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 2021-06-01 to 2025-06-01.)

Article	Citations
MOCAT: multi-omics integration with auxiliary classifiers enhanced autoencoder	305
Transcriptome-based network analysis related to regulatory T cells infiltration identified RCN1 as a potential biomarker for prognosis in clear cell renal cell carcinoma	230
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	42
Correction: Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning	40
Processing imbalanced medical data at the data level with assisted-reproduction data as an example	39
Deep joint learning diagnosis of Alzheimer’s disease based on multimodal feature fusion	30
Comparing new tools of artificial intelligence to the authentic intelligence of our global health students	25
Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient	22
Machine learning approaches to identify systemic lupus erythematosus in anti-nuclear antibody-positive patients using genomic data and electronic health records	22
Unsupervised clustering based coronary artery segmentation	22
Polygenic risk modeling of tumor stage and survival in bladder cancer	21
Neural network methods for diagnosing patient conditions from cardiopulmonary exercise testing data	20
Ten simple rules for providing bioinformatics support within a hospital	19
Colorectal cancer subtype identification from differential gene expression levels using minimalist deep learning	18
Decoding dynamic miRNA:ceRNA interactions unveils therapeutic insights and targets across predominant cancer landscapes	17
Detection and classification of long terminal repeat sequences in plant LTR-retrotransposons and their analysis using explainable machine learning	14
The biomedical knowledge graph of symptom phenotype in coronary artery plaque: machine learning-based analysis of real-world clinical data	14
Genetics and precision health: the ecological fallacy and artificial intelligence solutions	13
Gaussian noise up-sampling is better suited than SMOTE and ADASYN for clinical decision making	12
New neural network classification method for individuals ancestry prediction from SNPs data	9
Supervised multiple kernel learning approaches for multi-omics data integration	9
Using GPT-4 to write a scientific review article: a pilot evaluation study	9
Comparison of 16S and whole genome dog microbiomes using machine learning	9
Advancing preeclampsia prediction: a tailored machine learning pipeline integrating resampling and ensemble models for handling imbalanced medical data	9

Correction: Motif clustering and digital biomarker extraction for free-living physical activity analysis	8
GenoVault: a cloud based genomics repository	8
m1A-Ensem: accurate identification of 1-methyladenosine sites through ensemble models	8
From COVID-19 to monkeypox: a novel predictive model for emerging infectious diseases	7
Interpreting drug synergy in breast cancer with deep learning using target-protein inhibition profiles	7
Effective hybrid feature selection using different bootstrap enhances cancers classification performance	7
Motif clustering and digital biomarker extraction for free-living physical activity analysis	7
Assessment of the causal relationship between gut microbiota and cardiovascular diseases: a bidirectional Mendelian randomization analysis	7
Predictive modeling of ALS progression: an XGBoost approach using clinical features	7
Understanding predictions of drug profiles using explainable machine learning models	7
Machine learning models for reinjury risk prediction using cardiopulmonary exercise testing (CPET) data: optimizing athlete recovery	7
Detection of iron deficiency anemia by medical images: a comparative study of machine learning algorithms	6
Ensemble feature selection and tabular data augmentation with generative adversarial networks to enhance cutaneous melanoma identification and interpretability	6
Saliency-driven explainable deep learning in medical imaging: bridging visual explainability and statistical quantitative analysis	6
An unsupervised image segmentation algorithm for coronary angiography	6
Reference-free phylogeny from sequencing data	6
Open challenges and opportunities in federated foundation models towards biomedical healthcare	6
Disclosing transcriptomics network-based signatures of glioma heterogeneity using sparse methods	6
The Matthews correlation coefficient (MCC) should replace the ROC AUC as the standard metric for assessing binary classification	5
Changing word meanings in biomedical literature reveal pandemics and new technologies	5
6mA-StackingCV: an improved stacking ensemble model for predicting DNA N6-methyladenine site	5
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms’ representation	5
Correction: A prognostic model based on seven immune-related genes predicts the overall survival of patients with hepatocellular carcinoma	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
Identification of immune-associated biomarkers of diabetes nephropathy tubulointerstitial injury based on machine learning: a bioinformatics multi-chip integrated analysis	5
ChatGPT and large language models in academia: opportunities and challenges	5
Biological knowledge-slanted random forest approach for the classification of calcified aortic valve stenosis	5
A machine learning approach using conditional normalizing flow to address extreme class imbalance problems in personal health records	5
Optimizing age-related hearing risk predictions: an advanced machine learning integration with HHIE-S	5
MultiChem: predicting chemical properties using multi-view graph attention network	4
A Gated Recurrent Unit based architecture for recognizing ontology concepts from biological literature	4
ScInfoVAE: interpretable dimensional reduction of single cell transcription data with variational autoencoders and extended mutual information regularization	4
Network-based multi-omics integrative analysis methods in drug discovery: a systematic review	4
Endoscopy-based IBD identification by a quantized deep learning pipeline	4
Revealing third-order interactions through the integration of machine learning and entropy methods in genomic studies	4
Construction and application of medication reminder system: intelligent generation of universal medication schedule	4
Analysis of risk factors progression of preterm delivery using electronic health records	4
Evaluation of network-guided random forest for disease gene discovery	4
TGNet: tensor-based graph convolutional networks for multimodal brain network analysis	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	3
QIGTD: identifying critical genes in the evolution of lung adenocarcinoma with tensor decomposition	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
eQTpLot: a user-friendly R package for the visualization of colocalization between eQTL and GWAS signals	3
Machine-learning-based models to predict cardiovascular risk using oculomics and clinic variables in KNHANES	3
Algorithm-based detection of acute kidney injury according to full KDIGO criteria including urine output following cardiac surgery: a descriptive analysis	3
Deciphering the tissue-specific functional effect of Alzheimer risk SNPs with deep genome annotation	3
iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes	3

Novel digital approaches to the assessment of problematic opioid use	3
Polymorphisms in the mTOR-PI3K-Akt pathway, energy balance-related exposures and colorectal cancer risk in the Netherlands Cohort Study	3
Machine learning based study for the classification of Type 2 diabetes mellitus subtypes	3
Prediction of MoRFs based on sequence properties and convolutional neural networks	3
Priority-Elastic net for binary disease outcome prediction based on multi-omics data	3
Electronic medical records imputation by temporal Generative Adversarial Network	3
Distinct network patterns emerge from Cartesian and XOR epistasis models: a comparative network science analysis	2
Quantum analysis of squiggle data	2
iSuc-ChiDT: a computational method for identifying succinylation sites using statistical difference table encoding and the chi-square decision table classifier	2
Comparison of cancer subtype identification methods combined with feature selection methods in omics data analysis	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
mSRFR: a machine learning model using microalgal signature features for ncRNA classification	2
Towards a potential pan-cancer prognostic signature for gene expression based on probesets and ensemble machine learning	2
Predicting molecular initiating events using chemical target annotations and gene expression	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
Automated quantitative trait locus analysis (AutoQTL)	2
Enhanced labor pain monitoring using machine learning and ECG waveform analysis for uterine contraction-induced pain	2
Influenza, dengue and common cold detection using LSTM with fully connected neural network and keywords selection	2
AI as an accelerator for defining new problems that transcends boundaries	2
Assessing the limitations of relief-based algorithms in detecting higher-order interactions	2
Learning the therapeutic targets of acute myeloid leukemia through multiscale human interactome network and community analysis	2