Endoscopy Artefact Detection by Deep Transfer Learning of Baseline Models.

To visualise the tumours inside the body on a screen, a long and thin tube is inserted with a light source and a camera at the tip to obtain video frames inside organs in endoscopy. However, multiple artefacts exist in these video frames that cause difficulty during the diagnosis of cancers. In this research, deep learning was applied to detect eight kinds of artefacts: specularity, bubbles, saturation, contrast, blood, instrument, blur, and imaging artefacts. Based on transfer learning with pre-trained parameters and fine-tuning, two state-of-the-art methods were applied for detection: faster region-based convolutional neural networks (Faster R-CNN) and EfficientDet. Experiments were implemented on the grand challenge dataset, Endoscopy Artefact Detection and Segmentation (EAD2020). To validate our approach in this study, we used phase I of 2,200 frames and phase II of 331 frames in the original training dataset with ground-truth annotations as training and testing dataset, respectively. Among the tested methods, EfficientDet-D2 achieves a score of 0.2008 (mAPd[Formula: see text]0.6+mIoUd[Formula: see text]0.4) on the dataset that is better than three other baselines: Faster-RCNN, YOLOv3, and RetinaNet, and competitive to the best non-baseline result scored 0.25123 on the leaderboard although our testing was on phase II of 331 frames instead of the original 200 testing frames. Without extra improvement techniques beyond basic neural networks such as test-time augmentation, we showed that a simple baseline could achieve state-of-the-art performance in detecting artefacts in endoscopy. In conclusion, we proposed the combination of EfficientDet-D2 with suitable data augmentation and pre-trained parameters during fine-tuning training to detect the artefacts in endoscopy.

MoNuSAC2020: A Multi-Organ Nuclei Segmentation and Classification Challenge.

Detecting various types of cells in and around the tumor matrix holds a special significance in characterizing the tumor micro-environment for cancer prognostication and research. Automating the tasks of detecting, segmenting, and classifying nuclei can free up the pathologists' time for higher value tasks and reduce errors due to fatigue and subjectivity. To encourage the computer vision research community to develop and test algorithms for these tasks, we prepared a large and diverse dataset of nucleus boundary annotations and class labels. The dataset has over 46,000 nuclei from 37 hospitals, 71 patients, four organs, and four nucleus types. We also organized a challenge around this dataset as a satellite event at the International Symposium on Biomedical Imaging (ISBI) in April 2020. The challenge saw a wide participation from across the world, and the top methods were able to match inter-human concordance for the challenge metric. In this paper, we summarize the dataset and the key findings of the challenge, including the commonalities and differences between the methods developed by various participants. We have released the MoNuSAC2020 dataset to the public.

A computer-aided diagnosis for locating abnormalities in bone scintigraphy by a fuzzy system with a three-step minimization approach.

Bone scintigraphy is an effective method to diagnose bone diseases such as bone tumors. In the scintigraphic images, bone abnormalities are widely scattered on the whole body. Conventionally, radiologists visually check the whole-body images and find the distributed abnormalities based on their expertise. This manual process is time-consuming and it is not unusual to miss some abnormalities. In this paper, a computer-aided diagnosis (CAD) system is proposed to assist radiologists in the diagnosis of bone scintigraphy. The system will provide warning marks and abnormal scores on some locations of the images to direct radiologists' attention toward these locations. A fuzzy system called characteristic-point-based fuzzy inference system (CPFIS) is employed to implement the diagnosis system and three minimizations are used to systematically train the CPFIS. Asymmetry and brightness are chosen as the two inputs to the CPFIS according to radiologists' knowledge. The resulting CAD system is of a small-sized rule base such that the resulting fuzzy rules can be not only easily understood by radiologists, but also matched to and compared with their expert knowledge. The prototype CAD system was tested on 82 abnormal images and 27 normal images. We employed free-response receiver operating characteristics method with the mean number of false positives (FPs) and the sensitivity as performance indexes to evaluate the proposed system. The sensitivity is 91.5% (227 of 248) and the mean number of FPs is 37.3 per image. The high sensitivity and moderate numbers of FP marks per image shows that the proposed method can provide an effective second-reader information to radiologists in the diagnosis of bone scintigraphy.