New numerical methods for analyzing shapes of curves.
problem Discretization of Sobolev metrics on curve spaces.
method Developed algorithms for solving geodesic problems.
result Computed Karcher means and performed shape analysis.
On-device research index
arXiv research
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.
169,341 papers · 148 categories
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48 results for “HeLa cell nuclei”
In the recent years, Riemannian shape analysis of curves and surfaces has found several applications in medical image analysis. In this paper we present a numerical discretization of second order Sobolev metrics on the space of regular curves in Euclidean space. This class of metrics has several desirable mathematical …
New CNN approach detects cell nuclei with prior information.
problem Challenges in detecting cell nuclei due to image quality and morphology diversity.
method Develops SP-CNN with trainable shape prior layer to guide CNN learning.
result TSP-CNN outperforms state-of-the-art alternatives on challenging datasets.
Deep neural networks improve cancer nuclei classification and survival analysis.
problem Accurate cell nuclei classification for cancer diagnosis and survival analysis.
method Implementation and evaluation of deep neural network models and ensembles for nuclei classification in RCC and PCa.
result Convolutional neural network system based on residual learning significantly improves cell nuclei classification.
Enhanced nuclei detection in cell images using shape priors with CNNs.
problem Challenges in detecting cell nuclei due to image quality and diversity of nuclear morphology.
method Developed SP-CNN, a new network structure incorporating learnable and fixed components guided by canonical shapes and a new regularization term.
result Experimental results show SP-CNN is competitive or outperforms state-of-the-art methods for nuclei detection.
RCCNet simplifies CNN for efficient colon cancer nuclei classification.
problem Efficient and precise classification of histological cell nuclei for medical analysis.
method Proposes RCCNet, a simplified CNN architecture with 1.5M parameters.
result Achieved 80.61% accuracy and 0.7887 F1 score on CRCHistoPhenotypes dataset.
An algorithm reduces breast cancer detection data complexity using effect sizes.
problem Improving accuracy in breast cancer detection.
method Statistical feature selection and SVM classifier with linear kernel.
result SVM classifier achieved over 90% accuracy.
Proposes a new network to improve nuclei segmentation in histopathology images.
problem Challenges in separating overlapped nuclei in histopathology images.
method Introduces a bending loss regularized network to minimize contour points with large curvatures.
result Outperforms six state-of-the-art approaches on five quantitative metrics.
A deep learning framework segments deep cerebellar nuclei from 7T MRI, improving accuracy and consistency.
problem Challenging to accurately segment small deep cerebellar nuclei using standard MRI protocols.
method Proposes DCN-Net, a deep learning framework that encodes contextual information and handles imbalanced data.
result Improves segmentation accuracy and consistency compared to existing methods.
Deep object detection improves mitotic nucleus detection in breast cancer biopsies.
problem Challenges in automated mitotic nucleus detection in breast cancer histopathological images.
method Adapted Mask R-CNN for deep object detection, initially selects candidate regions with maximum recall, refines them with multi-object loss function.
result Improved discrimination ability (F-score of 0.86) and significant precision (0.86) for mitotic nuclei compared to two-stage models.
Automated Thalamic Nuclei Segmentation Using Multi-Planar Cascaded Convolutional Neural Networkseess.IV
Fast, accurate thalamus segmentation method for MS and ET.
problem Automated thalamic nuclei segmentation for neurological diseases.
method Cascaded multi-planar scheme with modified residual U-Net architecture.
result Statistically significant improvements in thalamus segmentation for MS and ET patients.
Generative Distribution Embeddings learn multiscale representations of distributions.
problem Learning representations of entire distributions for multiscale reasoning.
method Introducing GDE framework that lifts autoencoders to the space of distributions, using conditional generative models and distributional invariance.
result GDEs learn predictive sufficient statistics embedded in Wasserstein space, recovering distances and trajectories for Gaussian and Gaussian mixture distributions.
Neural network improves breast cancer diagnosis with high accuracy.
problem Improving accuracy in breast cancer diagnosis.
method Higher-order probabilistic perceptron (HOPP) model.
result HOPP model achieves up to 97% accuracy in classifying breast cancer tumors.
NuClick uses clicks inside nuclei to improve nuclear segmentation.
problem Lack of efficient tools for nuclear segmentation due to labor-intensive annotation.
method Convolutional neural network framework that uses single point clicks for nuclei segmentation.
result NuClick generates superior segmentation results and facilitates more annotations.
Generative Synthetic Augmentation using Label-to-Image Translation for Nuclei Image Segmentationcs.LG
This paper proposes synthetic augmentation for nuclei image segmentation in medical pathology.
problem Rare and time-consuming labeling of tumor nuclei images for semantic segmentation.
method Label-to-image translation to generate synthetic images.
result Synthetic augmentation improves segmentation accuracy.
Scale Equivariant U-Netstat.ML
Improves U-Net for scale equivariance in semantic segmentation.
problem Improving generalization in semantic segmentation tasks with varying scales.
method Introduces Scale Equivariant U-Net (SEU-Net) with carefully applied subsampling and upsampling layers and scale-equivariant layers.
result Significantly improved generalization to different scales compared to U-Net and scale-equivariant architecture without upsampling.
A deep learning framework separates overlapping nuclei in histology images.
problem Challenges in nuclear segmentation due to overlapping nuclei.
method Proposal-free spatially-aware deep learning framework with multi-scale spatial information.
result State-of-the-art performance in nuclear segmentation on a multi-organ data set.
Based on the work of Durhuus-J{ó}nsson and Benedetti-Ziegler, we revisit the question of the number of triangulations of the 3-ball. We introduce a notion of nucleus (a triangulation of the 3-ball without internal nodes, and with each internal face having at most 1 external edge). We show that every triangulation can b…
Manifold-Constrained Nucleus-Level Denoising Diffusion Model for Structure-Based Drug Designq-bio.QM
NucleusDiff models atomic nuclei interactions to prevent separation violations in drug design.
problem Maintaining minimum pairwise distance between atoms to avoid separation violations in drug design.
method Enforces distance constraint between atomic nuclei and manifolds in a diffusion model.
result Reduces separation violations by up to 100.00% and enhances binding affinity by up to 22.16%.
Set classification problems arise when classification tasks are based on sets of observations as opposed to individual observations. In set classification, a classification rule is trained with sets of observations, where each set is labeled with class information, and the prediction of a class label is performed a…
New findings show many 3-balls are not Mogami.
problem Determining if all 3-balls are Mogami.
method Characterized Mogami property in terms of nuclei.
result Many 3-balls are not Mogami.
Finding active galactic nuclei through Finkastro-ph.IM
Fink AGN classifier achieves high accuracy in classifying active galactic nuclei.
problem Classifying active galactic nuclei from astronomical data.
method Built features from photometric points and color estimation. Used active learning for optimized training sample. Applied traditional machine learning algorithms.
result Achieved 98.0% accuracy in classifying real alerts from ZTF.
In this note we show that there are 4-manifolds not containing Gompf nucleus ; in this way we answer Problem 4.98 of Kirby's problem list in the negative.
We introduce a new generalization of Gompf nuclei and give applications. We construct infinitely many exotic smooth structures for a large class of compact 4-manifolds with boundary, regarding topological invariants. We prove that a large class of closed 3-manifolds (including disjoint unions of Stein fillable 3-manifo…
The above named paper has been withdrawn. A colleague has observed a gap in the proof of isotopy invariance, which can be repaired by reducing the coefficients (which lie in (1/6)Z) of the antisymmetric kanji with chords incident with more than one component modulo 8Z. An analogous issue arises in considering the effec…
We consider few-body bound state systems and provide precise definitions of Borromean and Brunnian systems. The initial concepts are more than a hundred years old and originated in mathematical knot-theory as purely geometric considerations. About thirty years ago they were generalized and applied to the binding of sys…
Bayesian analysis predicts properties of proton-emitting nuclei beyond the proton drip line.
problem Predicting properties of unstable nuclei in the proton-rich region.
method Bayesian Gaussian processes and mass models corrected with statistical emulators.
result Quantified predictions for separation energies and probabilities of proton emission.
Coherent Patterns in Nuclei and in Financial Marketsphysics.data-an
In the area of traditional physics the atomic nucleus belongs to the most complex systems. It involves essentially all elements that characterize complexity including the most distinctive one whose essence is a permanent coexistence of coherent patterns and of randomness. From a more interdisciplinary perspective, thes…
Bayesian methods improve nuclear mass predictions for unstable nuclei.
problem Improving predictions of nuclear masses far from stability.
method Bayesian Gaussian processes and neural networks applied to 10 models.
result Significant reduction in rms deviation from experimental data.
UNet++ improves medical image segmentation with deep supervision.
problem Improving accuracy in medical image segmentation.
method Nested U-Net architecture with deep supervision.
result UNet++ achieves significant improvements in IoU scores.
Kernel testing compares cell states in single-cell data.
problem Comparing non-linear cell states in single-cell data.
method Kernel-based testing framework for non-linear distribution comparison.
result Identifies subtle population variations in cell states.
Framework detects and classifies multi-label RBC images from microscopic images.
problem Challenges in separating touching or overlapping cells for classification.
method Region proposal model + CNN feature extraction + multi-label prediction networks.
result Framework achieves good performance in automatic cell detection and classification.
Review of Single-cell RNA-seq Data Clustering for Cell Type Identification and Characterizationq-bio.GN
This study reviews and evaluates clustering methods for single-cell RNA-seq data.
problem Identifying and characterizing novel cell types from single-cell RNA-seq data.
method Review and performance comparison of clustering methods.
result Performance comparison experiments on two datasets.
Forest Fire Clustering discovers cell types from single-cell data.
problem Discovering cell types from large-scale single-cell sequencing data.
method Iterative label propagation and parallelized Monte Carlo simulation.
result Forest Fire Clustering outperforms state-of-the-art methods on diverse benchmarks.
Proposes CCCVAE for better single-cell clustering with cell-cell communication.
problem Improving single-cell RNA sequencing clustering by incorporating cell-cell communication.
method Integrates cell-cell communication into a variational autoencoder framework.
result Empirical results show CCCVAE outperforms standard VAEs in clustering performance.
Matching cells over time has long been the most difficult step in cell tracking. In this paper, we approach this problem by recasting it as a classification problem. We construct a feature set for each cell, and compute a feature difference vector between a cell in the current frame and a cell in a previous frame. Then…
Improved GPLVM model for single-cell RNA-seq data.
problem Lack of effective scalable models for clustering cell types in large-scale single-cell RNA-seq data.
method Introduces amortized stochastic variational Bayesian GPLVM (BGPLVM) tailored for single-cell RNA-seq.
result Matches the performance of scVI on synthetic and real-world datasets and reveals more interpretable latent structures.
Structures of optimal discrete gradient vector fields on surface with one or two critical cellsmath.DS
The study identifies all possible vector field structures on specific 2D shapes.
problem Optimal discrete gradient vector fields on surfaces with 1-2 critical cells.
method Analysis of discrete vector fields on 2D shapes with minimal critical cells.
result All possible structures of discrete Morse functions on specified shapes.
A new method infers neuronal cell types and their gene expression profiles from brain imaging data.
problem Lack of spatial information in single-cell RNA sequencing data.
method Spatial point process mixture model applied to in situ hybridization images.
result Inferred cell types and gene expression profiles validated with single-cell RNA sequencing data.
The paper explores constructing an invariant for s-move 3-cells using 2-cell decompositions.
problem Creating an invariant for s-move 3-cells.
method Using elementary 3-expansions and 2-cell decompositions, the paper constructs an invariant.
result The method provides a sequence of 2-cells to decompose s-move 3-cells.
New model identifies cell-specific genes for cancer prognosis.
problem No statistical model to integrate multiscale cancer data.
method Bayesian generalized promotion time cure models (GPTCMs).
result Improves cancer prognosis by identifying cell-specific genes.
MarkerMap selects key genes for cell type analysis in single-cell RNA-seq.
problem Selecting informative genes from large single-cell RNA-seq datasets is challenging and computationally intensive.
method MarkerMap is a generative model that identifies minimal gene sets explaining cell type variability.
result MarkerMap outperforms existing methods in both supervised and unsupervised marker selection.
Proposes CXNs for neural network computations on cell complexes.
problem Performing neural network computations on complex topological spaces.
method Introduces a message passing scheme and a unified encoder-decoder framework for cell complexes.
result Generalizes message passing to cell complexes and provides a cell2vec representation.
Newborn hippocampal cells in epilepsy are mostly abnormal, arising from a small subset of progenitors.
problem Understanding the origin of abnormal newborn hippocampal cells in epilepsy.
method Clonal analysis of Brainbow-labeled dentate granule cell progenitors in mice with status epilepticus.
result A small number of progenitors produce the majority of abnormal cells, suggesting pathological changes in progenitors or their microenvironments.
New metric scores perturbations across populations, not cells, improving model comparison.
problem Single-cell perturbation data overlaps, making per-cell accuracy unreliable.
method Average per-cell probability vectors over all cells of a perturbation to form a population profile and rank candidate perturbations.
result Classifier Discrimination Score (CDS) identifies true perturbation more reliably than pseudobulk-based scores.
The process of morphogenesis, which can be defined as an evolution of the form of an organism, is one of the most intriguing mysteries in the life sciences. It is clear, that gene expression patterns cannot explain the development of the precise geometry of an organism and its parts in space. Here, we suggest a set of …
NESS improves neighbor embedding for smooth cell-state transitions in single-cell data.
problem Challenges in extracting smooth, low-dimensional representations from noisy single-cell data.
method Builds on PCS framework to develop NESS, a stable machine learning approach.
result NESS consistently yields useful biological insights across diverse single-cell datasets.
Constructs a cell decomposition for the Fulton MacPherson operad FM_2.
problem Cellular decomposition of the Fulton MacPherson operad FM_2.
method Indexed by trees with two colors and cacti operad cells, compatible with operad composition.
result Computes generating functions for cell counts, algebraic.