Semantic

The value of accurate protein structural models closely conforming to the experimental data is indisputable. DREAMweb deploys an improved DREAM algorithm, DREAMv2, that incorporates a tighter bound in the constraint set of the underlying optimization approach. This reduces the artifacts while modeling the protein structure by solving the distance-geometry problem. DREAMv2 follows a bottom-up strategy of building smaller substructures for regions with a larger concentration of experimental bounds and consolidating them before modeling the rest of the protein structure...

The root is an important organ for plants to obtain nutrients and water, and its phenotypic characteristics are closely related to its functions. Deep-learning-based high-throughput in situ root senescence feature extraction has not yet been published. In light of this, this paper suggests a technique based on the transformer neural network for retrieving cotton's in situ root senescence properties. High-resolution in situ root pictures with various levels of senescence are the main subject of the investigation...

Nowadays there are multiple ways to perceive music, from attending concerts (live) to listening to recorded music through headphones (medial). In between there are many mixed modes, such as playback performances. In empirical music research, this plurality of performance forms has so far found little recognition. Until now no measuring instrument has existed that could adequately capture the differences in perception and aesthetic judgment. The purpose of our empirical investigation was to capture all dimensions relevant to such an assessment...

Left Ventricular Assist Devices (LVADs) are increasingly used as long-term implantation therapy for advanced heart failure patients, where candidacy assessment is crucial for successful treatment and recovery. A Deep Learning system based on Electrocardiogram (ECG) diagnoses criteria to stratify candidacy is proposed, implementing multi-model processing, interpretability, and uncertainty estimation. The approach includes beat segmentation for single-lead classification, 12-lead analysis, and semantic segmentation, achieving state-of-the-art results on the classification evaluation of each model, with multilabel average AUC results of 0...

This review is based on a conference presented in June 2023. Its main objective is to explain the cognitive differences between humans and non-human primates (NHPs) focusing on characteristics of their brains. It is based on the opinion of a clinical neurologist and does not intend to go beyond an overview of this complex topic. As language is the main characteristic differentiating humans from NHPs, this review is targeted at their brain networks related to language. NHPs have rudimentary forms of language, including primitive lexical/semantic signs...

BACKGROUND: Combining conventional radiomics models with deep learning features can result in superior performance in predicting the prognosis of patients with tumors; however, this approach has never been evaluated for the prediction of metachronous distant metastasis (MDM) among patients with retroperitoneal leiomyosarcoma (RLS). Thus, the purpose of this study was to develop and validate a preoperative contrast-enhanced computed tomography (CECT)-based deep learning radiomics model for predicting the occurrence of MDM in patients with RLS undergoing complete surgical resection...

BACKGROUND: Text summarization is a challenging problem in Natural Language Processing, which involves condensing the content of textual documents without losing their overall meaning and information content, In the domain of bio-medical research, summaries are critical for efficient data analysis and information retrieval. While several bio-medical text summarizers exist in the literature, they often miss out on an essential text aspect: text semantics. RESULTS: This paper proposes a novel extractive summarizer that preserves text semantics by utilizing bio-semantic models...

Building trustworthy and transparent image-based medical artificial intelligence (AI) systems requires the ability to interrogate data and models at all stages of the development pipeline, from training models to post-deployment monitoring. Ideally, the data and associated AI systems could be described using terms already familiar to physicians, but this requires medical datasets densely annotated with semantically meaningful concepts. In the present study, we present a foundation model approach, named MONET (medical concept retriever), which learns how to connect medical images with text and densely scores images on concept presence to enable important tasks in medical AI development and deployment such as data auditing, model auditing and model interpretation...

Multilayer networks composed of intralayer edges and interlayer edges are an important type of complex networks. Considering the heterogeneity of nodes and edges, it is necessary to design more reasonable and diverse community detection methods for multilayer networks. Existing research on community detection in multilayer networks mainly focuses on multiplexing networks (where the nodes are homogeneous and the edges are heterogeneous), but few studies have focused on heterogeneous multilayer networks where both nodes and edges represent different semantics...

Construction waste is unavoidable in the process of urban development, causing serious environmental pollution. Accurate assessment of municipal construction waste generation requires building construction waste identification models using deep learning technology. However, this process requires high-quality public datasets for model training and validation. This study utilizes Google Earth and GF-2 images as the data source to construct a specific dataset of construction waste landfills in the Changping and Daxing districts of Beijing, China...

The morphological analysis and volume measurement of the hippocampus are crucial to the study of many brain diseases. Therefore, an accurate hippocampal segmentation method is beneficial for the development of clinical research in brain diseases. U-Net and its variants have become prevalent in hippocampus segmentation of Magnetic Resonance Imaging(MRI) due to their effectiveness, and the architecture based on Transformer has also received some attention. However, some existing methods focus too much on the shape and volume of the hippocampus rather than its spatial information, and the extracted information is independent of each other, ignoring the correlation between local and global features...

The recent prevalence of deep neural networks has led semantic segmentation networks to achieve human-level performance in the medical field, provided they are given sufficient training data. However, these networks often fail to generalize when tasked with creating semantic maps for out-of-distribution images, necessitating re-training on new distributions. This labor-intensive process requires expert knowledge for generating training labels. In the medical field, distribution shifts can naturally occur due to the choice of imaging devices, such as MRI or CT scanners...

Large-scale digital whole slide image (WSI) datasets analysis have gained significant attention in computer-aided cancer diagnosis. Content-based histopathological image retrieval (CBHIR) is a technique that searches a large database for data samples matching input objects in both details and semantics, offering relevant diagnostic information to pathologists. However, the current methods are limited by the difficulty of gigapixels, the variable size of WSIs, and the dependence on manual annotations. In this work, we propose a novel histopathology language-image representation learning framework for fine-grained digital pathology cross-modal retrieval, which utilizes paired diagnosis reports to learn fine-grained semantics from the WSI...

BACKGROUND AND OBJECTIVES: Elevated levels of Alzheimer disease (AD) blood-based biomarkers are associated with accelerated cognitive decline. However, their distinct relationships with specific cognitive and functional domains require further investigation. We aimed at estimating the associations between AD blood-based biomarkers and the trajectories of distinct cognitive and functional domains over a 5-year follow-up period. METHODS: We conducted a clinic-based prospective study using data from the MEMENTO study, a nationwide French cohort...

Digitalization of large-scale urban scenes (in particular buildings) has been a long-standing open problem, which attributes to the challenges in data acquisition, such as incomplete scene coverage, lack of semantics, low efficiency, and low reliability in path planning. In this paper, we address these challenges in urban building reconstruction from aerial images, and we propose an effective workflow and a few novel algorithms for efficient 3D building instance proxy reconstruction for large urban scenes. Specifically, we propose a novel learning-based approach to instance segmentation of urban buildings from aerial images followed by a voting-based algorithm to fuse the multi-view instance information to a sparse point cloud (reconstructed using a standard Structure from Motion pipeline)...

Scene Graph Generation (SGG) aims to detect visual relationships in an image. However, due to long-tailed bias, SGG is far from practical. Most methods depend heavily on the assistance of statistics co-occurrence to generate a balanced dataset, so they are dataset-specific and easily affected by noises. The fundamental cause is that SGG is simplified as a classification task instead of a reasoning task, thus the ability capturing the fine-grained details is limited and the difficulty in handling ambiguity is increased...

Deep cross-modal hashing retrieval has recently made significant progress. However, existing methods generally learn hash functions with pairwise or triplet supervisions, which involves learning the relevant information by splicing partial similarity between data pairs; notably, this approach only captures the data similarity locally and incompletely, resulting in sub-optimal retrieval performance. In this paper, we propose a novel Multi-Relational Deep Hashing (MRDH) approach, which can fully bridge the modality gap by comprehensively modeling the similarity relationship between data in different modalities...

BACKGROUND: Despite a pervasive cortico-centric view in cognitive neuroscience, subcortical structures including the thalamus have been shown to be increasingly involved in higher cognitive functions. Previous structural and functional imaging studies demonstrated cortico-thalamo-cortical loops which may support various cognitive functions including language. However, large-scale functional connectivity of the thalamus during language tasks has not been examined before. METHODS: The present study employed meta-analytic connectivity modeling to identify language-related coactivation patterns of the left and right thalami...

Background: Childhood obesity is one of the most serious public health epidemics of the 21st century. Observational studies report that increases in portion size (PS) have occurred in parallel with levels of obesity. Increased PSs of high-energy-dense foods can promote overeating, and without compensatory behaviours, can contribute to childhood obesity. Caregivers make decisions about PSs for children in the home and nursery environment, thus are gatekeepers to child food intake. Understanding caregiver PS decisions can aid in the best practice of PS provision to young children...

Detecting emergency aircraft landing sites is crucial for ensuring passenger and crew safety during unexpected forced landings caused by factors like engine malfunctions, adverse weather, or other aviation emergencies. In this article, we present a dataset consisting of Google Maps images with their corresponding masks, specifically crafted with manual annotations of emergency aircraft landing sites, distinguishing between safe areas with suitable conditions for emergency landings and unsafe areas presenting hazardous conditions...