Journal of Biomedical Informatics

Article	Citations
The role of explainability in creating trustworthy artificial intelligence for health care: A comprehensive survey of the terminology, design choices, and evaluation strategies	348
A review on deep learning approaches in healthcare systems: Taxonomies, challenges, and open issues	167
Face mask detection using deep learning: An approach to reduce risk of Coronavirus spread	136
Process mining for healthcare: Characteristics and challenges	133
AMMU: A survey of transformer-based biomedical pretrained language models	122
Comparative study of machine learning methods for COVID-19 transmission forecasting	117
Drug repurposing for COVID-19 via knowledge graph completion	114
Deep representation learning of patient data from Electronic Health Records (EHR): A systematic review	103
Factors influencing mHealth adoption and its impact on mental well-being during COVID-19 pandemic: A SEM-ANN approach	80
Application of AR and VR in hand rehabilitation: A systematic review	73
Detection and classification of breast cancer using logistic regression feature selection and GMDH classifier	71
An empirical characterization of fair machine learning for clinical risk prediction	70
Random forest swarm optimization-based for heart diseases diagnosis	70
Deep learning with wearable based heart rate variability for prediction of mental and general health	67
A tongue features fusion approach to predicting prediabetes and diabetes with machine learning	66
Biomedical named entity recognition using BERT in the machine reading comprehension framework	66
Detection of calibration drift in clinical prediction models to inform model updating	64
Residual LSTM layered CNN for classification of gastrointestinal tract diseases	60
Incorporating multi-level CNN and attention mechanism for Chinese clinical named entity recognition	56
Language models are an effective representation learning technique for electronic health record data	54
Classifying social determinants of health from unstructured electronic health records using deep learning-based natural language processing	54
Machine learning research towards combating COVID-19: Virus detection, spread prevention, and medical assistance	52
Deep learning for temporal data representation in electronic health records: A systematic review of challenges and methodologies	52
Applications of artificial intelligence to aid early detection of dementia: A scoping review on current capabilities and future directions	50
Topological data analysis in biomedicine: A review	48

A framework for patient-centered telemedicine: Application and lessons learned from vulnerable populations	46
Classification of breast cancer using microarray gene expression data: A survey	43
Implementation of stacking based ARIMA model for prediction of Covid-19 cases in India	43
Annotating social determinants of health using active learning, and characterizing determinants using neural event extraction	41
A random forest method with feature selection for developing medical prediction models with clustered and longitudinal data	41
Evaluating pointwise reliability of machine learning prediction	41
CODER: Knowledge-infused cross-lingual medical term embedding for term normalization	40
GHS-NET a generic hybridized shallow neural network for multi-label biomedical text classification	40
PASCLex: A comprehensive post-acute sequelae of COVID-19 (PASC) symptom lexicon derived from electronic health record clinical notes	37
Explainable automated coding of clinical notes using hierarchical label-wise attention networks and label embedding initialisation	36
KG-Predict: A knowledge graph computational framework for drug repurposing	35
Using the contextual language model BERT for multi-criteria classification of scientific articles	35
Potential circRNA-disease association prediction using DeepWalk and network consistency projection	35
REDCap on FHIR: Clinical Data Interoperability Services	35
Process mining in healthcare – An updated perspective on the state of the art	35
Standardized electronic health record data modeling and persistence: A comparative review	34
Character level and word level embedding with bidirectional LSTM – Dynamic recurrent neural network for biomedical named entity recognition from literature	33
Alzheimer’s disease diagnosis framework from incomplete multimodal data using convolutional neural networks	33
Dementia medical screening using mobile applications: A systematic review with a new mapping model	32
A novel fitness function in genetic programming for medical data classification	32
Extracting COVID-19 diagnoses and symptoms from clinical text: A new annotated corpus and neural event extraction framework	31
Mind the clinical-analytic gap: Electronic health records and COVID-19 pandemic response	31
Data mining and machine learning in cancer survival research: An overview and future recommendations	31
Mining for equitable health: Assessing the impact of missing data in electronic health records	30
Can technological advancements help to alleviate COVID-19 pandemic? a review	29
Multi-step ahead meningitis case forecasting based on decomposition and multi-objective optimization methods	28
Membership inference attacks against synthetic health data	28
MedGCN: Medication recommendation and lab test imputation via graph convolutional networks	28
Interpretability of time-series deep learning models: A study in cardiovascular patients admitted to Intensive care unit	27
Causal relationship extraction from biomedical text using deep neural models: A comprehensive survey	27
Data protection-compliant broad consent for secondary use of health care data and human biosamples for (bio)medical research: Towards a new German national standard	26
A probabilistic model for co-occurrence analysis in bibliometrics	26
A virtual reality methodology for cardiopulmonary resuscitation training with and without a physical mannequin	26
Automated classification of cancer morphology from Italian pathology reports using Natural Language Processing techniques: A rule-based approach	26
Chinese medical named entity recognition based on multi-granularity semantic dictionary and multimodal tree	26
Class imbalance in out-of-distribution datasets: Improving the robustness of the TextCNN for the classification of rare cancer types	26
Defining facets of social distancing during the COVID-19 pandemic: Twitter analysis	26
Predicting opioid overdose risk of patients with opioid prescriptions using electronic health records based on temporal deep learning	25
Learning hidden patterns from patient multivariate time series data using convolutional neural networks: A case study of healthcare cost prediction	25
A systematic review of computational approaches to understand cancer biology for informed drug repurposing	24
IoT-based GPS assisted surveillance system with inter-WBAN geographic routing for pandemic situations	24
A compartment modeling approach to reconstruct and analyze gender and age-grouped CoViD-19 Italian data for decision-making strategies	24
Using hidden Markov model to predict recurrence of breast cancer based on sequential patterns in gene expression profiles	24
Obtaining EHR-derived datasets for COVID-19 research within a short time: a flexible methodology based on Detailed Clinical Models	24
Interpreting a recurrent neural network’s predictions of ICU mortality risk	24
Technology acceptance and critical mass: Development of a consolidated model to explain the actual use of mobile health care communication tools	24
FeARH: Federated machine learning with anonymous random hybridization on electronic medical records	24
Long-term prediction for temporal propagation of seasonal influenza using Transformer-based model	24
A deep attention model to forecast the Length Of Stay and the in-hospital mortality right on admission from ICD codes and demographic data	23
Extracting clinical terms from radiology reports with deep learning	23

Evaluating and mitigating bias in machine learning models for cardiovascular disease prediction	23
Longitudinal K-means approaches to clustering and analyzing EHR opioid use trajectories for clinical subtypes	23
Real-time data analysis in health monitoring systems: A comprehensive systematic literature review	23
Machine learning based on eye-tracking data to identify Autism Spectrum Disorder: A systematic review and meta-analysis	23
An hybrid ECG-based deep network for the early identification of high-risk to major cardiovascular events for hypertension patients	23
Drug-Drug interaction extraction using a position and similarity fusion-based attention mechanism	22
Learning Drug-Disease-Target Embedding (DDTE) from knowledge graphs to inform drug repurposing hypotheses	22
Few-shot learning for medical text: A review of advances, trends, and opportunities	22
A knowledge graph embedding based approach to predict the adverse drug reactions using a deep neural network	22
Critical carE Database for Advanced Research (CEDAR): An automated method to support intensive care units with electronic health record data	22
On the efficacy of behavior change techniques in mHealth for self-management of diabetes: A meta-analysis	21
Augmented reality in robotic assisted orthopaedic surgery: A pilot study	21
Multilayer dynamic ensemble model for intensive care unit mortality prediction of neonate patients	21
Adaptation of an NLP system to a new healthcare environment to identify social determinants of health	21
Towards electronic health record-based medical knowledge graph construction, completion, and applications: A literature study	21
Pupillary light reflex as a diagnostic aid from computational viewpoint: A systematic literature review	21
Phenotype risk scores (PheRS) for pancreatic cancer using time-stamped electronic health record data: Discovery and validation in two large biobanks	20
Smart conversational agents for the detection of neuropsychiatric disorders: A systematic review	20
Internet of Things in active cancer Treatment: A systematic review	20
Multi-channel fusion LSTM for medical event prediction using EHRs	19
Sentiment analysis of clinical narratives: A scoping review	19
A deep learning–based, unsupervised method to impute missing values in electronic health records for improved patient management	19
Adaptive feature squeeze network for nuclear cataract classification in AS-OCT image	19
A knowledge base of clinical trial eligibility criteria	19
Generative adversarial networks for biomedical time series forecasting and imputation	19
Leveraging Multi-source knowledge for Chinese clinical named entity recognition via relational graph convolutional network	19
GLA-Net: A global-local attention network for automatic cataract classification	19
Clinical notes: An untapped opportunity for improving risk prediction for hospitalization and emergency department visit during home health care	19
Dynamic deformable attention network (DDANet) for COVID-19 lesions semantic segmentation	19
Digital Phenotyping of Mental Health using multimodal sensing of multiple situations of interest: A Systematic Literature Review	19
Reducing waiting time for remote patients in telemedicine with considering treated patients in emergency department based on body sensors technologies and hybrid computational algorithms: Toward scala	18
Learning Bayesian networks from demographic and health survey data	18
Automatic detection of COVID-19 vaccine misinformation with graph link prediction	18
A fusion of data science and feed-forward neural network-based modelling of COVID-19 outbreak forecasting in IRAQ	18
Machine learning enabled identification of potential SARS-CoV-2 3CLpro inhibitors based on fixed molecular fingerprints and Graph-CNN neural representations	18
Multi-level semantic fusion network for Chinese medical named entity recognition	18
A prediction and interpretation framework of acute kidney injury in critical care	18
CASIDE: A data model for interoperable cancer survivorship information based on FHIR	18
An interpretable machine learning approach to multimodal stress detection in a simulated office environment	18
Deep learning for rare disease: A scoping review	18
Detection of emerging drugs involved in overdose via diachronic word embeddings of substances discussed on social media	18
A novel deep interval type-2 fuzzy LSTM (DIT2FLSTM) model applied to COVID-19 pandemic time-series prediction	18
Causal knowledge graph construction and evaluation for clinical decision support of diabetic nephropathy	17
A retrospective approach to evaluating potential adverse outcomes associated with delay of procedures for cardiovascular and cancer-related diagnoses in the context of COVID-19	17
A contextual multi-task neural approach to medication and adverse events identification from clinical text	17
Learning multimorbidity patterns from electronic health records using Non-negative Matrix Factorisation	17
COVIDSum: A linguistically enriched SciBERT-based summarization model for COVID-19 scientific papers	17
idse-HE: Hybrid embedding graph neural network for drug side effects prediction	17
COVID-19 modelling by time-varying transmission rate associated with mobility trend of driving via Apple Maps	17
Searching for scientific evidence in a pandemic: An overview of TREC-COVID	17
Machine learning-based demand forecasting in cancer palliative care home hospitalization	17
ReHouSED: A novel measurement of Veteran housing stability using natural language processing	17
Predicting physician burnout using clinical activity logs: Model performance and lessons learned	17
Cross domains adversarial learning for Chinese named entity recognition for online medical consultation	16
A scalable approach for developing clinical risk prediction applications in different hospitals	16
KeMRE: Knowledge-enhanced medical relation extraction for Chinese medicine instructions	16
An efficient model selection for linear discriminant function-based recursive feature elimination	16
Dynamic assessment of the COVID-19 vaccine acceptance leveraging social media data	16
Three-stage intelligent support of clinical decision making for higher trust, validity, and explainability	16
Early diagnosis of Parkinson's disease using Continuous Convolution Network: Handwriting recognition based on off-line hand drawing without template	16
Development of a generalizable natural language processing pipeline to extract physician-reported pain from clinical reports: Generated using publicly-available datasets and tested on institutional cl	16
An overview of biomedical entity linking throughout the years	16
They May Not Work! An evaluation of eleven sentiment analysis tools on seven social media datasets	16
Supporting rural public health practice to address local-level social determinants of health across Northwest states: Development of an interactive visualization dashboard	16
Graph-based abstractive biomedical text summarization	16
Development of a FHIR RDF data transformation and validation framework and its evaluation	15
Offline reinforcement learning for safer blood glucose control in people with type 1 diabetes	15
Medical concept normalization in French using multilingual terminologies and contextual embeddings	15
“Note Bloat” impacts deep learning-based NLP models for clinical prediction tasks	15
Predicting Alzheimer’s Disease from Spoken and Written Language Using Fusion-Based Stacked Generalization	15
Deep learning prediction models based on EHR trajectories: A systematic review	15
Domain specific word embeddings for natural language processing in radiology	15
Enhancing narrative clinical guidance with computer-readable artifacts: Authoring FHIR implementation guides based on WHO recommendations	15
Automatic phenotyping of electronical health record: PheVis algorithm	15
Predicting neonatal respiratory distress syndrome and hypoglycaemia prior to discharge: Leveraging health administrative data and machine learning	15
MixEHR-Guided: A guided multi-modal topic modeling approach for large-scale automatic phenotyping using the electronic health record	15
Towards a goal-oriented methodology for clinical-guideline-based management recommendations for patients with multimorbidity: GoCom and its preliminary evaluation	15
An attentive joint model with transformer-based weighted graph convolutional network for extracting adverse drug event relation	15
Textual emotion detection in health: Advances and applications	15
Diagnosis of COVID-19 via acoustic analysis and artificial intelligence by monitoring breath sounds on smartphones	15

Simulation-derived best practices for clustering clinical data	15
Representation of evidence-based clinical practice guideline recommendations on FHIR	14
Profile-based assessment of diseases affective factors using fuzzy association rule mining approach: A case study in heart diseases	14
Toward assessing clinical trial publications for reporting transparency	14
Insufficient sampling frequencies skew heart rate variability estimates: Implications for extracting heart rate metrics from neuroimaging and physiological data	14
Propagation source identification of infectious diseases with graph convolutional networks	14
Deep learning on time series laboratory test results from electronic health records for early detection of pancreatic cancer	14
Identification of pediatric respiratory diseases using a fine-grained diagnosis system	14
How Can Interactive Process Discovery Address Data Quality Issues in Real Business Settings? Evidence from a Case Study in Healthcare	14
Formative feedback generation in a VR-based dental surgical skill training simulator	14
Visualising and quantifying relevant parkinsonian gait patterns using 3D convolutional network	14
Convolutional neural network in proteomics and metabolomics for determination of comorbidity between cancer and schizophrenia	14
NLM-Gene, a richly annotated gold standard dataset for gene entities that addresses ambiguity and multi-species gene recognition	14
Hierarchical label-wise attention transformer model for explainable ICD coding	14
A hierarchical clustering and data fusion approach for disease subtype discovery	14
Question-aware transformer models for consumer health question summarization	14
A multi-task Gaussian process self-attention neural network for real-time prediction of the need for mechanical ventilators in COVID-19 patients	14
De-novo FAIRification via an Electronic Data Capture system by automated transformation of filled electronic Case Report Forms into machine-readable data	14
Making science computable: Developing code systems for statistics, study design, and risk of bias	14
Outcomes prediction in longitudinal data: Study designs evaluation, use case in ICU acquired sepsis	14
Adjusting for indirectly measured confounding using large-scale propensity score	14
Bayesian tensor factorization-drive breast cancer subtyping by integrating multi-omics data	14
Generating synthetic personal health data using conditional generative adversarial networks combining with differential privacy	13
PK-RNN-V E: A deep learning model approach to vancomycin therapeutic drug monitoring using electronic health record data	13
A simple neural vector space model for medical concept normalization using concept embeddings	13
A scalable random walk with restart on heterogeneous networks with Apache Spark for ranking disease-related genes through type-II fuzzy data fusion	13
Developing an ETL tool for converting the PCORnet CDM into the OMOP CDM to facilitate the COVID-19 data integration	13
Genomic considerations for FHIR®; eMERGE implementation lessons	13
Confederated learning in healthcare: Training machine learning models using disconnected data separated by individual, data type and identity for Large-Scale health system Intelligence	13
Integrating machine learning predictions for perioperative risk management: Towards an empirical design of a flexible-standardized risk assessment tool	13
The use of artificial intelligence for automating or semi-automating biomedical literature analyses: A scoping review	13
Concept placement using BERT trained by transforming and summarizing biomedical ontology structure	13
Non-negative matrix factorization temporal topic models and clinical text data identify COVID-19 pandemic effects on primary healthcare and community health in Toronto, Canada	13
Optimizing warfarin dosing using deep reinforcement learning	12
Synthesizing time-series wound prognosis factors from electronic medical records using generative adversarial networks	12
A statistical comparison between Matthews correlation coefficient (MCC), prevalence threshold, and Fowlkes–Mallows index	12
Fusion of sequential visits and medical ontology for mortality prediction	12
Developing a deep learning natural language processing algorithm for automated reporting of adverse drug reactions	12
Fully automated detection of formal thought disorder with Time-series Augmented Representations for Detection of Incoherent Speech (TARDIS)	12
Comparison of segmentation-free and segmentation-dependent computer-aided diagnosis of breast masses on a public mammography dataset	12
MultiGBS: A multi-layer graph approach to biomedical summarization	12
The need for multimodal health data modeling: A practical approach for a federated-learning healthcare platform	12
APLUS: A Python library for usefulness simulations of machine learning models in healthcare	12
Trends and opportunities in computable clinical phenotyping: A scoping review	12
A strategy for validation of variables derived from large-scale electronic health record data	12
Exploration of text matching methods in Chinese disease Q&A systems: A method using ensemble based on BERT and boosted tree models	12
Analysis of security and privacy challenges for DNA-genomics applications and databases	12
Explainable discovery of disease biomarkers: The case of ovarian cancer to illustrate the best practice in machine learning and Shapley analysis	12
Distributed Quasi-Poisson regression algorithm for modeling multi-site count outcomes in distributed data networks	12
Supporting capacity management decisions in healthcare using data-driven process simulation	12
FHIR-Ontop-OMOP: Building clinical knowledge graphs in FHIR RDF with the OMOP Common data Model	12
Multiview Incomplete Knowledge Graph Integration with application to cross-institutional EHR data harmonization	12
Discovering novel drug-supplement interactions using SuppKG generated from the biomedical literature	12
Natural language processing for clinical notes in dentistry: A systematic review	11
A scheme for inferring viral-host associations based on codon usage patterns identifies the most affected signaling pathways during COVID-19	11
Knowledge discovery from emergency ambulance dispatch during COVID-19: A case study of Nagoya City, Japan	11
Deep imputation of missing values in time series health data: A review with benchmarking	11
Creating and implementing a COVID-19 recruitment Data Mart	11
Learning dynamic Bayesian networks from time-dependent and time-independent data: Unraveling disease progression in Amyotrophic Lateral Sclerosis	11
Signal from the noise: A mixed graphical and quantitative process mining approach to evaluate care pathways applied to emergency stroke care	11
Annotated dataset creation through large language models for non-english medical NLP	11
Explainable artificial intelligence in high-throughput drug repositioning for subgroup stratifications with interventionable potential	11
Improving broad-coverage medical entity linking with semantic type prediction and large-scale datasets	11
A new feature selection method based on feature distinguishing ability and network influence	11
Emulate randomized clinical trials using heterogeneous treatment effect estimation for personalized treatments: Methodology review and benchmark	11
AD-BERT: Using pre-trained language model to predict the progression from mild cognitive impairment to Alzheimer's disease	11
KEBLM: Knowledge-Enhanced Biomedical Language Models	11
Phenotyping coronavirus disease 2019 during a global health pandemic: Lessons learned from the characterization of an early cohort	11
ConceptWAS: A high-throughput method for early identification of COVID-19 presenting symptoms and characteristics from clinical notes	11
SurvMaximin: Robust federated approach to transporting survival risk prediction models	11
Studying pediatric health outcomes with electronic health records using Bayesian clustering and trajectory analysis	11
MedKPL: A heterogeneous knowledge enhanced prompt learning framework for transferable diagnosis	11
iODA: An integrated tool for analysis of cancer pathway consistency from heterogeneous multi-omics data	11
Enhancing Biomedical Relation Extraction with Transformer Models using Shortest Dependency Path Features and Triplet Information	10
Identifying the oncogenic potential of gene fusions exploiting miRNAs	10
Multi-view prediction of Alzheimer’s disease progression with end-to-end integrated framework	10
Predictive analytics for step-up therapy: Supervised or semi-supervised learning?	10
A weakly supervised model for the automated detection of adverse events using clinical notes	10
Fine-tuning BERT for automatic ADME semantic labeling in FDA drug labeling to enhance product-specific guidance assessment	10
MTDCNet: A 3D multi-threading dilated convolutional network for brain tumor automatic segmentation	10
Q-CHAT-NAO: A robotic approach to autism screening in toddlers	10
A Bi-level representation learning model for medical visual question answering	10
Evaluation of ChatGPT-generated medical responses: A systematic review and meta-analysis	10
Infrastructure platform for privacy-preserving distributed machine learning development of computer-assisted theragnostics in cancer	10
A novel hierarchical machine learning model for hospital-acquired venous thromboembolism risk assessment among multiple-departments	10
Personalized insulin dose manipulation attack and its detection using interval-based temporal patterns and machine learning algorithms	10
AutoScore-Imbalance: An interpretable machine learning tool for development of clinical scores with rare events data	10
MRC4BioER: Joint extraction of biomedical entities and relations in the machine reading comprehension framework	10
Automatic full conversion of clinical terms into SNOMED CT concepts	10
COnVIDa: COVID-19 multidisciplinary data collection and dashboard	10
Modified Needleman–Wunsch algorithm for clinical pathway clustering	10
AutoScore-Survival: Developing interpretable machine learning-based time-to-event scores with right-censored survival data	10
Process data analytics for hospital case-mix planning	10
Supporting SNOMED CT postcoordination with knowledge graph embeddings	10
Safety-driven design of machine learning for sepsis treatment	10