Objective To review and appraise the validity and usefulness of published and preprint reports of prediction models for diagnosing coronavirus disease 2019 (covid-19) in patients with suspected infection, for prognosis of patients with covid-19, and for detecting people in the general population at increased risk of covid-19 infection or being admitted to hospital with the disease. Design Living systematic review and critical appraisal by the COVID-PRECISE (Precise Risk Estimation to optimise covid-19 Care for Infected or Suspected patients in diverse sEttings) group. Data sources PubMed and Embase through Ovid, up to 1 July 2020, supplemented with arXiv, medRxiv, and bioRxiv up to 5 May 2020. Study selection Studies that developed or validated a multivariable covid-19 related prediction model. Data extraction At least two authors independently extracted data using the CHARMS (critical appraisal and data extraction for systematic reviews of prediction modelling studies) checklist; risk of bias was assessed using PROBAST (prediction model risk of bias assessment tool). Results 37 421 titles were screened, and 169 studies describing 232 prediction models were included. The review identified seven models for identifying people at risk in the general population; 118 diagnostic models for detecting covid-19 (75 were based on medical imaging, 10 to diagnose disease severity); and 107 prognostic models for predicting mortality risk, progression to severe disease, intensive care unit admission, ventilation, intubation, or length of hospital stay. The most frequent types of predictors included in the covid-19 prediction models are vital signs, age, comorbidities, and image features. Flu-like symptoms are frequently predictive in diagnostic models, while sex, C reactive protein, and lymphocyte counts are frequent prognostic factors. Reported C index estimates from the strongest form of validation available per model ranged from 0.71 to 0.99 in prediction models for the general population, from 0.65 to more than 0.99 in diagnostic models, and from 0.54 to 0.99 in prognostic models. All models were rated at high or unclear risk of bias, mostly because of non-representative selection of control patients, exclusion of patients who had not experienced the event of interest by the end of the study, high risk of model overfitting, and unclear reporting. Many models did not include a description of the target population (n=27, 12%) or care setting (n=75, 32%), and only 11 (5%) were externally validated by a calibration plot. The Jehi diagnostic model and the 4C mortality score were identified as promising models. Conclusion Prediction models for covid-19 are quickly entering the academic literature to support medical decision making at a time when they are urgently needed. This review indicates that almost all pubished prediction models are poorly reported, and at high risk of bias such that their reported predictive performance is probably optimistic. However, we have identified two (one diagnostic and one prognostic) promising models that should soon be validated in multiple cohorts, preferably through collaborative efforts and data sharing to also allow an investigation of the stability and heterogeneity in their performance across populations and settings. Details on all reviewed models are publicly available at https://www.covprecise.org/. Methodological guidance as provided in this paper should be followed because unreliable predictions could cause more harm than benefit in guiding clinical decisions. Finally, prediction model authors should adhere to the TRIPOD (transparent reporting of a multivariable prediction model for individual prognosis or diagnosis) reporting guideline. Systematic review registration Protocol https://osf.io/ehc47/, registration https://osf.io/wy245. Readers’ note This article is a living systematic review that will be updated to reflect emerging evidence. Updates may occur for up to two years from the date of original publication. This version is update 3 of the original article published on 7 April 2020 (BMJ 2020;369:m1328). Previous updates can be found as data supplements (https://www.bmj.com/content/369/bmj.m1328/related#datasupp). When citing this paper please consider adding the update number and date of access for clarity.

https://www.bmj.com/content/bmj/369/bmj.m1328.full.pdf

Prediction models for diagnosis and prognosis of covid-19: systematic review and critical appraisal

Big Data technologies: A survey

Nowadays, deep learning is a current and a stimulating field of machine learning. Deep learning is the most effective, supervised, time and cost efficient machine learning approach. Deep learning is not a restricted learning approach, but it abides various procedures and topographies which can be applied to an immense speculum of complicated problems. The technique learns the illustrative and differential features in a very stratified way. Deep learning methods have made a significant breakthrough with appreciable performance in a wide variety of applications with useful security tools. It is considered to be the best choice for discovering complex architecture in high-dimensional data by employing back propagation algorithm. As deep learning has made significant advancements and tremendous performance in numerous applications, the widely used domains of deep learning are business, science and government which further includes adaptive testing, biological image classification, computer vision, cancer detection, natural language processing, object detection, face recognition, handwriting recognition, speech recognition, stock market analysis, smart city and many more. This paper focuses on the concepts of deep learning, its basic and advanced architectures, techniques, motivational aspects, characteristics and the limitations. The paper also presents the major differences between the deep learning, classical machine learning and conventional learning approaches and the major challenges ahead. The main intention of this paper is to explore and present chronologically, a comprehensive survey of the major applications of deep learning covering variety of areas, study of the techniques and architectures used and further the contribution of that respective application in the real world. Finally, the paper ends with the conclusion and future aspects.

A Survey of Deep Learning and Its Applications: A New Paradigm to Machine Learning

U-net is an image segmentation technique developed primarily for image segmentation tasks. These traits provide U-net with a high utility within the medical imaging community and have resulted in extensive adoption of U-net as the primary tool for segmentation tasks in medical imaging. The success of U-net is evident in its widespread use in nearly all major image modalities, from CT scans and MRI to X-rays and microscopy. Furthermore, while U-net is largely a segmentation tool, there have been instances of the use of U-net in other applications. Given that U-net’s potential is still increasing, this narrative literature review examines the numerous developments and breakthroughs in the U-net architecture and provides observations on recent trends. We also discuss the many innovations that have advanced in deep learning and discuss how these tools facilitate U-net. In addition, we review the different image modalities and application areas that have been enhanced by U-net.

U-Net and Its Variants for Medical Image Segmentation: A Review of Theory and Applications

Convolutional neural networks for classification of Alzheimer's disease: Overview and reproducible evaluation.

The health care sector is totally different from any other industry. It is a high priority sector and consumers expect the highest level of care and services regardless of cost. The health care sector has not achieved society’s expectations, even though the sector consumes a huge percentage of national budgets. Mostly, the interpretations of medical data are analyzed by medical experts. In terms of a medical expert interpreting images, this is quite limited due to its subjectivity and the complexity of the images; extensive variations exist between experts and fatigue sets in due to their heavy workload. Following the success of deep learning in other real-world applications, it is seen as also providing exciting and accurate solutions for medical imaging, and is seen as a key method for future applications in the health care sector. In this chapter, we discuss state-of-the-art deep learning architecture and its optimization when used for medical image segmentation and classification. The chapter closes with a discussion of the challenges of deep learning methods with regard to medical imaging and open research issue.

Deep Learning for Medical Image Processing: Overview, Challenges and the Future

Healthcare sector is totally different from other industry. It is on high priority sector and people expect highest level of care and services regardless of cost. It did not achieve social expectation even though it consume huge percentage of budget. Mostly the interpretations of medical data is being done by medical expert. In terms of image interpretation by human expert, it is quite limited due to its subjectivity, the complexity of the image, extensive variations exist across different interpreters, and fatigue. After the success of deep learning in other real world application, it is also providing exciting solutions with good accuracy for medical imaging and is seen as a key method for future applications in health secotr. In this chapter, we discussed state of the art deep learning architecture and its optimization used for medical image segmentation and classification. In the last section, we have discussed the challenges deep learning based methods for medical imaging and open research issue.

Deep Learning for Medical Image Processing: Overview, Challenges and Future

Background: Coronavirus disease (COVID-19) is an infectious disease caused by a new virus. Exponential growth is not only threatening lives, but also impacting businesses and disrupting travel around the world. Aim: The aim of this work is to develop an efficient diagnosis of COVID-19 disease by differentiating it from viral pneumonia, bacterial pneumonia and healthy cases using deep learning techniques. Method: In this work, we have used pre-trained knowledge to improve the diagnostic performance using transfer learning techniques and compared the performance different CNN architectures. Results: Evaluation results using K-fold (10) showed that we have achieved state of the art performance with overall accuracy of 98.75% on the perspective of CT and X-ray cases as a whole. Conclusion: Quantitative evaluation showed high accuracy for automatic diagnosis of COVID-19. Pre-trained deep learning models develop in this study could be used early screening of coronavirus, however it calls for extensive need to CT or X-rays dataset to develop a reliable application.

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Improving Coronavirus (COVID-19) Diagnosis using Deep Transfer Learning

Machine learning and deep learning play a crucial role in identification of various diseases like neurological, skin, eyes, blood and cancers. The deep learning algorithms can be performed promising for prediction of Alzheimer’s disease using MRI scans. Alzheimer disease becoming more common in the people (age 65 years or above). The disease becomes severe before the symptoms appear and causes brain disorder that cannot be cured by medicines and other therapies and treatments. So the early diagnosis is necessary to slow down its progression. Detection and prevention of Alzheimer disease is one of the active research area for the researchers nowadays. In this paper, we employed architectures of convoutional networks using freeze features extracted from source data set ImageNet for binary and ternary classification. All experiments were carried out using Alzheimer’s disease national initiative (ADNI) data set consisting of MRI scans. The performance of proposed system demonstrates for classification of Alzheimer’s disease versus mild cognitive impairment, normal controls versus mild cognitive impairment, and cognitive normal versus Alzheimer’s disease. The results of proposed study show that VGG architecture outperforms the state-of-the-art techniques and number of architectures of conveNet (AlexNet, GoogLeNet, ResNet, DenseNet, Inceptionv3, InceptionResNet) in Alzheimer’s disease detection, and achieves an identification test set accuracy of 99.27% (MCI/AD), 98.89% (AD/CN) and 97.06% (MCI/CN).

Transfer learning using freeze features for Alzheimer neurological disorder detection using ADNI dataset

The digitalization of blood slides introduced pathology to a new era. Despite being the most powerful prognostic tool; automated analysis of microscopic blood smear images is still not used in routine clinical practices as manual pathological image analysis methods are still in use that is tedious, time consuming and subjective to technician dependent variation, furthermore it also needs training and skills. In this work, we present novel method based on extreme machine learning approach for the classification of red blood cells (RBC) images. Segmentation of RBC is initiated with statistical based thresholding to retrieve those pixels which are most relevant to RBC followed by Fuzzy C-means for the image segmentation and boundary detection. Different texture and geometrical features are extracted for the classification of normal and abnormal cells. The classification technique is rigorously evaluated against the dataset to evaluate the accuracy of classifier. We have compared the results with state of the art techniques. So far the proposed technique has produced more promising results as compared to the existing techniques.

Ahmad Zaib

Papers

Deep Learning for Medical Image Processing: Overview, Challenges and the Future

Deep Learning for Medical Image Processing: Overview, Challenges and Future

Improving Coronavirus (COVID-19) Diagnosis using Deep Transfer Learning

Transfer learning using freeze features for Alzheimer neurological disorder detection using ADNI dataset

Extreme learning machine based microscopic red blood cells classification