A2CI: A Cloud-based, Service-oriented Geospatial Cyberinfrastructure to Support Atmospheric Research

Big earth science data offers the scientific community great opportunities. Many more studies at large-scales, over long-terms and at high resolution can now be conducted using the rich information collected by remote sensing satellites, ground-based sensor networks, and even social media input. However, the hundreds of terabytes of information collected and compiled on an hourly basis by NASA and other government agencies present a significant challenge for atmospheric scientists seeking to improve the understanding of the Earth atmospheric system. These challenges include effective discovery, organization, analysis and visualization of large amounts of data. This paper reports the outcomes of an NSF-funded project that developed a geospatial cyberinfrastructure -- the A2CI (Atmospheric Analysis Cyberinfrastructure) -- to support atmospheric research. We first introduce the service-oriented system framework then describe in detail the implementation of the data discovery module, data management module, data integration module, data analysis and visualization modules following the cloud computing principles-Data-as-a-Service, Software-as-a-Service, Platform-as-a-Service and Infrastructure-as-a-Service. We demonstrate the graphic user interface by performing an analysis between Sea Surface Temperature and the intensity of tropical storms in the North Atlantic and Pacific oceans. We expect this work to contribute to the technical advancement of cyberinfrastructure research as well as to the development of an online, collaborative scientific analysis system for atmospheric science.

Segment Anything Model Can Not Segment Anything: Assessing AI Foundation Model's Generalizability in Permafrost Mapping

This paper assesses trending AI foundation models, especially emerging computer vision foundation models and their performance in natural landscape feature segmentation. While the term foundation model has quickly garnered interest from the geospatial domain, its definition remains vague. Hence, this paper will first introduce AI foundation models and their defining characteristics. Built upon the tremendous success achieved by Large Language Models (LLMs) as the foundation models for language tasks, this paper discusses the challenges of building foundation models for geospatial artificial intelligence (GeoAI) vision tasks. To evaluate the performance of large AI vision models, especially Meta's Segment Anything Model (SAM), we implemented different instance segmentation pipelines that minimize the changes to SAM to leverage its power as a foundation model. A series of prompt strategies was developed to test SAM's performance regarding its theoretical upper bound of predictive accuracy, zero-shot performance, and domain adaptability through fine-tuning. The analysis used two permafrost feature datasets, ice-wedge polygons and retrogressive thaw slumps because (1) these landform features are more challenging to segment than manmade features due to their complicated formation mechanisms, diverse forms, and vague boundaries; (2) their presence and changes are important indicators for Arctic warming and climate change. The results show that although promising, SAM still has room for improvement to support AI-augmented terrain mapping. The spatial and domain generalizability of this finding is further validated using a more general dataset EuroCrop for agricultural field mapping. Finally, we discuss future research directions that strengthen SAM's applicability in challenging geospatial domains.

GeoAI in Social Science

GeoAI, or geospatial artificial intelligence, is an exciting new area that leverages artificial intelligence (AI), geospatial big data, and massive computing power to solve problems with high automation and intelligence. This paper reviews the progress of AI in social science research, highlighting important advancements in using GeoAI to fill critical data and knowledge gaps. It also discusses the importance of breaking down data silos, accelerating convergence among GeoAI research methods, as well as moving GeoAI beyond geospatial benefits.

Development of a Deep Learning Method to Identify Acute Ischemic Stroke Lesions on Brain CT

Computed Tomography (CT) is commonly used to image acute ischemic stroke (AIS) patients, but its interpretation by radiologists is time-consuming and subject to inter-observer variability. Deep learning (DL) techniques can provide automated CT brain scan assessment, but usually require annotated images. Aiming to develop a DL method for AIS using labelled but not annotated CT brain scans from patients with AIS, we designed a convolutional neural network-based DL algorithm using routinely-collected CT brain scans from the Third International Stroke Trial (IST-3), which were not acquired using strict research protocols. The DL model aimed to detect AIS lesions and classify the side of the brain affected. We explored the impact of AIS lesion features, background brain appearances, and timing on DL performance. From 5772 unique CT scans of 2347 AIS patients (median age 82), 54% had visible AIS lesions according to expert labelling. Our best-performing DL method achieved 72% accuracy for lesion presence and side. Lesions that were larger (80% accuracy) or multiple (87% accuracy for two lesions, 100% for three or more), were better detected. Follow-up scans had 76% accuracy, while baseline scans 67% accuracy. Chronic brain conditions reduced accuracy, particularly non-stroke lesions and old stroke lesions (32% and 31% error rates respectively). DL methods can be designed for AIS lesion detection on CT using the vast quantities of routinely-collected CT brain scan data. Ultimately, this should lead to more robust and widely-applicable methods.

Challenges of building medical image datasets for development of deep learning software in stroke

Despite the large amount of brain CT data generated in clinical practice, the availability of CT datasets for deep learning (DL) research is currently limited. Furthermore, the data can be insufficiently or improperly prepared for machine learning and thus lead to spurious and irreproducible analyses. This lack of access to comprehensive and diverse datasets poses a significant challenge for the development of DL algorithms. In this work, we propose a complete semi-automatic pipeline to address the challenges of preparing a clinical brain CT dataset for DL analysis and describe the process of standardising this heterogeneous dataset. Challenges include handling image sets with different orientations (axial, sagittal, coronal), different image types (to view soft tissues or bones) and dimensions, and removing redundant background. The final pipeline was able to process 5,868/10,659 (45%) CT image datasets. Reasons for rejection include non-axial data (n=1,920), bone reformats (n=687), separated skull base/vault images (n=1,226), and registration failures (n=465). Further format adjustments, including image cropping, resizing and scaling are also needed for DL processing. Of the axial scans that were not localisers, bone reformats or split brains, 5,868/6,333 (93%) were accepted, while the remaining 465 failed the registration process. Appropriate preparation of medical imaging datasets for DL is a costly and time-intensive process.

Assessment of IBM and NASA's geospatial foundation model in flood inundation mapping

Vision foundation models are a new frontier in GeoAI research because of their potential to enable powerful image analysis by learning and extracting important image features from vast amounts of geospatial data. This paper evaluates the performance of the first-of-its-kind geospatial foundation model, IBM-NASA's Prithvi, to support a crucial geospatial analysis task: flood inundation mapping. This model is compared with popular convolutional neural network and vision transformer-based architectures in terms of mapping accuracy for flooded areas. A benchmark dataset, Sen1Floods11, is used in the experiments, and the models' predictability, generalizability, and transferability are evaluated based on both a test dataset and a dataset that is completely unseen by the model. Results show the impressive transferability of the Prithvi model, highlighting its performance advantages in segmenting flooded areas in previously unseen regions. The findings also suggest areas for improvement for the Prithvi model in terms of adopting multi-scale representation learning, developing more end-to-end pipelines for high-level image analysis tasks, and offering more flexibility in terms of input data bands.

Real-time GeoAI for High-resolution Mapping and Segmentation of Arctic Permafrost Features

This paper introduces a real-time GeoAI workflow for large-scale image analysis and the segmentation of Arctic permafrost features at a fine-granularity. Very high-resolution (0.5m) commercial imagery is used in this analysis. To achieve real-time prediction, our workflow employs a lightweight, deep learning-based instance segmentation model, SparseInst, which introduces and uses Instance Activation Maps to accurately locate the position of objects within the image scene. Experimental results show that the model can achieve better accuracy of prediction at a much faster inference speed than the popular Mask-RCNN model.

Semantic Similarity Measure of Natural Language Text through Machine Learning and a Keyword-Aware Cross-Encoder-Ranking Summarizer -- A Case Study Using UCGIS GIS&T Body of Knowledge

Initiated by the University Consortium of Geographic Information Science (UCGIS), GIS&T Body of Knowledge (BoK) is a community-driven endeavor to define, develop, and document geospatial topics related to geographic information science and technologies (GIS&T). In recent years, GIS&T BoK has undergone rigorous development in terms of its topic re-organization and content updating, resulting in a new digital version of the project. While the BoK topics provide useful materials for researchers and students to learn about GIS, the semantic relationships among the topics, such as semantic similarity, should also be identified so that a better and automated topic navigation can be achieved. Currently, the related topics are either defined manually by editors or authors, which may result in an incomplete assessment of topic relationship. To address this challenge, our research evaluates the effectiveness of multiple natural language processing (NLP) techniques in extracting semantics from text, including both deep neural networks and traditional machine learning approaches. Besides, a novel text summarization - KACERS (Keyword-Aware Cross-Encoder-Ranking Summarizer) - is proposed to generate a semantic summary of scientific publications. By identifying the semantic linkages among key topics, this work provides guidance for future development and content organization of the GIS&T BoK project. It also offers a new perspective on the use of machine learning techniques for analyzing scientific publications, and demonstrate the potential of KACERS summarizer in semantic understanding of long text documents.

ACAT: Adversarial Counterfactual Attention for Classification and Detection in Medical Imaging

In some medical imaging tasks and other settings where only small parts of the image are informative for the classification task, traditional CNNs can sometimes struggle to generalise. Manually annotated Regions of Interest (ROI) are sometimes used to isolate the most informative parts of the image. However, these are expensive to collect and may vary significantly across annotators. To overcome these issues, we propose a framework that employs saliency maps to obtain soft spatial attention masks that modulate the image features at different scales. We refer to our method as Adversarial Counterfactual Attention (ACAT). ACAT increases the baseline classification accuracy of lesions in brain CT scans from 71.39% to 72.55% and of COVID-19 related findings in lung CT scans from 67.71% to 70.84% and exceeds the performance of competing methods. We investigate the best way to generate the saliency maps employed in our architecture and propose a way to obtain them from adversarially generated counterfactual images. They are able to isolate the area of interest in brain and lung CT scans without using any manual annotations. In the task of localising the lesion location out of 6 possible regions, they obtain a score of 65.05% on brain CT scans, improving the score of 61.29% obtained with the best competing method.

Explainable GeoAI: Can saliency maps help interpret artificial intelligence's learning process? An empirical study on natural feature detection

Improving the interpretability of geospatial artificial intelligence (GeoAI) models has become critically important to open the "black box" of complex AI models, such as deep learning. This paper compares popular saliency map generation techniques and their strengths and weaknesses in interpreting GeoAI and deep learning models' reasoning behaviors, particularly when applied to geospatial analysis and image processing tasks. We surveyed two broad classes of model explanation methods: perturbation-based and gradient-based methods. The former identifies important image areas, which help machines make predictions by modifying a localized area of the input image. The latter evaluates the contribution of every single pixel of the input image to the model's prediction results through gradient backpropagation. In this study, three algorithms-the occlusion method, the integrated gradients method, and the class activation map method-are examined for a natural feature detection task using deep learning. The algorithms' strengths and weaknesses are discussed, and the consistency between model-learned and human-understandable concepts for object recognition is also compared. The experiments used two GeoAI-ready datasets to demonstrate the generalizability of the research findings.