healthcare	6
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	6
Saliency-driven explainable deep learning in medical imaging: bridging visual explainability and statistical quantitative analysis	6
6mA-StackingCV: an improved stacking ensemble model for predicting DNA N6-methyladenine site	6
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms’ representation	6
Changing word meanings in biomedical literature reveal pandemics and new technologies	5
Correction: A prognostic model based on seven immune-related genes predicts the overall survival of patients with hepatocellular carcinoma	5
Evaluation of network-guided random forest for disease gene discovery	5
Biological knowledge-slanted random forest approach for the classification of calcified aortic valve stenosis	5
Optimizing age-related hearing risk predictions: an advanced machine learning integration with HHIE-S	5
Identification of immune-associated biomarkers of diabetes nephropathy tubulointerstitial injury based on machine learning: a bioinformatics multi-chip integrated analysis	5
MultiChem: predicting chemical properties using multi-view graph attention network	5
The Matthews correlation coefficient (MCC) should replace the ROC AUC as the standard metric for assessing binary classification	5
ChatGPT and large language models in academia: opportunities and challenges	5
Endoscopy-based IBD identification by a quantized deep learning pipeline	5
Revealing third-order interactions through the integration of machine learning and entropy methods in genomic studies	5
A Gated Recurrent Unit based architecture for recognizing ontology concepts from biological literature	4
Integrating pathway knowledge with deep neural networks to reduce the dimensionality in single-cell RNA-seq data	4
Machine Learning Algorithms for understanding the determinants of under-five Mortality	4
A regularized Cox hierarchical model for incorporating annotation information in predictive omic studies	4
Network-based multi-omics integrative analysis methods in drug discovery: a systematic review	4
ScInfoVAE: interpretable dimensional reduction of single cell transcription data with variational autoencoders and extended mutual information regularization	4
Polymorphisms in the mTOR-PI3K-Akt pathway, energy balance-related exposures and colorectal cancer risk in the Netherlands Cohort Study	4
Analysis of risk factors progression of preterm delivery using electronic health records	4
TGNet: tensor-based graph convolutional networks for multimodal brain network analysis	4
Construction and application of medication reminder system: intelligent generation of universal medication schedule	4
Machine-learning-based models to predict cardiovascular risk using oculomics and clinic variables in KNHANES	4
Prediction of MoRFs based on sequence properties and convolutional neural networks	4
iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes	3
Novel digital approaches to the assessment of problematic opioid use	3
subMG automates data submission for metagenomics studies	3
eQTpLot: a user-friendly R package for the visualization of colocalization between eQTL and GWAS signals	3
Enhancing hepatopathy clinical trial efficiency: a secure, large language model-powered pre-screening pipeline	3
Machine learning based study for the classification of Type 2 diabetes mellitus subtypes	3

Electronic medical records imputation by temporal Generative Adversarial Network	3
Priority-Elastic net for binary disease outcome prediction based on multi-omics data	3
Deciphering the tissue-specific functional effect of Alzheimer risk SNPs with deep genome annotation	3
PAGER: A novel genotype encoding strategy for modeling deviations from additivity in complex trait association studies	3
ParticleChromo3D: a Particle Swarm Optimization algorithm for chromosome 3D structure prediction from Hi-C data	3
mSRFR: a machine learning model using microalgal signature features for ncRNA classification	3
Algorithm-based detection of acute kidney injury according to full KDIGO criteria including urine output following cardiac surgery: a descriptive analysis	3
QIGTD: identifying critical genes in the evolution of lung adenocarcinoma with tensor decomposition	3
Quantum analysis of squiggle data	2
Comparison of cancer subtype identification methods combined with feature selection methods in omics data analysis	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
Inverse problem for parameters identification in a modified SIRD epidemic model using ensemble neural networks	2
iSuc-ChiDT: a computational method for identifying succinylation sites using statistical difference table encoding and the chi-square decision table classifier	2
Agenda setting for health equity assessment through the lenses of social determinants of health using machine learning approach: a framework and preliminary pilot study	2
Private pathological assessment via machine learning and homomorphic encryption	2
Towards a potential pan-cancer prognostic signature for gene expression based on probesets and ensemble machine learning	2
Distinct network patterns emerge from Cartesian and XOR epistasis models: a comparative network science analysis	2
Automated quantitative trait locus analysis (AutoQTL)	2
Influenza, dengue and common cold detection using LSTM with fully connected neural network and keywords selection	2
Deep learning-based approaches for multi-omics data integration and analysis	2
Feature graphs for interpretable unsupervised tree ensembles: centrality, interaction, and application in disease subtyping	2
Taxonomy-based data representation for data mining: an example of the magnitude of risk associated with H. pylori infection	2
Assessing the limitations of relief-based algorithms in detecting higher-order interactions	2
AI as an accelerator for defining new problems that transcends boundaries	2
Enhanced labor pain monitoring using machine learning and ECG waveform analysis for uterine contraction-induced pain	2
Predicting molecular initiating events using chemical target annotations and gene expression	2
Learning the therapeutic targets of acute myeloid leukemia through multiscale human interactome network and community analysis	2
Overlapping filter bank convolutional neural network for multisubject multicategory motor imagery brain-computer interface	2