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.
TACOMA improves cancer biomarker validation by incorporating deep features.
Datasets with hundreds to tens of thousands features is the new norm. Feature selection constitutes a central problem in machine learning, where the aim is to derive a representative set of features from which to construct a classification (or prediction) model for a specific task. Our experimental study involves micro…
Study uses NMF to reduce cancer microarray data dimensions.
Class prediction is an important application of microarray gene expression data analysis. The high-dimensionality of microarray data, where number of genes (variables) is very large compared to the number of samples (obser- vations), makes the application of many prediction techniques (e.g., logistic regression, discri…
New biclustering algorithms for microarray data using Formal Concept Analysis.
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…
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…
The classification of multi-class microarray datasets is a hard task because of the small samples size in each class and the heavy overlaps among classes. To effectively solve these problems, we propose novel Error Correcting Output Code (ECOC) algorithm by Enhance Class Separability related Data Complexity measures du…
Machine learning classifies colorectal tissue using photoacoustic microscopy.
PathologyGAN learns deep representations of cancer tissue images.
Model learns cancer tissue images onto a low-dimensional space revealing tissue characteristics.
In this work a new way to calculate the multivariate joint entropy is presented. This measure is the basis for a fast information-theoretic based evaluation of gene relevance in a Microarray Gene Expression data context. Its low complexity is based on the reuse of previous computations to calculate current feature rele…
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…
A new method reduces computational cost for gene expression inference in large microarray data sets.
Clustering analysis is one of the most widely used statistical tools in many emerging areas such as microarray data analysis. For microarray and other high-dimensional data, the presence of many noise variables may mask underlying clustering structures. Hence removing noise variables via variable selection is necessary…
We propose a modification of linear discriminant analysis, referred to as compressive regularized discriminant analysis (CRDA), for analysis of high-dimensional datasets. CRDA is specially designed for feature elimination purpose and can be used as gene selection method in microarray studies. CRDA lends ideas from $\el…
A new method for brain tissue segmentation across medical centers using a smoothness prior.
Accumulation of standardized data collections is opening up novel opportunities for holistic characterization of genome function. The limited scalability of current preprocessing techniques has, however, formed a bottleneck for full utilization of contemporary microarray collections. While short oligonucleotide arrays …
Magnitude-based features capture interactions between different entities in multispecies spatial data.
Cellina uses supervised disentanglement to predict cell behavior in tissues.
2D tissue model predicts neurotoxicity more accurately and robustly.
Universal model for soft tissue mechanics under shock waves.
Study uses deep learning to quickly estimate tissue properties for personalized radio-frequency dosimetry.
Paper presents IPRC for robust tumor recognition using sparse representation.
Next-generation sequencing technologies provide a revolutionary tool for generating gene expression data. Starting with a fixed RNA sample, they construct a library of millions of differentially abundant short sequence tags or "reads", which constitute a fundamentally discrete measure of the level of gene expression. A…
A deep learning method automates tensioning for surgical tissue cutting.
Study improves cancer classification using gene selection and projection methods.
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…
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…
One of the objectives of designing feature selection learning algorithms is to obtain classifiers that depend on a small number of attributes and have verifiable future performance guarantees. There are few, if any, approaches that successfully address the two goals simultaneously. Performance guarantees become crucial…
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. …
New deep learning model generates accurate personalized human head models for electromagnetic dosimetry.
Novel method embeds generative model into Bayesian optimization for HD cardiac model parameter estimation.
Probe-level models have led to improved performance in microarray studies but the various sources of probe-level contamination are still poorly understood. Data-driven analysis of probe performance can be used to quantify the uncertainty in individual probes and to highlight the relative contribution of different noise…
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…
Deep network improves electrical tomography across multiple frequencies.
Paper proposes a neural network for estimating brain conductivity without segmentation.
The curvature of web curves is studied in 3D manifolds.
Microarray cancer gene expression data comprise of very high dimensions. Reducing the dimensions helps in improving the overall analysis and classification performance. We propose two hybrid techniques, Biogeography - based Optimization - Random Forests (BBO - RF) and BBO - SVM (Support Vector Machines) with gene ranki…
New scoring rule predicts causal relations from data with selection bias.
A new deep learning method for tissue-cleared image registration.
Physics-Informed Neural Networks (PINNs) benchmarked against clinical estimator and reveal parameter identifiability
Bayesian optimization on cardiac models using a graph convolutional VAE.
Improves convex biclustering for high-dimensional data.
A clustering algorithm uses the left Gram matrix for high dimensional data.