Amin Naemi

Dr. Amin Naemi


Research Focus & Metrics

Academic Career Length

8Years (2019-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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2 November 2021 in BMJ Open
Verified
Journal Article
Open access
PDF file
ANAmin Naemi
Amin Naemi
TSThomas Schmidt
Thomas Schmidt
Marjan MansourvarMarjan Mansourvar
Marjan Mansourvar
MNMohammad Naghavi-Behzad
Mohammad Naghavi-Behzad
AEAli Ebrahimi
Ali Ebrahimi
UWUffe Kock Wiil
Uffe Kock Wiil
Objectives This systematic review aimed to assess the performance and clinical feasibility of machine learning (ML) algorithms in prediction of in-hospital mortality for medical patients using vital signs at emergency departments (EDs). Design A systematic review was performed. Setting The databases including Medline (PubMed), Scopus and Embase (Ovid) were searched between 2010 and 2021, to extract published articles in English, describing ML-based models utilising vital sign variables to predict in-hospital mortality for patients admitted at EDs. Critical appraisal and data extraction for systematic reviews of prediction modelling studies checklist was used for study planning and data extraction. The risk of bias for included papers was assessed using the prediction risk of bias assessment tool. Participants Admitted patients to the ED. Main outcome measure In-hospital mortality. Results Fifteen articles were included in the final review. We found that eight models including logistic regression, decision tree, K-nearest neighbours, support vector machine, gradient boosting, random forest, artificial neural networks and deep neural networks have been applied in this domain. Most studies failed to report essential main analysis steps such as data preprocessing and handling missing values. Fourteen included studies had a high risk of bias in the statistical analysis part, which could lead to poor performance in practice. Although the main aim of all studies was developing a predictive model for mortality, nine articles did not provide a time horizon for the prediction. Conclusion This review provided an updated overview of the state-of-the-art and revealed research gaps; based on these, we provide eight recommendations for future studies to make the use of ML more feasible in practice. By following these recommendations, we expect to see more robust ML models applied in the future to help clinicians identify patient deterioration earlier.

30 October 2021 in BMC Medical Informatics and Decision Making
Verified
Journal Article
Open access
PDF file
ANAmin Naemi
Amin Naemi
TSThomas Schmidt
Thomas Schmidt
MMMarjan Mansourvar
Marjan Mansourvar
AEAli Ebrahimi
Ali Ebrahimi
UWUffe Kock Wiil
Uffe Kock Wiil
Background: Prediction of length of stay (LOS) at admission time can provide physicians and nurses insight into the illness severity of patients and aid them in avoiding adverse events and clinical deterioration. It also assists hospitals with more effectively managing their resources and manpower.Methods: In this field of research, there are some important challenges, such as missing values and LOS data skewness. Moreover, various studies use a binary classification which puts a wide range of patients with different conditions into one category. To address these shortcomings, first multivariate imputation techniques are applied to fill incomplete records, then two proper resampling techniques, namely Borderline-SMOTE and SMOGN, are applied to address data skewness in the classification and regression domains, respectively. Finally, machine learning (ML) techniques including neural networks, extreme gradient boosting, random forest, support vector machine, and decision tree are implemented for both approaches to predict LOS of patients admitted to the Emergency Department of Odense University Hospital between June 2018 and April 2019. The ML models are developed based on data obtained from patients at admission time, including pulse rate, arterial blood oxygen saturation, respiratory rate, systolic blood pressure, triage category, arrival ICD-10 codes, age, and gender.Results: The performance of predictive models before and after addressing missing values and data skewness is evaluated using four evaluation metrics namely receiver operating characteristic, area under the curve (AUC), R-squared score (R2), and normalized root mean square error (NRMSE). Results show that the performance of predictive models is improved on average by 15.75% for AUC, 32.19% for R2score, and 11.32% for NRMSE after addressing the mentioned challenges. Moreover, our results indicate that there is a relationship between the missing values rate, data skewness, and illness severity of patients, so it is clinically essential to take incomplete records of patients into account and apply proper solutions for interpolation of missing values.Conclusion: We propose a new method comprised of three stages: missing values imputation, data skewness handling, and building predictive models based on classification and regression approaches. Our results indicated that addressing these challenges in a proper way enhanced the performance of models significantly, which led to a more valid prediction of LOS.

8 November 2021 in IEEE Access
Verified
Journal Article
Open access
AEAli Ebrahimi
Ali Ebrahimi
UWUffe Kock Wiil
Uffe Kock Wiil
TSThomas Schmidt
Thomas Schmidt
ANAmin Naemi
Amin Naemi
ANAnette Sogaard Nielsen
Anette Sogaard Nielsen
MMMarjan Mansourvar
Marjan Mansourvar
The number of deaths caused by alcohol-related diseases may be reduced by predicting alcohol use disorder (AUD). Many researchers have worked on AUD prediction using machine learning (ML) techniques. However, to the best of our knowledge, there is a lack of a comprehensive systematic literature review (SLR) that summarizes the existing studies on AUD prediction using ML in the last ten years. To address this knowledge gap, this article provides an SLR of academic articles on AUD prediction using ML techniques dated from January 2010 to July 2021. This SLR highlights technical decision analysis related to five aspects: data collection site, characteristics, and type of dataset; data sampling and data pre-processing techniques; feature types and feature engineering techniques; and characteristics of ML techniques and evaluation metrics. Six bibliographic databases were searched, and the identified studies were rigorously reviewed based on the above five aspects. In the selected studies, public datasets were not used very often for AUD prediction. Given that, the current paper identified two different types of data collection sites for review. Imbalanced class distribution in datasets was the primary focus of the pre-processing and sampling steps. Various features, including demographics, family history, drinking behaviour, and electronic health records, were introduced as the more widely used AUD prediction features. The filter, wrapper, and embedded methods were identified as the primary feature selection methods. Support vector machine was the most widely employed algorithm for predicting AUD; however, the lack of deep neural network techniques is evident in this field. Moreover, considering gender disparities, early detection of AUD, and identifying trajectories towards AUD are suggested for future work. For the purpose of evaluating the performance of the prediction approaches, most studies considered the overall accuracy and the area under the receiver operating characteristic curve. Nevertheless, external validation was not performed in any of the selected studies. This paper also discusses challenges and open issues of AUD prediction for future research. This SLR represents a valuable resource for scholars investigating the prediction of AUD.

23 November 2022 in BMC Medical Informatics and Decision Making
Verified
Journal Article
Open access
PDF file
AEAli Ebrahimi
Ali Ebrahimi
UWUffe Kock Wiil
Uffe Kock Wiil
ANAmin Naemi
Amin Naemi
MMMarjan Mansourvar
Marjan Mansourvar
KAKjeld Andersen
Kjeld Andersen
ANAnette Søgaard Nielsen
Anette Søgaard Nielsen
Background: High dimensionality in electronic health records (EHR) causes a significant computational problem for any systematic search for predictive, diagnostic, or prognostic patterns. Feature selection (FS) methods have been indicated to be effective in feature reduction as well as in identifying risk factors related to prediction of clinical disorders. This paper examines the prediction of patients with alcohol use disorder (AUD) using machine learning (ML) and attempts to identify risk factors related to the diagnosis of AUD. Methods: A FS framework consisting of two operational levels, base selectors and ensemble selectors. The first level consists of five FS methods: three filter methods, one wrapper method, and one embedded method. Base selector outputs are aggregated to develop four ensemble FS methods. The outputs of FS method were then fed into three ML algorithms: support vector machine (SVM), K-nearest neighbor (KNN), and random forest (RF) to compare and identify the best feature subset for the prediction of AUD from EHRs. Results: In terms of feature reduction, the embedded FS method could significantly reduce the number of features from 361 to 131. In terms of classification performance, RF based on 272 features selected by our proposed ensemble method (Union FS) with the highest accuracy in predicting patients with AUD, 96%, outperformed all other models in terms of AUROC, AUPRC, Precision, Recall, and F1-Score. Considering the limitations of embedded and wrapper methods, the best overall performance was achieved by our proposed Union Filter FS, which reduced the number of features to 223 and improved Precision, Recall, and F1-Score in RF from 0.77, 0.65, and 0.71 to 0.87, 0.81, and 0.84, respectively. Our findings indicate that, besides gender, age, and length of stay at the hospital, diagnosis related to digestive organs, bones, muscles and connective tissue, and the nervous systems are important clinical factors related to the prediction of patients with AUD. Conclusion: Our proposed FS method could improve the classification performance significantly. It could identify clinical factors related to prediction of AUD from EHRs, thereby effectively helping clinical staff to identify and treat AUD patients and improving medical knowledge of the AUD condition. Moreover, the diversity of features among female and male patients as well as gender disparity were investigated using FS methods and ML techniques.

3 August 2025 in Bioengineering
Verified
Journal Article
Open access
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MAMohammad Mahdi Aghabeigi Alooghareh
Mohammad Mahdi Aghabeigi Alooghareh
MSMohammad Mohsen Sheikhey
Mohammad Mohsen Sheikhey
ASAli Sahafi
Ali Sahafi
HPHabibollah(Habib) Pirnejad
Habibollah(Habib) Pirnejad
ANAmin Naemi
Amin Naemi
The retina offers a unique window into both ocular and systemic health, motivating the development of AI-based tools for disease screening and risk assessment. In this study, we present a comprehensive evaluation of six state-of-the-art deep neural networks, including convolutional neural networks and vision transformer architectures, on the Brazilian Multilabel Ophthalmological Dataset (BRSET), comprising 16,266 fundus images annotated for multiple clinical and demographic labels. We explored seven classification tasks: Diabetes, Diabetic Retinopathy (2-class), Diabetic Retinopathy (3-class), Hypertension, Hypertensive Retinopathy, Drusen, and Sex classification. Models were evaluated using precision, recall, F1-score, accuracy, and AUC. Among all models, the Swin-L generally delivered the best performance across scenarios for Diabetes (AUC = 0.88, weighted F1-score = 0.86), Diabetic Retinopathy (2-class) (AUC = 0.98, weighted F1-score = 0.95), Diabetic Retinopathy (3-class) (macro AUC = 0.98, weighted F1-score = 0.95), Hypertension (AUC = 0.85, weighted F1-score = 0.79), Hypertensive Retinopathy (AUC = 0.81, weighted F1-score = 0.97), Drusen detection (AUC = 0.93, weighted F1-score = 0.90), and Sex classification (AUC = 0.87, weighted F1-score = 0.80). These results reflect excellent to outstanding diagnostic performance. We also employed gradient-based saliency maps to enhance explainability and visualize decision-relevant retinal features. Our findings underscore the potential of deep learning, particularly vision transformer models, to deliver accurate, interpretable, and clinically meaningful screening tools for retinal and systemic disease detection.

5 November 2025 in Journal of Healthcare Informatics Research
Verified
Journal Article
Open access
PDF file
ANAmin Naemi
Amin Naemi
ASAli Sahafi
Ali Sahafi
Large Language Models (LLMs) are increasingly applied in healthcare and are expected to play an active role in clinical practice. However, their effectiveness for clinical note summarization remains underexplored, and systematic comparisons across different models are lacking. This study addresses this gap by benchmarking 16 generative LLMs from major providers, including OpenAI (GPT), DeepSeek, Meta (LLaMA), Google (Gemma), Mistral (Mixtral), and Alibaba (Qwen), using the MIMIC-IV-Note. Both extractive and abstractive summarization approaches were implemented and evaluated with multiple lexical and semantic metrics, including ROUGE, BLEU, METEOR, COMET, and BERTScore. In addition, processing time, cost, and deployment feasibility were assessed to provide a practical perspective for clinical adoption. The results show that Gemma-3-27B achieved the strongest overall performance in extractive summarization. For abstractive summarization, DeepSeek-R1-70B, Qwen-3-32B, and GPT-4o emerged as leading models. Their relative strengths varied depending on whether lexical overlap, semantic adequacy, or fluency was prioritized. Importantly, larger parameter sizes did not always translate into better outcomes, as smaller models such as LLaMa-3-8B and Gemma-2-9B often produced competitive results with faster runtimes and lower computational costs. This study highlights the trade-offs between performance, efficiency, and deployment context that offers practical insights into model selection for clinical note summarization and informing future integration of LLMs into healthcare workflows.