The INCF Digital Atlasing Program: Report on Digital Atlasing Standards in the Rodent Brain

The goal of the INCF Digital Atlasing Program is to provide the vision and direction necessary to make the rapidly growing collection of multidimensional data of the rodent brain (images, gene expression, etc.) widely accessible and usable to the international research community. This Digital Brain Atlasing Standards Task Force was formed in May 2008 to investigate the state of rodent brain digital atlasing, and formulate standards, guidelines, and policy recommendations.

Our first objective has been the preparation of a detailed document that includes the vision and specific description of an infrastructure, systems and methods capable of serving the scientific goals of the community, as well as practical issues for achieving
the goals. This report builds on the 1st INCF Workshop on Mouse and Rat Brain Digital Atlasing Systems (Boline et al., 2007, _Nature Preceedings_, doi:10.1038/npre.2007.1046.1) and includes a more detailed analysis of both the current state and desired state of digital atlasing along with specific recommendations for achieving these goals

Map Generation from Large Scale Incomplete and Inaccurate Data Labels

Accurately and globally mapping human infrastructure is an important and challenging task with applications in routing, regulation compliance monitoring, and natural disaster response management etc.. In this paper we present progress in developing an algorithmic pipeline and distributed compute system that automates the process of map creation using high resolution aerial images. Unlike previous studies, most of which use datasets that are available only in a few cities across the world, we utilizes publicly available imagery and map data, both of which cover the contiguous United States (CONUS). We approach the technical challenge of inaccurate and incomplete training data adopting state-of-the-art convolutional neural network architectures such as the U-Net and the CycleGAN to incrementally generate maps with increasingly more accurate and more complete labels of man-made infrastructure such as roads and houses. Since scaling the mapping task to CONUS calls for parallelization, we then adopted an asynchronous distributed stochastic parallel gradient descent training scheme to distribute the computational workload onto a cluster of GPUs with nearly linear speed-up.Comment: This paper is accepted by KDD 202

FSS-2019-nCov:A deep learning architecture for semi-supervised few-shot segmentation of COVID-19 infection

The newly discovered coronavirus (COVID-19) pneumonia is providing major challenges to research in terms of diagnosis and disease quantification. Deep-learning (DL) techniques allow extremely precise image segmentation; yet, they necessitate huge volumes of manually labeled data to be trained in a supervised manner. Few-Shot Learning (FSL) paradigms tackle this issue by learning a novel category from a small number of annotated instances. We present an innovative semi-supervised few-shot segmentation (FSS) approach for efficient segmentation of 2019-nCov infection (FSS-2019-nCov) from only a few amounts of annotated lung CT scans. The key challenge of this study is to provide accurate segmentation of COVID-19 infection from a limited number of annotated instances. For that purpose, we propose a novel dual-path deep-learning architecture for FSS. Every path contains encoder–decoder (E-D) architecture to extract high-level information while maintaining the channel information of COVID-19 CT slices. The E-D architecture primarily consists of three main modules: a feature encoder module, a context enrichment (CE) module, and a feature decoder module. We utilize the pre-trained ResNet34 as an encoder backbone for feature extraction. The CE module is designated by a newly introduced proposed Smoothed Atrous Convolution (SAC) block and Multi-scale Pyramid Pooling (MPP) block. The conditioner path takes the pairs of CT images and their labels as input and produces a relevant knowledge representation that is transferred to the segmentation path to be used to segment the new images. To enable effective collaboration between both paths, we propose an adaptive recombination and recalibration (RR) module that permits intensive knowledge exchange between paths with a trivial increase in computational complexity. The model is extended to multi-class labeling for various types of lung infections. This contribution overcomes the limitation of the lack of large numbers of COVID-19 CT scans. It also provides a general framework for lung disease diagnosis in limited data situations

Promising Large Scale Image Retrieval by Using Intelligent Semantic Binary Code Generation Technique

AbstractA scalable content based image retrieval system for large-scale www database is designed and implemented. Million images on internet is big challenge for accurate and efficient image retrieval as per user requirement. Proposed system exploits semantic binary code generation techniques with semantic hashing function, fine and coarse similarity measure technique, automatic and manual relevance feedback technique which improve accuracy, speed of image retrieval. With dramatic growth of internet technology, scalable image retrieval system is a need of recent web based image retrieval applications such as biomedical imaging, medical diagnosis, space science application etc. Proposed system accomplish requirement of scalable, accurate and swift image retrieval system. Experimental result clearly shows that performance of image retrieval is improved in term of accuracy, efficiency and retrieval time