A locally-built, LLM-digested index of recent arXiv papers in quant finance, geometry/topology, and statistical ML — keyword search served straight from SQLite on this machine.
Cellina uses supervised disentanglement to predict cell behavior in tissues.
Deep network improves electrical tomography across multiple frequencies.
Personalization of cardiac models involves the optimization of organ tissue properties that vary spatially over the non-Euclidean geometry model of the heart. To represent the high-dimensional (HD) unknown of tissue properties, most existing works rely on a low-dimensional (LD) partitioning of the geometrical model. Wh…
Estimates target GGM using auxiliary studies with false discovery rate control.
Motivation: Understanding functions of proteins in specific human tissues is essential for insights into disease diagnostics and therapeutics, yet prediction of tissue-specific cellular function remains a critical challenge for biomedicine. Results: Here we present OhmNet, a hierarchy-aware unsupervised node feature le…
Gaussian graphical models are widely used to represent conditional dependence among random variables. In this paper, we propose a novel estimator for data arising from a group of Gaussian graphical models that are themselves dependent. A motivating example is that of modeling gene expression collected on multiple tissu…
Gene expression levels in a population vary extensively across tissues. Such heterogeneity is caused by genetic variability and environmental factors, and is expected to be linked to disease development. The abundance of experimental data now enables the identification of features of gene expression profiles that are s…
Machine learning classifies colorectal tissue using photoacoustic microscopy.
Model learns cancer tissue images onto a low-dimensional space revealing tissue characteristics.
Histopathological images of tumors contain abundant information about how tumors grow and how they interact with their micro-environment. Better understanding of tissue phenotypes in these images could reveal novel determinants of pathological processes underlying cancer, and in turn improve diagnosis and treatment opt…
Automatically classifying the tissues types of Region of Interest (ROI) in medical imaging has been an important application in Computer-Aided Diagnosis (CAD), such as classification of breast parenchymal tissue in the mammogram, classify lung disease patterns in High-Resolution Computed Tomography (HRCT) etc. Recently…
Universal model for soft tissue mechanics under shock waves.
Suppose one is faced with the challenge of tissue segmentation in MR images, without annotators at their center to provide labeled training data. One option is to go to another medical center for a trained classifier. Sadly, tissue classifiers do not generalize well across centers due to voxel intensity shifts caused b…
There is a growing need for fast and accurate methods for testing developmental neurotoxicity across several chemical exposure sources. Current approaches, such as in vivo animal studies, and assays of animal and human primary cell cultures, suffer from challenges related to time, cost, and applicability to human physi…
Local semi-supervised method improves brain tissue classification in child MRI.
The paper presents the application of Variational Autoencoders (VAE) for data dimensionality reduction and explorative analysis of mass spectrometry imaging data (MSI). The results confirm that VAEs are capable of detecting the patterns associated with the different tissue sub-types with performance than standard appro…
Applying deep learning methods to mammography assessment has remained a challenging topic. Dense noise with sparse expressions, mega-pixel raw data resolution, lack of diverse examples have all been factors affecting performance. The lack of pixel-level ground truths have especially limited segmentation methods in push…
Radio-frequency dosimetry is an important process in human safety and for compliance of related products. Recently, computational human models generated from medical images have often been used for such assessment, especially to consider the inter-variability of subjects. However, the common procedure to develop person…
Despite great advances, molecular cancer pathology is often limited to the use of a small number of biomarkers rather than the whole transcriptome, partly due to computational challenges. Here, we introduce a novel architecture of Deep Neural Networks (DNNs) that is capable of simultaneous inference of various properti…
Voxelwise classification approaches are popular and effective methods for tissue quantification in brain magnetic resonance imaging (MRI) scans. However, generalization of these approaches is hampered by large differences between sets of MRI scans such as differences in field strength, vendor or acquisition protocols. …
Novel method embeds generative model into Bayesian optimization for HD cardiac model parameter estimation.
Electromagnetic stimulation of the human brain is a key tool for the neurophysiological characterization and diagnosis of several neurological disorders. Transcranial magnetic stimulation (TMS) is one procedure that is commonly used clinically. However, personalized TMS requires a pipeline for accurate head model gener…
The development of personalized human head models from medical images has become an important topic in the electromagnetic dosimetry field, including the optimization of electrostimulation, safety assessments, etc. Human head models are commonly generated via the segmentation of magnetic resonance images into different…
Deep learning predicts tissue properties from cell-laden hydrogels.
An important part of Digital Pathology is the analysis of multiple digitised whole slide images from differently stained tissue sections. It is common practice to mount consecutive sections containing corresponding microscopic structures on glass slides, and to stain them differently to highlight specific tissue compon…
The curvature of web curves is studied in 3D manifolds.
Physics-Informed Neural Networks (PINNs) benchmarked against clinical estimator and reveal parameter identifiability
Surgeons normally need surgical scissors and tissue grippers to cut through a deformable surgical tissue. The cutting accuracy depends on the skills to manipulate these two tools. Such skills are part of basic surgical skills training as in the Fundamentals of Laparoscopic Surgery. The gripper is used to pinch a point …
EAGLE-Net enhances foundation models by integrating patch-level features for better tissue understanding.
Multiple sclerosis (MS) is an inflammatory demyelinating disease of the central nervous system (CNS) that results in focal injury to the grey and white matter. The presence of white matter lesions biases morphometric analyses such as registration, individual longitudinal measurements and tissue segmentation for brain v…
Automatization of the diagnosis of any kind of disease is of great importance and it's gaining speed as more and more deep learning solutions are applied to different problems. One of such computer aided systems could be a decision support too able to accurately differentiate between different types of breast cancer hi…
Ultrasound elastography is used to estimate the mechanical properties of the tissue by monitoring its response to an internal or external force. Different levels of deformation are obtained from different tissue types depending on their mechanical properties, where stiffer tissues deform less. Given two radio frequency…
Theory models nonlinear soft tissue elasticity and remodeling using extended Finsler geometry.
Single-cell RNA sequencing (scRNA-seq) has revolutionized biological discovery, providing an unbiased picture of cellular heterogeneity in tissues. While scRNA-seq has been used extensively to provide insight into both healthy systems and diseases, it has not been used for disease prediction or diagnostics. Graph Atten…
Over the last years, huge resources of biological and medical data have become available for research. This data offers great chances for machine learning applications in health care, e.g. for precision medicine, but is also challenging to analyze. Typical challenges include a large number of possibly correlated featur…
New method recovers relative rates in spatial compositional data from IMS.
Organ segmentation in CT volumes is an important pre-processing step in many computer assisted intervention and diagnosis methods. In recent years, convolutional neural networks have dominated the state of the art in this task. However, since this problem presents a challenging environment due to high variability in th…
Histopathology tissue samples are widely available in two states: paraffin-embedded unstained and non-paraffin-embedded stained whole slide RGB images (WSRI). Hematoxylin and eosin stain (H&E) is one of the principal stains in histology but suffers from several shortcomings related to tissue preparation, staining proto…
Purpose: Optical imaging is evolving as a key technique for advanced sensing in the operating room. Recent research has shown that machine learning algorithms can be used to address the inverse problem of converting pixel-wise multispectral reflectance measurements to underlying tissue parameters, such as oxygenation. …
We give a complete proof of the fact that the trace of the curvature of the connection associated to a planar d-web (d>3) is the sum of the Blaschke curvatures of its sub 3-webs.
AI enhances cancer diagnostics using spectroscopy.
Contrast enhanced ultrasound is a radiation-free imaging modality which uses encapsulated gas microbubbles for improved visualization of the vascular bed deep within the tissue. It has recently been used to enable imaging with unprecedented subwavelength spatial resolution by relying on super-resolution techniques. A t…
We present a deep learning framework for wide-field, content-aware estimation of absorption and scattering coefficients of tissues, called Generative Adversarial Network Prediction of Optical Properties (GANPOP). Spatial frequency domain imaging is used to obtain ground-truth optical properties from in vivo human hands…
Tissue heterogeneity is a major confounding factor in studying individual populations that cannot be resolved directly by global profiling. Experimental solutions to mitigate tissue heterogeneity are expensive, time consuming, inapplicable to existing data, and may alter the original gene expression patterns. Here we a…
Infrared spectra obtained from cell or tissue specimen have commonly been observed to involve a significant degree of (resonant) Mie scattering, which often overshadows biochemically relevant spectral information by a non-linear, non-additive spectral component in Fourier transformed infrared (FTIR) spectroscopic measu…
Aims to integrate AI and modelling for patient health forecasting.
Novel approach combines local and global brain changes for AD prediction.
Objective: In this work, we perform margin assessment of human breast tissue from optical coherence tomography (OCT) images using deep neural networks (DNNs). This work simulates an intraoperative setting for breast cancer lumpectomy. Methods: To train the DNNs, we use both the state-of-the-art methods (Weight Decay an…