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	261
A review on deep learning approaches in healthcare systems: Taxonomies, challenges, and open issues	134
A hybrid sampling algorithm combining M-SMOTE and ENN based on Random forest for medical imbalanced data	125
Face mask detection using deep learning: An approach to reduce risk of Coronavirus spread	124
Chinese clinical named entity recognition with variant neural structures based on BERT methods	103
Social media based surveillance systems for healthcare using machine learning: A systematic review	100
Drug repurposing for COVID-19 via knowledge graph completion	97
Comparative study of machine learning methods for COVID-19 transmission forecasting	97
A practical perspective on the concordance index for the evaluation and selection of prognostic time-to-event models	96
Deep ensemble learning for Alzheimer's disease classification	94
Process mining for healthcare: Characteristics and challenges	91
Investigating voice as a biomarker: Deep phenotyping methods for early detection of Parkinson's disease	88
Deep representation learning of patient data from Electronic Health Records (EHR): A systematic review	86
Clinical concept extraction: A methodology review	83
AMMU: A survey of transformer-based biomedical pretrained language models	83
Comparing deep learning architectures for sentiment analysis on drug reviews	80
FAIR data sharing: The roles of common data elements and harmonization	63
Factors influencing mHealth adoption and its impact on mental well-being during COVID-19 pandemic: A SEM-ANN approach	62
An empirical characterization of fair machine learning for clinical risk prediction	62
Detection and classification of breast cancer using logistic regression feature selection and GMDH classifier	57
Deep learning with wearable based heart rate variability for prediction of mental and general health	55
Biomedical named entity recognition using BERT in the machine reading comprehension framework	54
Recent advances of HCI in decision-making tasks for optimized clinical workflows and precision medicine	54
Random forest swarm optimization-based for heart diseases diagnosis	53
Detection of calibration drift in clinical prediction models to inform model updating	52

Mapping the intellectual structure of research on surgery with mixed reality: Bibliometric network analysis (2000–2019)	51
Residual LSTM layered CNN for classification of gastrointestinal tract diseases	50
A tongue features fusion approach to predicting prediabetes and diabetes with machine learning	50
Development and validation of early warning score system: A systematic literature review	50
Deep phenotyping: Embracing complexity and temporality—Towards scalability, portability, and interoperability	50
Machine learning research towards combating COVID-19: Virus detection, spread prevention, and medical assistance	48
Application of AR and VR in hand rehabilitation: A systematic review	48
Incorporating multi-level CNN and attention mechanism for Chinese clinical named entity recognition	46
Language models are an effective representation learning technique for electronic health record data	45
Topological data analysis in biomedicine: A review	42
Explainable classifier for improving the accountability in decision-making for colorectal cancer diagnosis from histopathological images	42
Classifying social determinants of health from unstructured electronic health records using deep learning-based natural language processing	42
Deep learning for temporal data representation in electronic health records: A systematic review of challenges and methodologies	41
Implementation of stacking based ARIMA model for prediction of Covid-19 cases in India	37
Agents and robots for collaborating and supporting physicians in healthcare scenarios	37
Applications of artificial intelligence to aid early detection of dementia: A scoping review on current capabilities and future directions	36
Classification of breast cancer using microarray gene expression data: A survey	34
A framework for patient-centered telemedicine: Application and lessons learned from vulnerable populations	34
A random forest method with feature selection for developing medical prediction models with clustered and longitudinal data	34
GHS-NET a generic hybridized shallow neural network for multi-label biomedical text classification	33
PASCLex: A comprehensive post-acute sequelae of COVID-19 (PASC) symptom lexicon derived from electronic health record clinical notes	32
Annotating social determinants of health using active learning, and characterizing determinants using neural event extraction	32
Potential circRNA-disease association prediction using DeepWalk and network consistency projection	32
Weight optimized neural network for heart disease prediction using hybrid lion plus particle swarm algorithm	31
Dementia medical screening using mobile applications: A systematic review with a new mapping model	31
A survey on single and multi omics data mining methods in cancer data classification	31
Extracting drug-drug interactions from texts with BioBERT and multiple entity-aware attentions	31
CODER: Knowledge-infused cross-lingual medical term embedding for term normalization	31
Alzheimer’s Disease stage identification using deep learning models	31
An attention-based multi-task model for named entity recognition and intent analysis of Chinese online medical questions	30
Mind the clinical-analytic gap: Electronic health records and COVID-19 pandemic response	29
A content-based literature recommendation system for datasets to improve data reusability – A case study on Gene Expression Omnibus (GEO) datasets	29
Using the contextual language model BERT for multi-criteria classification of scientific articles	29
A novel fitness function in genetic programming for medical data classification	28
INSMA: An integrated system for multimodal data acquisition and analysis in the intensive care unit	28
KG-Predict: A knowledge graph computational framework for drug repurposing	28
Alzheimer’s disease diagnosis framework from incomplete multimodal data using convolutional neural networks	28
Extracting COVID-19 diagnoses and symptoms from clinical text: A new annotated corpus and neural event extraction framework	28
Medical idioms for clinical Bayesian network development	27
Explainable automated coding of clinical notes using hierarchical label-wise attention networks and label embedding initialisation	27
Defining facets of social distancing during the COVID-19 pandemic: Twitter analysis	26
Can technological advancements help to alleviate COVID-19 pandemic? a review	26
Multi-step ahead meningitis case forecasting based on decomposition and multi-objective optimization methods	26
Research on Chinese medical named entity recognition based on collaborative cooperation of multiple neural network models	26
REDCap on FHIR: Clinical Data Interoperability Services	25
Character level and word level embedding with bidirectional LSTM – Dynamic recurrent neural network for biomedical named entity recognition from literature	25
Evaluating pointwise reliability of machine learning prediction	25
Evaluating sentence representations for biomedical text: Methods and experimental results	24
Standardized electronic health record data modeling and persistence: A comparative review	24
Building machine learning models without sharing patient data: A simulation-based analysis of distributed learning by ensembling	24

Extraction of temporal relations from clinical free text: A systematic review of current approaches	24
Drug-drug interaction extraction via hybrid neural networks on biomedical literature	24
Harmonized representation learning on dynamic EHR graphs	23
Evaluating the alert appropriateness of clinical decision support systems in supporting clinical workflow	23
Towards Chinese clinical named entity recognition by dynamic embedding using domain-specific knowledge	23
Membership inference attacks against synthetic health data	23
IoT-based GPS assisted surveillance system with inter-WBAN geographic routing for pandemic situations	23
MedGCN: Medication recommendation and lab test imputation via graph convolutional networks	23
FeARH: Federated machine learning with anonymous random hybridization on electronic medical records	23
Interpretability of time-series deep learning models: A study in cardiovascular patients admitted to Intensive care unit	23
Causal relationship extraction from biomedical text using deep neural models: A comprehensive survey	22
Automated classification of cancer morphology from Italian pathology reports using Natural Language Processing techniques: A rule-based approach	22
Summarization of biomedical articles using domain-specific word embeddings and graph ranking	22
Interpreting a recurrent neural network’s predictions of ICU mortality risk	22
Chinese medical named entity recognition based on multi-granularity semantic dictionary and multimodal tree	22
Obtaining EHR-derived datasets for COVID-19 research within a short time: a flexible methodology based on Detailed Clinical Models	21
Learning Drug-Disease-Target Embedding (DDTE) from knowledge graphs to inform drug repurposing hypotheses	21
An hybrid ECG-based deep network for the early identification of high-risk to major cardiovascular events for hypertension patients	21
Medical speciality classification system based on binary particle swarms and ensemble of one vs. rest support vector machines	21
Laparoscopy with augmented reality adaptations	21
Class imbalance in out-of-distribution datasets: Improving the robustness of the TextCNN for the classification of rare cancer types	21
Data mining and machine learning in cancer survival research: An overview and future recommendations	21
Adverse drug reaction detection on social media with deep linguistic features	21
Process mining in healthcare – An updated perspective on the state of the art	21
Learning hidden patterns from patient multivariate time series data using convolutional neural networks: A case study of healthcare cost prediction	20
A compartment modeling approach to reconstruct and analyze gender and age-grouped CoViD-19 Italian data for decision-making strategies	20
Multi-view self-attention for interpretable drug–target interaction prediction	20
A deep attention model to forecast the Length Of Stay and the in-hospital mortality right on admission from ICD codes and demographic data	20
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	20
Using hidden Markov model to predict recurrence of breast cancer based on sequential patterns in gene expression profiles	19
Unsupervised multi-granular Chinese word segmentation and term discovery via graph partition	19
Matching patients to clinical trials using semantically enriched document representation	19
Drug-Drug interaction extraction using a position and similarity fusion-based attention mechanism	19
Technology acceptance and critical mass: Development of a consolidated model to explain the actual use of mobile health care communication tools	19
A virtual reality methodology for cardiopulmonary resuscitation training with and without a physical mannequin	19
A probabilistic model for co-occurrence analysis in bibliometrics	19
Maximizing the use of social and behavioural information from secondary care mental health electronic health records	18
Internet of Things in active cancer Treatment: A systematic review	18
Critical carE Database for Advanced Research (CEDAR): An automated method to support intensive care units with electronic health record data	18
Extracting clinical terms from radiology reports with deep learning	18
Longitudinal K-means approaches to clustering and analyzing EHR opioid use trajectories for clinical subtypes	18
Augmented reality in robotic assisted orthopaedic surgery: A pilot study	18
“Hey assistant, how can I become a donor?” The case of a conversational agent designed to engage people in blood donation	18
Exploring HCV genome to construct multi-epitope based subunit vaccine to battle HCV infection: Immunoinformatics based approach	18
A corpus-driven standardization framework for encoding clinical problems with HL7 FHIR	17
Predicting opioid overdose risk of patients with opioid prescriptions using electronic health records based on temporal deep learning	17
Smart conversational agents for the detection of neuropsychiatric disorders: A systematic review	17
A novel deep interval type-2 fuzzy LSTM (DIT2FLSTM) model applied to COVID-19 pandemic time-series prediction	17
Exploiting adversarial transfer learning for adverse drug reaction detection from texts	17
Dimensions of ecological validity for usability evaluations in clinical settings	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
Mining for equitable health: Assessing the impact of missing data in electronic health records	16
A study of entity-linking methods for normalizing Chinese diagnosis and procedure terms to ICD codes	16
Understanding spatial language in radiology: Representation framework, annotation, and spatial relation extraction from chest X-ray reports using deep learning	16
FilterK: A new outlier detection method for k-means clustering of physical activity	16
A fusion of data science and feed-forward neural network-based modelling of COVID-19 outbreak forecasting in IRAQ	16
Phenotype risk scores (PheRS) for pancreatic cancer using time-stamped electronic health record data: Discovery and validation in two large biobanks	16
ReHouSED: A novel measurement of Veteran housing stability using natural language processing	16
Cross domains adversarial learning for Chinese named entity recognition for online medical consultation	16
Endpoint prediction of heart failure using electronic health records	16
Dynamic deformable attention network (DDANet) for COVID-19 lesions semantic segmentation	16
Machine learning enabled identification of potential SARS-CoV-2 3CLpro inhibitors based on fixed molecular fingerprints and Graph-CNN neural representations	16
A contextual multi-task neural approach to medication and adverse events identification from clinical text	16
Adaptive feature squeeze network for nuclear cataract classification in AS-OCT image	16
Leveraging Multi-source knowledge for Chinese clinical named entity recognition via relational graph convolutional network	16
On the efficacy of behavior change techniques in mHealth for self-management of diabetes: A meta-analysis	16
Monitoring behavioral symptoms of dementia using activity trackers	15
Explainable decision support through the learning and visualization of preferences from a formal ontology of antibiotic treatments	15
Detection of emerging drugs involved in overdose via diachronic word embeddings of substances discussed on social media	15
Supporting topic modeling and trends analysis in biomedical literature	15
Dynamic assessment of the COVID-19 vaccine acceptance leveraging social media data	15
A knowledge base of clinical trial eligibility criteria	15
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	15
Converting clinical document architecture documents to the common data model for incorporating health information exchange data in observational health studies: CDA to CDM	15
Learning multimorbidity patterns from electronic health records using Non-negative Matrix Factorisation	15
Real-time data analysis in health monitoring systems: A comprehensive systematic literature review	15
Adaptation of an NLP system to a new healthcare environment to identify social determinants of health	15
A scalable approach for developing clinical risk prediction applications in different hospitals	15
KeMRE: Knowledge-enhanced medical relation extraction for Chinese medicine instructions	14
Adversarial active learning for the identification of medical concepts and annotation inconsistency	14

A visual framework to create photorealistic retinal vessels for diagnosis purposes	14
A prediction and interpretation framework of acute kidney injury in critical care	14
CASIDE: A data model for interoperable cancer survivorship information based on FHIR	14
Multi-modal interactive fusion method for detecting teenagers’ psychological stress	14
COVID-19 modelling by time-varying transmission rate associated with mobility trend of driving via Apple Maps	14
Multilayer dynamic ensemble model for intensive care unit mortality prediction of neonate patients	14
Early diagnosis of Parkinson's disease using Continuous Convolution Network: Handwriting recognition based on off-line hand drawing without template	14
Predicting neonatal respiratory distress syndrome and hypoglycaemia prior to discharge: Leveraging health administrative data and machine learning	14
A deep learning–based, unsupervised method to impute missing values in electronic health records for improved patient management	14
Fuzzy monitoring of in-bed postural changes for the prevention of pressure ulcers using inertial sensors attached to clothing	14
A knowledge graph embedding based approach to predict the adverse drug reactions using a deep neural network	14
Generative adversarial networks for biomedical time series forecasting and imputation	14
Pupillary light reflex as a diagnostic aid from computational viewpoint: A systematic literature review	13
An efficient model selection for linear discriminant function-based recursive feature elimination	13
Formative feedback generation in a VR-based dental surgical skill training simulator	13
Time-range based sequential mining for survival prediction in prostate cancer	13
Predictive modeling of bacterial infections and antibiotic therapy needs in critically ill adults	13
Deep learning on time series laboratory test results from electronic health records for early detection of pancreatic cancer	13
Long-term prediction for temporal propagation of seasonal influenza using Transformer-based model	13
Automatic detection of COVID-19 vaccine misinformation with graph link prediction	13
Accelerated training of bootstrap aggregation-based deep information extraction systems from cancer pathology reports	13
idse-HE: Hybrid embedding graph neural network for drug side effects prediction	13
Visual storytelling enhances knowledge dissemination in biomedical science	13
Domain specific word embeddings for natural language processing in radiology	13
They May Not Work! An evaluation of eleven sentiment analysis tools on seven social media datasets	13
Towards unstructured mortality prediction with free-text clinical notes	13
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	13
Digital Phenotyping of Mental Health using multimodal sensing of multiple situations of interest: A Systematic Literature Review	13
Multi-channel fusion LSTM for medical event prediction using EHRs	13
Predicting Alzheimer’s Disease from Spoken and Written Language Using Fusion-Based Stacked Generalization	13
Towards a goal-oriented methodology for clinical-guideline-based management recommendations for patients with multimorbidity: GoCom and its preliminary evaluation	13
Three-stage intelligent support of clinical decision making for higher trust, validity, and explainability	13
Automatic phenotyping of electronical health record: PheVis algorithm	13
A multi-task Gaussian process self-attention neural network for real-time prediction of the need for mechanical ventilators in COVID-19 patients	12
Multi-level semantic fusion network for Chinese medical named entity recognition	12
Diagnosis of COVID-19 via acoustic analysis and artificial intelligence by monitoring breath sounds on smartphones	12
Multi-task learning models for predicting active compounds	12
A systematic review of computational approaches to understand cancer biology for informed drug repurposing	12
Profile-based assessment of diseases affective factors using fuzzy association rule mining approach: A case study in heart diseases	12
Clinical notes: An untapped opportunity for improving risk prediction for hospitalization and emergency department visit during home health care	12
A hierarchical clustering and data fusion approach for disease subtype discovery	12
Development of a FHIR RDF data transformation and validation framework and its evaluation	12
A scalable random walk with restart on heterogeneous networks with Apache Spark for ranking disease-related genes through type-II fuzzy data fusion	12
PK-RNN-V E: A deep learning model approach to vancomycin therapeutic drug monitoring using electronic health record data	12
Predict or draw blood: An integrated method to reduce lab tests	12
Genomic considerations for FHIR®; eMERGE implementation lessons	11
A scheme for inferring viral-host associations based on codon usage patterns identifies the most affected signaling pathways during COVID-19	11
ConceptWAS: A high-throughput method for early identification of COVID-19 presenting symptoms and characteristics from clinical notes	11
Prediction of the use of mobile device interfaces in the progressive aging process with the model of Fitts’ law	11
How Can Interactive Process Discovery Address Data Quality Issues in Real Business Settings? Evidence from a Case Study in Healthcare	11
An interpretable machine learning approach to multimodal stress detection in a simulated office environment	11
Outcomes prediction in longitudinal data: Study designs evaluation, use case in ICU acquired sepsis	11
Adjusting for indirectly measured confounding using large-scale propensity score	11
Machine learning-based demand forecasting in cancer palliative care home hospitalization	11
Phenotyping coronavirus disease 2019 during a global health pandemic: Lessons learned from the characterization of an early cohort	11
Mental health ubiquitous monitoring supported by social situation awareness: A systematic review	11
Predicting physician burnout using clinical activity logs: Model performance and lessons learned	11
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	11
An attentive joint model with transformer-based weighted graph convolutional network for extracting adverse drug event relation	11
Medical concept normalization in French using multilingual terminologies and contextual embeddings	11
Supporting rural public health practice to address local-level social determinants of health across Northwest states: Development of an interactive visualization dashboard	11
Knowledge discovery from emergency ambulance dispatch during COVID-19: A case study of Nagoya City, Japan	11
Creating and implementing a COVID-19 recruitment Data Mart	11
Integrated network analysis of symptom clusters across disease conditions	11
GLA-Net: A global-local attention network for automatic cataract classification	11
Making science computable: Developing code systems for statistics, study design, and risk of bias	11
NLM-Gene, a richly annotated gold standard dataset for gene entities that addresses ambiguity and multi-species gene recognition	10
Deep learning for rare disease: A scoping review	10
“Note Bloat” impacts deep learning-based NLP models for clinical prediction tasks	10
SurvMaximin: Robust federated approach to transporting survival risk prediction models	10
Identification of pediatric respiratory diseases using a fine-grained diagnosis system	10
Comparison of segmentation-free and segmentation-dependent computer-aided diagnosis of breast masses on a public mammography dataset	10
Towards electronic health record-based medical knowledge graph construction, completion, and applications: A literature study	10
MRC4BioER: Joint extraction of biomedical entities and relations in the machine reading comprehension framework	10
Learning dynamic Bayesian networks from time-dependent and time-independent data: Unraveling disease progression in Amyotrophic Lateral Sclerosis	10
Insufficient sampling frequencies skew heart rate variability estimates: Implications for extracting heart rate metrics from neuroimaging and physiological data	10
A strategy for validation of variables derived from large-scale electronic health record data	10
Modified Needleman–Wunsch algorithm for clinical pathway clustering	10
Safety-driven design of machine learning for sepsis treatment	10
Explainable artificial intelligence in high-throughput drug repositioning for subgroup stratifications with interventionable potential	10
SPST-CNN: Spatial pyramid based searching and tagging of liver’s intraoperative live views via CNN for minimal invasive surgery	10
Distant supervision for medical concept normalization	10
Offline reinforcement learning for safer blood glucose control in people with type 1 diabetes	10
Enhancing narrative clinical guidance with computer-readable artifacts: Authoring FHIR implementation guides based on WHO recommendations	10
Searching for scientific evidence in a pandemic: An overview of TREC-COVID	10
Learning Bayesian networks from demographic and health survey data	10
COVIDSum: A linguistically enriched SciBERT-based summarization model for COVID-19 scientific papers	10
Bayesian tensor factorization-drive breast cancer subtyping by integrating multi-omics data	10
Analysis of security and privacy challenges for DNA-genomics applications and databases	10
Few-shot learning for medical text: A review of advances, trends, and opportunities	10
Improving broad-coverage medical entity linking with semantic type prediction and large-scale datasets	10
Targeted estimation of heterogeneous treatment effect in observational survival analysis	10
A Machine Learning method for relabeling arbitrary DICOM structure sets to TG-263 defined labels	10
Developing an ETL tool for converting the PCORnet CDM into the OMOP CDM to facilitate the COVID-19 data integration	10
Convolutional neural network in proteomics and metabolomics for determination of comorbidity between cancer and schizophrenia	10