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.
Improves spline quality and accuracy in computational microscopy.
Fluorescence microscopy has enabled a dramatic development in modern biology. Due to its inherently weak signal, fluorescence microscopy is not only much noisier than photography, but also presented with Poisson-Gaussian noise where Poisson noise, or shot noise, is the dominating noise source. To get clean fluorescence…
Deep learning improves 3D microscopy resolution without matched target images.
Convolutional neural networks (CNN) have achieved state of the art performance on both classification and segmentation tasks. Applying CNNs to microscopy images is challenging due to the lack of datasets labeled at the single cell level. We extend the application of CNNs to microscopy image classification and segmentat…
Method estimates section thickness and XY anisotropy in ssEM images.
We discuss recently emerging applications of the state-of-art deep learning methods on optical microscopy and microscopic image reconstruction, which enable new transformations among different modes and modalities of microscopic imaging, driven entirely by image data. We believe that deep learning will fundamentally ch…
Unified method for multi-defect microscopy image restoration with limited training data.
A dataset of 10 molecule types for machine learning studies.
Algorithm aligns 3D density maps using Wasserstein distance.
Machine learning classifies colorectal tissue using photoacoustic microscopy.
DISPR uses diffusion models to predict 3D cell shapes from 2D images.
Visualizing the details of different cellular structures is of great importance to elucidate cellular functions. However, it is challenging to obtain high quality images of different structures directly due to complex cellular environments. Fluorescence staining is a popular technique to label different structures but …
Machine learning speeds up FLIM analysis in biomedical research.
Deconvolution microscopy has been extensively used to improve the resolution of the widefield fluorescent microscopy. Conventional approaches, which usually require the point spread function (PSF) measurement or blind estimation, are however computationally expensive. Recently, CNN based approaches have been explored a…
Multi-StyleGAN simulates live cell microscopy imagery.
Malaria is a life-threatening disease affecting millions. Microscopy-based assessment of thin blood films is a standard method to (i) determine malaria species and (ii) quantitate high-parasitemia infections. Full automation of malaria microscopy by machine learning (ML) is a challenging task because field-prepared sli…
Single-molecule localization fluorescence microscopy constructs super-resolution images by sequential imaging and computational localization of sparsely activated fluorophores. Accurate and efficient fluorophore localization algorithms are key to the success of this computational microscopy method. We present a novel l…
New method extracts biological concepts from cell microscopy images.
Study improves pollen detection in optical and holographic images using deep learning.
Prototype for adaptive electron microscopy scans reduces dose and time.
UDVD uses deep learning to denoise videos without supervision.
A novel method detects multiple mitosis events and mitigates annotation gaps in phase-contrast microscopy.
AI enhances pollen recognition in veterinary imaging using holographic microscopy.
Cryo-electron microscopy (cryo-EM) is an emerging experimental method to characterize the structure of large biomolecular assemblies. Single particle cryo-EM records 2D images (so-called micrographs) of projections of the three-dimensional particle, which need to be processed to obtain the three-dimensional reconstruct…
The need for labour intensive pixel-wise annotation is a major limitation of many fully supervised learning methods for segmenting bioimages that can contain numerous object instances with thin separations. In this paper, we introduce a deep convolutional neural network for microscopy image segmentation. Annotation iss…
Bayesian calibration for BCP self-assembly models using image data and measure transport.
Develops statistical guarantees for image-to-image regression models.
Deep learning reduces artifacts in limited angle X-ray microscopy.
New method separates objects from images using deep neural networks trained to inpaint.
This research uses Siamese networks to identify partial mouse brain images from the Allen atlas.
Memory-efficient learning for large-scale imaging systems.
Few-shot cell segmentation from diverse sources to target domain.
Local minimax analysis for Poisson deconvolution of discrete signals.
With super-resolution optical microscopy, it is now possible to observe molecular interactions in living cells. The obtained images have a very high spatial precision but their overall quality can vary a lot depending on the structure of interest and the imaging parameters. Moreover, evaluating this quality is often di…
Four-dimensional scanning transmission electron microscopy (4D-STEM) of local atomic diffraction patterns is emerging as a powerful technique for probing intricate details of atomic structure and atomic electric fields. However, efficient processing and interpretation of large volumes of data remain challenging, especi…
This paper studies a new Bayesian algorithm for the joint reconstruction and classification of reflectance confocal microscopy (RCM) images, with application to the identification of human skin lentigo. The proposed Bayesian approach takes advantage of the distribution of the multiplicative speckle noise affecting the …
A central problem in neuroscience is reconstructing neuronal circuits on the synapse level. Due to a wide range of scales in brain architecture such reconstruction requires imaging that is both high-resolution and high-throughput. Existing electron microscopy (EM) techniques possess required resolution in the lateral p…
Improved self-supervised denoising for Poisson-Gaussian noise.
Pseudo links have two crossing types: classical crossings and indeterminate crossings. They were first introduced by Ryo Hanaki as a possible tool for analyzing images produced by electron microscopy of DNA. A normalized bracket polynomial is defined for pseudo links and then used to construct and obstruction to cosmet…
New method for analyzing complex data spaces.
Deep learning automates bacterial image classification.
DPI quantifies phase differences in 1D and multidimensional signals using Riesz transform.
Scanning Transmission Electron Microscopy (STEM) has become the main stay for materials characterization on atomic level, with applications ranging from visualization of localized and extended defects to mapping order parameter fields. In the last several years, attention was attracted by potential of STEM to explore b…
The development of machine learning systems for the diagnosis of rare diseases is challenging mainly due the lack of data to study them. Despite this challenge, this paper proposes a system for the Computer Aided Diagnosis (CAD) of low-prevalence, congenital muscular dystrophies from confocal microscopy images. The pro…
DVNet efficiently segments large neurovascular datasets using skip connections.
A new snake model improves segmentation of SEM images.
Due to concerns about human error in crowdsourcing, it is standard practice to collect labels for the same data point from multiple internet workers. We here show that the resulting budget can be used more effectively with a flexible worker assignment strategy that asks fewer workers to analyze easy-to-label data and m…
Super-resolution fluorescence microscopy, with a resolution beyond the diffraction limit of light, has become an indispensable tool to directly visualize biological structures in living cells at a nanometer-scale resolution. Despite advances in high-density super-resolution fluorescent techniques, existing methods stil…