RetiFluidNet: A Self-Adaptive and Multi-Attention Deep Convolutional Network for Retinal OCT Fluid Segmentation

Optical coherence tomography (OCT) helps ophthalmologists assess macular edema, accumulation of fluids, and lesions at microscopic resolution. Quantification of retinal fluids is necessary for OCT-guided treatment management, which relies on a precise image segmentation step. As manual analysis of retinal fluids is a time-consuming, subjective, and error-prone task, there is increasing demand for fast and robust automatic solutions. In this study, a new convolutional neural architecture named RetiFluidNet is proposed for multi-class retinal fluid segmentation. The model benefits from hierarchical representation learning of textural, contextual, and edge features using a new self-adaptive dual-attention (SDA) module, multiple self-adaptive attention-based skip connections (SASC), and a novel multi-scale deep self supervision learning (DSL) scheme. The attention mechanism in the proposed SDA module enables the model to automatically extract deformation-aware representations at different levels, and the introduced SASC paths further consider spatial-channel interdependencies for concatenation of counterpart encoder and decoder units, which improve representational capability. RetiFluidNet is also optimized using a joint loss function comprising a weighted version of dice overlap and edge-preserved connectivity-based losses, where several hierarchical stages of multi-scale local losses are integrated into the optimization process. The model is validated based on three publicly available datasets: RETOUCH, OPTIMA, and DUKE, with comparisons against several baselines. Experimental results on the datasets prove the effectiveness of the proposed model in retinal OCT fluid segmentation and reveal that the suggested method is more effective than existing state-of-the-art fluid segmentation algorithms in adapting to retinal OCT scans recorded by various image scanning instruments.Comment: 11 pages, Early Access Version, IEEE Transactions on Medical Imagin

DeepSignals: Predicting Intent of Drivers Through Visual Signals

Detecting the intention of drivers is an essential task in self-driving, necessary to anticipate sudden events like lane changes and stops. Turn signals and emergency flashers communicate such intentions, providing seconds of potentially critical reaction time. In this paper, we propose to detect these signals in video sequences by using a deep neural network that reasons about both spatial and temporal information. Our experiments on more than a million frames show high per-frame accuracy in very challenging scenarios.Comment: To be presented at the IEEE International Conference on Robotics and Automation (ICRA), 201

Generalized Sparse Convolutional Neural Networks for Semantic Segmentation of Point Clouds Derived from Tri-Stereo Satellite Imagery

We studied the applicability of point clouds derived from tri-stereo satellite imagery for semantic segmentation for generalized sparse convolutional neural networks by the example of an Austrian study area. We examined, in particular, if the distorted geometric information, in addition to color, influences the performance of segmenting clutter, roads, buildings, trees, and vehicles. In this regard, we trained a fully convolutional neural network that uses generalized sparse convolution one time solely on 3D geometric information (i.e., 3D point cloud derived by dense image matching), and twice on 3D geometric as well as color information. In the first experiment, we did not use class weights, whereas in the second we did. We compared the results with a fully convolutional neural network that was trained on a 2D orthophoto, and a decision tree that was once trained on hand-crafted 3D geometric features, and once trained on hand-crafted 3D geometric as well as color features. The decision tree using hand-crafted features has been successfully applied to aerial laser scanning data in the literature. Hence, we compared our main interest of study, a representation learning technique, with another representation learning technique, and a non-representation learning technique. Our study area is located in Waldviertel, a region in Lower Austria. The territory is a hilly region covered mainly by forests, agriculture, and grasslands. Our classes of interest are heavily unbalanced. However, we did not use any data augmentation techniques to counter overfitting. For our study area, we reported that geometric and color information only improves the performance of the Generalized Sparse Convolutional Neural Network (GSCNN) on the dominant class, which leads to a higher overall performance in our case. We also found that training the network with median class weighting partially reverts the effects of adding color. The network also started to learn the classes with lower occurrences. The fully convolutional neural network that was trained on the 2D orthophoto generally outperforms the other two with a kappa score of over 90% and an average per class accuracy of 61%. However, the decision tree trained on colors and hand-crafted geometric features has a 2% higher accuracy for roads

Data-Driven Deep Learning-Based Analysis on THz Imaging

Breast cancer affects about 12.5% of women population in the United States. Surgical operations are often needed post diagnosis. Breast conserving surgery can help remove malignant tumors while maximizing the remaining healthy tissues. Due to lacking effective real-time tumor analysis tools and a unified operation standard, re-excision rate could be higher than 30% among breast conserving surgery patients. This results in significant physical, physiological, and financial burdens to those patients. This work designs deep learning-based segmentation algorithms that detect tissue type in excised tissues using pulsed THz technology. This work evaluates the algorithms for tissue type classification task among freshly excised tumor samples. Freshly excised tumor samples are more challenging than formalin-fixed, paraffin-embedded (FFPE) block sample counterparts due to excessive fluid, image registration difficulties, and lacking trustworthy pixelwise labels of each tissue sample. Additionally, evaluating freshly excised tumor samples has profound meaning of potentially applying pulsed THz scan technology to breast conserving cancer surgery in operating room. Recently, deep learning techniques have been heavily researched since GPU based computation power becomes economical and stronger. This dissertation revisits breast cancer tissue segmentation related problems using pulsed terahertz wave scan technique among murine samples and applies recent deep learning frameworks to enhance the performance in various tasks. This study first performs pixelwise classification on terahertz scans with CNN-based neural networks and time-frequency based feature tensors using wavelet transformation. This study then explores the neural network based semantic segmentation strategy performing on terahertz scans considering spatial information and incorporating noisy label handling with label correction techniques. Additionally, this study performs resolution restoration for visual enhancement on terahertz scans using an unsupervised, generative image-to-image translation methodology. This work also proposes a novel data processing pipeline that trains a semantic segmentation network using only neural generated synthetic terahertz scans. The performance is evaluated using various evaluation metrics among different tasks

CKD-TransBTS: Clinical Knowledge-Driven Hybrid Transformer with Modality-Correlated Cross-Attention for Brain Tumor Segmentation

Brain tumor segmentation (BTS) in magnetic resonance image (MRI) is crucial for brain tumor diagnosis, cancer management and research purposes. With the great success of the ten-year BraTS challenges as well as the advances of CNN and Transformer algorithms, a lot of outstanding BTS models have been proposed to tackle the difficulties of BTS in different technical aspects. However, existing studies hardly consider how to fuse the multi-modality images in a reasonable manner. In this paper, we leverage the clinical knowledge of how radiologists diagnose brain tumors from multiple MRI modalities and propose a clinical knowledge-driven brain tumor segmentation model, called CKD-TransBTS. Instead of directly concatenating all the modalities, we re-organize the input modalities by separating them into two groups according to the imaging principle of MRI. A dual-branch hybrid encoder with the proposed modality-correlated cross-attention block (MCCA) is designed to extract the multi-modality image features. The proposed model inherits the strengths from both Transformer and CNN with the local feature representation ability for precise lesion boundaries and long-range feature extraction for 3D volumetric images. To bridge the gap between Transformer and CNN features, we propose a Trans&CNN Feature Calibration block (TCFC) in the decoder. We compare the proposed model with five CNN-based models and six transformer-based models on the BraTS 2021 challenge dataset. Extensive experiments demonstrate that the proposed model achieves state-of-the-art brain tumor segmentation performance compared with all the competitors

A Survey on Knowledge Graphs: Representation, Acquisition and Applications

Human knowledge provides a formal understanding of the world. Knowledge graphs that represent structural relations between entities have become an increasingly popular research direction towards cognition and human-level intelligence. In this survey, we provide a comprehensive review of knowledge graph covering overall research topics about 1) knowledge graph representation learning, 2) knowledge acquisition and completion, 3) temporal knowledge graph, and 4) knowledge-aware applications, and summarize recent breakthroughs and perspective directions to facilitate future research. We propose a full-view categorization and new taxonomies on these topics. Knowledge graph embedding is organized from four aspects of representation space, scoring function, encoding models, and auxiliary information. For knowledge acquisition, especially knowledge graph completion, embedding methods, path inference, and logical rule reasoning, are reviewed. We further explore several emerging topics, including meta relational learning, commonsense reasoning, and temporal knowledge graphs. To facilitate future research on knowledge graphs, we also provide a curated collection of datasets and open-source libraries on different tasks. In the end, we have a thorough outlook on several promising research directions