Localisation of Colorectal Polyps by Convolutional Neural Network Features Learnt from White Light and Narrow Band Endoscopic Images of Multiple Databases

A Real-Time Polyp-Detection System with Clinical Application in Colonoscopy Using Deep Convolutional Neural Networks

Colorectal cancer (CRC) is a leading cause of cancer-related deaths worldwide. The best method to prevent CRC is with a colonoscopy. During this procedure, the gastroenterologist searches for polyps. However, there is a potential risk of polyps being missed by the gastroenterologist. Automated detection of polyps helps to assist the gastroenterologist during a colonoscopy. There are already publications examining the problem of polyp detection in the literature. Nevertheless, most of these systems are only used in the research context and are not implemented for clinical application. Therefore, we introduce the first fully open-source automated polyp-detection system scoring best on current benchmark data and implementing it ready for clinical application. To create the polyp-detection system (ENDOMIND-Advanced), we combined our own collected data from different hospitals and practices in Germany with open-source datasets to create a dataset with over 500,000 annotated images. ENDOMIND-Advanced leverages a post-processing technique based on video detection to work in real-time with a stream of images. It is integrated into a prototype ready for application in clinical interventions. We achieve better performance compared to the best system in the literature and score a F1-score of 90.24% on the open-source CVC-VideoClinicDB benchmark.

Intraprocedure Artificial Intelligence Alert System for Colonoscopy Examination

Colonoscopy is a valuable tool for preventing and reducing the incidence and mortality of colorectal cancer. Although several computer-aided colorectal polyp detection and diagnosis systems have been proposed for clinical application, many remain susceptible to interference problems, including low image clarity, unevenness, and low accuracy for the analysis of dynamic images; these drawbacks affect the robustness and practicality of these systems. This study proposed an intraprocedure alert system for colonoscopy examination developed on the basis of deep learning. The proposed system features blurred image detection, foreign body detection, and polyp detection modules facilitated by convolutional neural networks. The training and validation datasets included high-quality images and low-quality images, including blurred images and those containing folds, fecal matter, and opaque water. For the detection of blurred images and images containing folds, fecal matter, and opaque water, the accuracy rate was 96.2%. Furthermore, the study results indicated a per-polyp detection accuracy of 100% when the system was applied to video images. The recall rates for high-quality image frames and polyp image frames were 95.7% and 92%, respectively. The overall alert accuracy rate and the false-positive rate of low quality for video images obtained through per-frame analysis were 95.3% and 0.18%, respectively. The proposed system can be used to alert colonoscopists to the need to slow their procedural speed or to perform flush or lumen inflation in cases where the colonoscope is being moved too rapidly, where fecal residue is present in the intestinal tract, or where the colon has been inadequately distended.

Examining the effect of synthetic data augmentation in polyp detection and segmentation

PURPOSE

As with several medical image analysis tasks based on deep learning, gastrointestinal image analysis is plagued with data scarcity, privacy concerns and an insufficient number of pathology samples. This study examines the generation and utility of synthetic samples of colonoscopy images with polyps for data augmentation.

METHODS

We modify and train a pix2pix model to generate synthetic colonoscopy samples with polyps to augment the original dataset. Subsequently, we create a variety of datasets by varying the quantity of synthetic samples and traditional augmentation samples, to train a U-Net network and Faster R-CNN model for segmentation and detection of polyps, respectively. We compare the performance of the models when trained with the resulting datasets in terms of F₁ score, intersection over union, precision and recall. Further, we compare the performances of the models with unseen polyp datasets to assess their generalization ability.

RESULTS

The average F₁ coefficient and intersection over union are improved with increasing number of synthetic samples in U-Net over all test datasets. The performance of the Faster R-CNN model is also improved in terms of polyp detection, while decreasing the false-negative rate. Further, the experimental results for polyp detection outperform similar studies in the literature on the ETIS-PolypLaribDB dataset.

CONCLUSION

By varying the quantity of synthetic and traditional augmentation, there is the potential to control the sensitivity of deep learning models in polyp segmentation and detection. Further, GAN-based augmentation is a viable option for improving the performance of models for polyp segmentation and detection.

Performance of Convolutional Neural Networks for Polyp Localization on Public Colonoscopy Image Datasets

Colorectal cancer is one of the most frequent malignancies. Colonoscopy is the de facto standard for precancerous lesion detection in the colon, i.e., polyps, during screening studies or after facultative recommendation. In recent years, artificial intelligence, and especially deep learning techniques such as convolutional neural networks, have been applied to polyp detection and localization in order to develop real-time CADe systems. However, the performance of machine learning models is very sensitive to changes in the nature of the testing instances, especially when trying to reproduce results for totally different datasets to those used for model development, i.e., inter-dataset testing. Here, we report the results of testing of our previously published polyp detection model using ten public colonoscopy image datasets and analyze them in the context of the results of other 20 state-of-the-art publications using the same datasets. The F1-score of our recently published model was 0.88 when evaluated on a private test partition, i.e., intra-dataset testing, but it decayed, on average, by 13.65% when tested on ten public datasets. In the published research, the average intra-dataset F1-score is 0.91, and we observed that it also decays in the inter-dataset setting to an average F1-score of 0.83.

Real-time polyp detection model using convolutional neural networks

Colorectal cancer is a major health problem, where advances towards computer-aided diagnosis (CAD) systems to assist the endoscopist can be a promising path to improvement. Here, a deep learning model for real-time polyp detection based on a pre-trained YOLOv3 (You Only Look Once) architecture and complemented with a post-processing step based on an object-tracking algorithm to reduce false positives is reported. The base YOLOv3 network was fine-tuned using a dataset composed of 28,576 images labelled with locations of 941 polyps that will be made public soon. In a frame-based evaluation using isolated images containing polyps, a general F1 score of 0.88 was achieved (recall = 0.87, precision = 0.89), with lower predictive performance in flat polyps, but higher for sessile, and pedunculated morphologies, as well as with the usage of narrow band imaging, whereas polyp size < 5 mm does not seem to have significant impact. In a polyp-based evaluation using polyp and normal mucosa videos, with a positive criterion defined as the presence of at least one 50-frames-length (window size) segment with a ratio of 75% of frames with predicted bounding boxes (frames positivity), 72.61% of sensitivity (95% CI 68.99–75.95) and 83.04% of specificity (95% CI 76.70–87.92) were achieved (Youden = 0.55, diagnostic odds ratio (DOR) = 12.98). When the positive criterion is less stringent (window size = 25, frames positivity = 50%), sensitivity reaches around 90% (sensitivity = 89.91%, 95% CI 87.20–91.94; specificity = 54.97%, 95% CI 47.49–62.24; Youden = 0.45; DOR = 10.76). The object-tracking algorithm has demonstrated a significant improvement in specificity whereas maintaining sensitivity, as well as a marginal impact on computational performance. These results suggest that the model could be effectively integrated into a CAD system.

Colorectal Polyp Image Detection and Classification through Grayscale Images and Deep Learning

Colonoscopy screening and colonoscopic polypectomy can decrease the incidence and mortality rate of colorectal cancer (CRC). The adenoma detection rate and accuracy of diagnosis of colorectal polyp which vary in different experienced endoscopists have impact on the colonoscopy protection effect of CRC. The work proposed a colorectal polyp image detection and classification system through grayscale images and deep learning. The system collected the data of CVC-Clinic and 1000 colorectal polyp images of Linkou Chang Gung Medical Hospital. The red-green-blue (RGB) images were transformed to 0 to 255 grayscale images. Polyp detection and classification were performed by convolutional neural network (CNN) model. Data for polyp detection was divided into five groups and tested by 5-fold validation. The accuracy of polyp detection was 95.1% for grayscale images which is higher than 94.1% for RGB and narrow-band images. The diagnostic accuracy, precision and recall rates were 82.8%, 82.5% and 95.2% for narrow-band images, respectively. The experimental results show that grayscale images achieve an equivalent or even higher accuracy of polyp detection than RGB images for lightweight computation. It is also found that the accuracy of polyp detection and classification is dramatically decrease when the size of polyp images small than 1600 pixels. It is recommended that clinicians could adjust the distance between the lens and polyps appropriately to enhance the system performance when conducting computer-assisted colorectal polyp analysis.

Application of artificial intelligence in gastrointestinal disease: a narrative review

Objective

We collected evidence on the application of artificial intelligence (AI) in gastroenterology field. The review was carried out from two aspects of endoscopic types and gastrointestinal diseases, and briefly summarized the challenges and future directions in this field.

Background

Due to the advancement of computational power and a surge of available data, a solid foundation has been laid for the growth of AI. Specifically, varied machine learning (ML) techniques have been emerging in endoscopic image analysis. To improve the accuracy and efficiency of clinicians, AI has been widely applied to gastrointestinal endoscopy.

Methods

PubMed electronic database was searched using the keywords containing “AI”, “ML”, “deep learning (DL)”, “convolution neural network”, “endoscopy (such as white light endoscopy (WLE), narrow band imaging (NBI) endoscopy, magnifying endoscopy with narrow band imaging (ME-NBI), chromoendoscopy, endocytoscopy (EC), and capsule endoscopy (CE))”. Search results were assessed for relevance and then used for detailed discussion.

Conclusions

This review described the basic knowledge of AI, ML, and DL, and summarizes the application of AI in various endoscopes and gastrointestinal diseases. Finally, the challenges and directions of AI in clinical application were discussed. At present, the application of AI has solved some clinical problems, but more still needs to be done.

Automatic Polyp Segmentation in Colonoscopy Images Using a Modified Deep Convolutional Encoder-Decoder Architecture

Colorectal cancer has become the third most commonly diagnosed form of cancer, and has the second highest fatality rate of cancers worldwide. Currently, optical colonoscopy is the preferred tool of choice for the diagnosis of polyps and to avert colorectal cancer. Colon screening is time-consuming and highly operator dependent. In view of this, a computer-aided diagnosis (CAD) method needs to be developed for the automatic segmentation of polyps in colonoscopy images. This paper proposes a modified SegNet Visual Geometry Group-19 (VGG-19), a form of convolutional neural network, as a CAD method for polyp segmentation. The modifications include skip connections, 5 × 5 convolutional filters, and the concatenation of four dilated convolutions applied in parallel form. The CVC-ClinicDB, CVC-ColonDB, and ETIS-LaribPolypDB databases were used to evaluate the model, and it was found that our proposed polyp segmentation model achieved an accuracy, sensitivity, specificity, precision, mean intersection over union, and dice coefficient of 96.06%, 94.55%, 97.56%, 97.48%, 92.3%, and 95.99%, respectively. These results indicate that our model performs as well as or better than previous schemes in the literature. We believe that this study will offer benefits in terms of the future development of CAD tools for polyp segmentation for colorectal cancer diagnosis and management. In the future, we intend to embed our proposed network into a medical capsule robot for practical usage and try it in a hospital setting with clinicians.

Artificial intelligence in colonoscopy

Colorectal cancer remains a leading cause of morbidity and mortality in the United States. Advances in artificial intelligence (AI), specifically computer aided detection and computer-aided diagnosis offer promising methods of increasing adenoma detection rates with the goal of removing more pre-cancerous polyps. Conversely, these methods also may allow for smaller non-cancerous lesions to be diagnosed in vivo and left in place, decreasing the risks that come with unnecessary polypectomies. This review will provide an overview of current advances in the use of AI in colonoscopy to aid in polyp detection and characterization as well as areas of developing research.

Status quo and future prospects of artificial neural network from the perspective of gastroenterologists

Artificial neural networks (ANNs) are one of the primary types of artificial intelligence and have been rapidly developed and used in many fields. In recent years, there has been a sharp increase in research concerning ANNs in gastrointestinal (GI) diseases. This state-of-the-art technique exhibits excellent performance in diagnosis, prognostic prediction, and treatment. Competitions between ANNs and GI experts suggest that efficiency and accuracy might be compatible in virtue of technique advancements. However, the shortcomings of ANNs are not negligible and may induce alterations in many aspects of medical practice. In this review, we introduce basic knowledge about ANNs and summarize the current achievements of ANNs in GI diseases from the perspective of gastroenterologists. Existing limitations and future directions are also proposed to optimize ANN’s clinical potential. In consideration of barriers to interdisciplinary knowledge, sophisticated concepts are discussed using plain words and metaphors to make this review more easily understood by medical practitioners and the general public.

Gastric polyp detection in gastroscopic images using deep neural network

This paper presents the research results of detecting gastric polyps with deep learning object detection method in gastroscopic images. Gastric polyps have various sizes. The difficulty of polyp detection is that small polyps are difficult to detect from the background. We propose a feature extraction and fusion module and combine it with the YOLOv3 network to form our network. This method performs better than other methods in the detection of small polyps because it can fuse the semantic information of high-level feature maps with low-level feature maps to help small polyps detection. In this work, we use a dataset of gastric polyps created by ourselves, containing 1433 training images and 508 validation images. We train and validate our network on our dataset. In comparison with other methods of polyps detection, our method has a significant improvement in precision, recall rate, F1, and F2 score. The precision, recall rate, F1 score, and F2 score of our method can achieve 91.6%, 86.2%, 88.8%, and 87.2%.

Training data enhancements for improving colonic polyp detection using deep convolutional neural networks

BACKGROUND

Over the last years, the most relevant results in the context of polyp detection were achieved through deep learning techniques. However, the most common obstacles in this field are the small datasets with a reduced number of samples and the lack of data variability. This paper describes a method to reduce this limitation and improve polyp detection results using publicly available colonoscopic datasets.

METHODS

To address this issue, we increased the number and variety of images from the original dataset. Our method consists on adding polyps to the dataset images. The developed algorithm performs a rigorous selection of the best region within the image to receive the polyp. This procedure preserves the realistic features of the images while creating more diverse samples for training purposes. Our method allows copying existing polyps to new non-polypoid target regions. We also develop a strategy to generate new and more varied polyps through generative adversarial neural networks. Hence, the developed approach enriches the training data, creating automatically new samples with their appropriate labels.

RESULTS

We applied the proposed data enhancement over a colonic polyp dataset. Thus, we can assess the effectiveness of our approach through a Faster R-CNN detection model. Performance results show improvements over the polyp detections while reducing the false-negative rate. The experimental results also show better recall metrics in comparison with both the original training set and other studies in the literature.

CONCLUSION

We demonstrate that our proposed method has the potential to increase the data variability and number of samples in a reduced polyp dataset, improving the polyp detection rate and recall values. These results open new possibilities for advancing the study and implementation of new methods to improve computer-assisted medical image analysis.

Deep learning to find colorectal polyps in colonoscopy: A systematic literature review

Colorectal cancer has a great incidence rate worldwide, but its early detection significantly increases the survival rate. Colonoscopy is the gold standard procedure for diagnosis and removal of colorectal lesions with potential to evolve into cancer and computer-aided detection systems can help gastroenterologists to increase the adenoma detection rate, one of the main indicators for colonoscopy quality and predictor for colorectal cancer prevention. The recent success of deep learning approaches in computer vision has also reached this field and has boosted the number of proposed methods for polyp detection, localization and segmentation. Through a systematic search, 35 works have been retrieved. The current systematic review provides an analysis of these methods, stating advantages and disadvantages for the different categories used; comments seven publicly available datasets of colonoscopy images; analyses the metrics used for reporting and identifies future challenges and recommendations. Convolutional neural networks are the most used architecture together with an important presence of data augmentation strategies, mainly based on image transformations and the use of patches. End-to-end methods are preferred over hybrid methods, with a rising tendency. As for detection and localization tasks, the most used metric for reporting is the recall, while Intersection over Union is highly used in segmentation. One of the major concerns is the difficulty for a fair comparison and reproducibility of methods. Even despite the organization of challenges, there is still a need for a common validation framework based on a large, annotated and publicly available database, which also includes the most convenient metrics to report results. Finally, it is also important to highlight that efforts should be focused in the future on proving the clinical value of the deep learning based methods, by increasing the adenoma detection rate.

Convolutional Neural Network Technology in Endoscopic Imaging: Artificial Intelligence for Endoscopy

Recently, significant improvements have been made in artificial intelligence. The artificial neural network was introduced in the 1950s. However, because of the low computing power and insufficient datasets available at that time, artificial neural networks suffered from overfitting and vanishing gradient problems for training deep networks. This concept has become more promising owing to the enhanced big data processing capability, improvement in computing power with parallel processing units, and new algorithms for deep neural networks, which are becoming increasingly successful and attracting interest in many domains, including computer vision, speech recognition, and natural language processing. Recent studies in this technology augur well for medical and healthcare applications, especially in endoscopic imaging. This paper provides perspectives on the history, development, applications, and challenges of deep-learning technology.