Tanmay Tulsidas Verlekar

Soham Rohit Chitnis, Sidong Liu, Tirtharaj Dash et al.

Whole Slide Images (WSIs) or histopathology images are used in digital pathology. WSIs pose great challenges to deep learning models for clinical diagnosis, owing to their size and lack of pixel-level annotations. With the recent advancements in computational pathology, newer multiple-instance learning-based models have been proposed. Multiple-instance learning for WSIs necessitates creating patches and uses the encoding of these patches for diagnosis. These models use generic pre-trained models (ResNet-50 pre-trained on ImageNet) for patch encoding. The recently proposed KimiaNet, a DenseNet121 model pre-trained on TCGA slides, is a domain-specific pre-trained model. This paper shows the effect of domain-specific pre-training on WSI classification. To investigate the effect of domain-specific pre-training, we considered the current state-of-the-art multiple-instance learning models, 1) CLAM, an attention-based model, and 2) TransMIL, a self-attention-based model, and evaluated the models' confidence and predictive performance in detecting primary brain tumors - gliomas. Domain-specific pre-training improves the confidence of the models and also achieves a new state-of-the-art performance of WSI-based glioma subtype classification, showing a high clinical applicability in assisting glioma diagnosis. We will publicly share our code and experimental results at https://github.com/soham-chitnis10/WSI-domain-specific.

Shreyas Bhat Brahmavar, Rohit Rajesh, Tirtharaj Dash et al.

Deep neural network (DNN) models for retinopathy have estimated predictive accuracies in the mid-to-high 90%. However, the following aspects remain unaddressed: State-of-the-art models are complex and require substantial computational infrastructure to train and deploy; The reliability of predictions can vary widely. In this paper, we focus on these aspects and propose a form of iterative knowledge distillation(IKD), called IKD+ that incorporates a tradeoff between size, accuracy and reliability. We investigate the functioning of IKD+ using two widely used techniques for estimating model calibration (Platt-scaling and temperature-scaling), using the best-performing model available, which is an ensemble of EfficientNets with approximately 100M parameters. We demonstrate that IKD+ equipped with temperature-scaling results in models that show up to approximately 500-fold decreases in the number of parameters than the original ensemble without a significant loss in accuracy. In addition, calibration scores (reliability) for the IKD+ models are as good as or better than the base mode

Vedant Shah, Aditya Agrawal, Lovekesh Vig et al.

We are interested in neurosymbolic systems consisting of a high-level symbolic layer for explainable prediction in terms of human-intelligible concepts; and a low-level neural layer for extracting symbols required to generate the symbolic explanation. Real data is often imperfect meaning that even if the symbolic theory remains unchanged, we may still need to address the problem of mapping raw data to high-level symbols, each time there is a change in the data acquisition environment or equipment. Manual (re-)annotation of the raw data each time this happens is laborious and expensive; and automated labelling methods are often imperfect, especially for complex problems. NEUROLOG proposed the use of a semantic loss function that allows an existing feature-based symbolic model to guide the extraction of feature-values from raw data, using `abduction'. However, the experiments demonstrating the use of semantic loss through abduction appear to rely heavily on a domain-specific pre-processing step that enables a prior delineation of feature locations in the raw data. We examine the use of semantic loss in domains where such pre-processing is not possible, or is not obvious. We show that without any prior information about the features, the NEUROLOG approach can continue to predict accurately even with substantially incorrect feature predictions. We show also that prior information about the features in the form of even imperfect pre-training can help correct this situation. These findings are replicated on the original problem considered by NEUROLOG, without the use of feature-delineation. This suggests that symbolic explanations constructed for data in a domain could be re-used in a related domain, by `feature-adaptation' of pre-trained neural extractors using the semantic loss function constrained by abductive feedback.

Karan Bania, Tanmay Verlekar

Video-based gait analysis can be defined as the task of diagnosing pathologies, such as ataxia, using videos of patients walking in front of a camera. This paper presents a graph convolution network called AtGCN for detecting ataxic gait and identifying its severity using 2D videos. The problem is especially challenging as the deviation of an ataxic gait from a healthy gait is very subtle. The datasets for ataxic gait detection are also quite small, with the largest dataset having only 149 videos. The paper addresses the first problem using special spatiotemporal graph convolution that successfully captures important gait-related features. To handle the small dataset size, a deep spatiotemporal graph convolution network pre-trained on an action recognition dataset is systematically truncated and then fine-tuned on the ataxia dataset to obtain the AtGCN model. The paper also presents an augmentation strategy that segments a video sequence into multiple gait cycles. The proposed AtGCN model then operates on a graph of body part locations belonging to a single gait cycle. The evaluation results support the strength of the proposed AtGCN model, as it outperforms the state-of-the-art in detection and severity prediction with an accuracy of 93.46% and a MAE of 0.4169, respectively.

Arnav Mishra, Aditi Shetkar, Ganesh M. Bapat et al.

Recent technological advancements in artificial intelligence and computer vision have enabled gait analysis on portable devices such as cell phones. However, most state-of-the-art vision-based systems still impose numerous constraints for capturing a patient's video, such as using a static camera and maintaining a specific distance from it. While these constraints are manageable under professional observation, they pose challenges in home settings. Another issue with most vision-based systems is their output, typically a classification label and confidence value, whose reliability is often questioned by medical professionals. This paper addresses these challenges by presenting a novel system for gait analysis robust to camera movements and providing explanations for its output. The study utilizes a dataset comprising videos of subjects wearing two types of Knee Ankle Foot Orthosis (KAFO), namely "Locked Knee" and "Semi-flexion," for mobility, along with metadata and ground truth for explanations. The ground truth highlights the statistical significance of seven features captured using motion capture systems to differentiate between the two gaits. To address camera movement challenges, the proposed system employs super-resolution and pose estimation during pre-processing. It then identifies the seven features - Stride Length, Step Length and Duration of single support of orthotic and non-orthotic leg, Cadence, and Speed - using the skeletal output of pose estimation. These features train a multi-layer perceptron, with its output explained by highlighting the features' contribution to classification. While most state-of-the-art systems struggle with processing the video or training on the proposed dataset, our system achieves an average accuracy of 94%. The model's explainability is validated using ground truth and can be considered reliable.

Pedro Albuquerque, Joao Machado, Tanmay Tulsidas Verlekar et al.

Several pathologies can alter the way people walk, i.e. their gait. Gait analysis can therefore be used to detect impairments and help diagnose illnesses and assess patient recovery. Using vision-based systems, diagnoses could be done at home or in a clinic, with the needed computation being done remotely. State-of-the-art vision-based gait analysis systems use deep learning, requiring large datasets for training. However, to our best knowledge, the biggest publicly available pathological gait dataset contains only 10 subjects, simulating 4 gait pathologies. This paper presents a new dataset called GAIT-IT, captured from 21 subjects simulating 4 gait pathologies, with 2 severity levels, besides normal gait, being considerably larger than publicly available gait pathology datasets, allowing to train a deep learning model for gait pathology classification. Moreover, it was recorded in a professional studio, making it possible to obtain nearly perfect silhouettes, free of segmentation errors. Recognizing the importance of remote healthcare, this paper proposes a prototype of a web application allowing to upload a walking person's video, possibly acquired using a smartphone camera, and execute a web service that classifies the person's gait as normal or across different pathologies. The web application has a user friendly interface and could be used by healthcare professionals or other end users. An automatic gait analysis system is also developed and integrated with the web application for pathology classification. Compared to state-of-the-art solutions, it achieves a drastic reduction in the number of model parameters, which means significantly lower memory requirements, as well as lower training and execution times. Classification accuracy is on par with the state-of-the-art.