Aquaporin expression in cryopreserved human sperm: exploring the capabilities of natural deep eutectic solvents (NADEs)

BACKGROUND

Aquaporins (AQPs) are essential proteins that facilitate the rapid movement of water and cryoprotective agents (CPAs) during the cryopreservation process, and ensure the cryo-tolerance of sperm cells.

OBJECTIVE

This study evaluated the preservation of aquaporin levels in human sperm after undergoing freezing using natural deep eutectic solvents (NADES) as CPAs for cryoprotection.

MATERIALS AND METHODS

From June 2021 to October 2022, 35 semen samples with normal sperm parameters were acquired from the Mehr Infertility Treatment Institute in Rasht, Iran. The samples were divided into several groups for analysis: control group (not frozen), group frozen with SpermFreeze Solution, and groups frozen with different NADESs, including ChS, ChX, ChU, ChG, GlyP, and EtP. After thawing, various aspects for each group were assessed, including the integrity and condensation of sperm chromatin, viability, motility, integrity of acrosome, and the expression of AQP1, AQP3, AQP7, AQP8, and AQP9 genes.

RESULTS

The analysis of gene expression revealed that freezing with ChS and GlyP preserved the expression of the AQP1 and AQP3 genes compared to the control group. Regarding AQP7 and AQP8, significant differences were not observed in expression levels between certain NADES groups (e.g., ChS, ChU, and GlyP) and the control group. Additionally, samples frozen with specific NADESs, such as ChS, ChG, EtP, and GlyP, exhibited preserved levels of AQP9 expression when compared to the control group.

CONCLUSION

These findings emphasize the importance of NADES in preserving the expression of aquaporins in cryopreserved human sperm and their important fertility parameters. Doi.org/10.54680/fr24310110512.

AFEX-Net: Adaptive feature extraction convolutional neural network for classifying computerized tomography images

Purpose

Deep convolutional neural networks are favored methods that are widely used in medical image processing due to their demonstrated performance in this area. Recently, the emergence of new lung diseases, such as COVID-19, and the possibility of early detection of their symptoms from chest computerized tomography images has attracted many researchers to classify diseases by training deep convolutional neural networks on lung computerized tomography images. The trained networks are expected to distinguish between different lung indications in various diseases, especially at the early stages. The purpose of this study is to introduce and assess an efficient deep convolutional neural network, called AFEX-Net, that can classify different lung diseases from chest computerized tomography images.

Methods

We designed a lightweight convolutional neural network called AFEX-Net with adaptive feature extraction layers, adaptive pooling layers, and adaptive activation functions. We trained and tested AFEX-Net on a dataset of more than 10,000 chest computerized tomography slices from different lung diseases (CC dataset), using an effective pre-processing method to remove bias. We also applied AFEX-Net to the public COVID-CTset dataset to assess its generalizability. The study was mainly conducted based on data collected over approximately six months during the pandemic outbreak in Afzalipour Hospital, Iran, which is the largest hospital in Southeast Iran.

Results

AFEX-Net achieved high accuracy and fast training on both datasets, outperforming several state-of-the-art convolutional neural networks. It has an accuracy of 99.7 % and 98.8 % on the CC and COVID-CTset datasets, respectively, with a learning speed that is 3 times faster compared to similar methods due to its lightweight structure. AFEX-Net was able to extract distinguishing features and classify chest computerized tomography images, especially at the early stages of lung diseases.

Conclusion

The AFEX-Net is a high-performing convolutional neural network for classifying lung diseases from chest CT images. It is efficient, adaptable, and compatible with input data, making it a reliable tool for early detection and diagnosis of lung diseases.

Prediction of mortality risk and duration of hospitalization of COVID-19 patients with chronic comorbidities based on machine learning algorithms

Background

The severity of coronavirus (COVID-19) in patients with chronic comorbidities is much higher than in other patients, which can lead to their death. Machine learning (ML) algorithms as a potential solution for rapid and early clinical evaluation of the severity of the disease can help in allocating and prioritizing resources to reduce mortality.

Objective

The objective of this study was to predict the mortality risk and length of stay (LoS) of patients with COVID-19 and history of chronic comorbidities using ML algorithms.

Methods

This retrospective study was conducted by reviewing the medical records of COVID-19 patients with a history of chronic comorbidities from March 2020 to January 2021 in Afzalipour Hospital in Kerman, Iran. The outcome of patients, hospitalization was recorded as discharge or death. The filtering technique used to score the features and well-known ML algorithms were applied to predict the risk of mortality and LoS of patients. Ensemble Learning methods is also used. To evaluate the performance of the models, different measures including F1, precision, recall, and accuracy were calculated. The TRIPOD guideline assessed transparent reporting.

Results

This study was performed on 1291 patients, including 900 alive and 391 dead patients. Shortness of breath (53.6%), fever (30.1%), and cough (25.3%) were the three most common symptoms in patients. Diabetes mellitus(DM) (31.3%), hypertension (HTN) (27.3%), and ischemic heart disease (IHD) (14.2%) were the three most common chronic comorbidities of patients. Twenty-six important factors were extracted from each patient's record. Gradient boosting model with 84.15% accuracy was the best model for predicting mortality risk and multilayer perceptron (MLP) with rectified linear unit function (MSE = 38.96) was the best model for predicting the LoS. The most common chronic comorbidities among these patients were DM (31.3%), HTN (27.3%), and IHD (14.2%). The most important factors in predicting the risk of mortality were hyperlipidemia, diabetes, asthma, and cancer, and in predicting LoS was shortness of breath.

Conclusion

The results of this study showed that the use of ML algorithms can be a good tool to predict the risk of mortality and LoS of patients with COVID-19 and chronic comorbidities based on physiological conditions, symptoms, and demographic information of patients. The Gradient boosting and MLP algorithms can quickly identify patients at risk of death or long-term hospitalization and notify physicians to do appropriate interventions.

Exploring Common Symptoms in Patients with Respiratory Allergies Using K-Means Algorithm in the North-East of Iran in 2012-2015

Background

As a common disease among people of almost any age, allergic rhinitis has many adverse effects such as lowering the quality of life and efficiency at work or school. Considering these conditions and the collection of large amounts of data, the present research was conducted on allergic rhinitis and asthma patients' data to extract the common symptoms of these diseases using cluster analysis and the k-means algorithm.

Materials and Methods

The present cross-sectional research was conducted in Mashhad city. The inclusion criteria were affliction with one or two respiratory allergy diseases diagnosed by an allergy specialist through clinical history taking and physical examination. A researcher-made checklist was used in the present study for data collection. Then, the K-means algorithm's cluster analysis model was conducted to extract clusters (WEKA software (3, 6, 9)).

Results

Overall, 1,231 patients met the inclusion criteria. The result of the Cluster analysis consisted of Cluster 1 in allergic rhinitis consisted of 702 patients, and cluster 2 consisted of 382 patients.46 asthma patients were assigned to cluster 1 and 23 to cluster 2.Also, 60 asthma and allergic rhinitis patients were assigned to cluster 1 and 19 to cluster 2. The most common symptoms in all patients were rhinorrhea, sneezing, nasal congestion, and itchy nose.

Conclusion

Overall, Salsola kali was the most common allergen in allergic rhinitis and asthma patients. Also, the most common symptoms in patients are rhinorrhea, sneezing, itchy nose, and nasal congestion. This study can help physicians diagnose allergic rhinitis and asthma in geographical areas with a high prevalence of Salsola kali.

Predicting and classifying hearing loss in sailors working on speed vessels using neural networks: a field study

 Noise-induced hearing loss (NIHL) is one of the main risk factors affecting people's health and wellbeing in the workplace. Analysing NIHL and consequently controlling the causing factors can significantly affect the improvement of working environments. Methods: One hundred and twelve male sailors participated in this study. They were classified into three groups depending on occupational noise exposure: (A) none, i.e., sound pressure level (SPL) lower than 70dBA, (B) exposed to SPL in the range of 70-85dBA, and (C) exposed to SPL exceeding 80dBA. In a first phase, hearing loss shaping risk factors were identified and analysed, including hearing loss in different frequencies, age, work experience, sound pressure level (SPL), marital status, and systolic and diastolic blood pressure. Then, neural networks were trained to predict the hearing loss changes of personnel and used to determine the weight of hearing loss factors. Finally, the accuracy of predicting models was calculated relying on Bayesian statistics. Results and conclusion: In the present study using neural networks, five models were developed. Their accuracy ranged from 92% to 100%. The frequencies of 4000Hz and 2000Hz showed the strongest association with the hearing loss of the sailors. Also, including systolic and diastolic blood pressure did not have any impact on predicted hearing loss, indicating that SPL was poorly correlated with extra-auditory effects.

Predicting Mortality of COVID-19 Patients based on Data Mining Techniques

If Coronavirus (COVID-19) is not predicted, managed, and controlled timely, the health systems of any country and their people will face serious problems. Predictive models can be helpful in health resource management and prevent outbreak and death caused by COVID-19. The present study aimed at predicting mortality in patients with COVID-19 based on data mining techniques. To do this study, the mortality factors of COVID-19 patients were first identified based on different studies. These factors were confirmed by specialist physicians. Based on the confirmed factors, the data of COVID-19 patients were extracted from 850 medical records. Decision tree (J48), MLP, KNN, random forest, and SVM data mining models were used for prediction. The models were evaluated based on accuracy, precision, specificity, sensitivity, and the ROC curve. According to the results, the most effective factor used to predict the death of COVID-19 patients was dyspnea. Based on ROC (1.000), accuracy (99.23%), precision (99.74%), sensitivity (98.25%) and specificity (99.84%), the random forest was the best model in predicting of mortality than other models. After the random forest, KNN5, MLP, and J48 models were ranked next, respectively. Data analysis of COVID-19 patients can be a suitable and practical tool for predicting the mortality of these patients. Given the sensitivity of medical science concerning maintaining human life and lack of specialized human resources in the health system, using the proposed models can increase the chances of successful treatment, prevent early death and reduce the costs associated with long treatments for patients, hospitals and the insurance industry.

Machine Learning Models for Image-Based Diagnosis and Prognosis of COVID-19: Systematic Review

BACKGROUND

Accurate and timely diagnosis and effective prognosis of the disease is important to provide the best possible care for patients with COVID-19 and reduce the burden on the health care system. Machine learning methods can play a vital role in the diagnosis of COVID-19 by processing chest x-ray images.

OBJECTIVE

The aim of this study is to summarize information on the use of intelligent models for the diagnosis and prognosis of COVID-19 to help with early and timely diagnosis, minimize prolonged diagnosis, and improve overall health care.

METHODS

A systematic search of databases, including PubMed, Web of Science, IEEE, ProQuest, Scopus, bioRxiv, and medRxiv, was performed for COVID-19-related studies published up to May 24, 2020. This study was performed in accordance with the PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-analyses) guidelines. All original research articles describing the application of image processing for the prediction and diagnosis of COVID-19 were considered in the analysis. Two reviewers independently assessed the published papers to determine eligibility for inclusion in the analysis. Risk of bias was evaluated using the Prediction Model Risk of Bias Assessment Tool.

RESULTS

Of the 629 articles retrieved, 44 articles were included. We identified 4 prognosis models for calculating prediction of disease severity and estimation of confinement time for individual patients, and 40 diagnostic models for detecting COVID-19 from normal or other pneumonias. Most included studies used deep learning methods based on convolutional neural networks, which have been widely used as a classification algorithm. The most frequently reported predictors of prognosis in patients with COVID-19 included age, computed tomography data, gender, comorbidities, symptoms, and laboratory findings. Deep convolutional neural networks obtained better results compared with non-neural network-based methods. Moreover, all of the models were found to be at high risk of bias due to the lack of information about the study population, intended groups, and inappropriate reporting.

CONCLUSIONS

Machine learning models used for the diagnosis and prognosis of COVID-19 showed excellent discriminative performance. However, these models were at high risk of bias, because of various reasons such as inadequate information about study participants, randomization process, and the lack of external validation, which may have resulted in the optimistic reporting of these models. Hence, our findings do not recommend any of the current models to be used in practice for the diagnosis and prognosis of COVID-19.

Natural Language Processing Systems for Diagnosing and Determining Level of Lung Cancer: A Systematic Review

Introduction: Lung cancer is the second most common cancer for men and women. Using natural language processing to automatically extract information from text, lead to decrease labor of manual extraction from large volume of text material and save time. The aim of this study is to systematically review of studies which reviewed NLP methods in diagnosing and staging lung cancer.Material and Methods:  PubMed, Scopus, Web of science, Embase was searched for English language articles that reported diagnosing and staging methods in lung cancer Using NLP until DEC 2019. Two reviewers independently assessed original papers to determine eligibility for inclusion in the review.Results: Of 119 studies, 7 studies were included. Three studies developed a NLP algorithm to scan radiology notes and determine the presence or absence of nodules to identify patients with incident lung nodules for treatment or follow-up. Two studies used NLP to transform the report text, including identification of UMLS terms and detection of negated findings to classifying reports, also one of them used an SVM-based text classification system for staging lung cancer patients. All studies reported various performance measures based on the difference between combination of methods. Most of studies have reported sensitivity and specificity of the NLP algorithm for identifying the presence of lung nodules.Conclusion: Evaluation of studies in diagnosing and staging methods in lung cancer using NLP shows there is a number of studies on diagnosing lung cancer but there are a few works on staging that. In some studies, combination of methods was considered and NLP isolated was not sufficient for capturing satisfying results. There are potentials to improve studies by adding other data sources, further refinement and subsequent validation.