Related papers: A Part-to-Whole Circular Cell Explorer
Cell detection is the task of detecting the approximate positions of cell centroids from microscopy images. Recently, convolutional neural network-based approaches have achieved promising performance. However, these methods require a…
Automatic analysis of spatio-temporal microscopy images is inevitable for state-of-the-art research in the life sciences. Recent developments in deep learning provide powerful tools for automatic analyses of such image data, but heavily…
Complex systems are fascinating because their rich macroscopic properties emerge from the interaction of many simple parts. Understanding the building principles of these emergent phenomena in nature requires assessing natural complex…
Cataloging the neuronal cell types that comprise circuitry of individual brain regions is a major goal of modern neuroscience and the BRAIN initiative. Single-cell RNA sequencing can now be used to measure the gene expression profiles of…
Digital whole-slide images of pathological tissue samples have recently become feasible for use within routine diagnostic practice. These gigapixel sized images enable pathologists to perform reviews using computer workstations instead of…
When it is polarised, a cell develops an asymmetric distribution of specific molecular markers, cytoskeleton and cell membrane shape. Polarisation can occur spontaneously or be triggered by external signals, like gradients of signalling…
Synaptic Transmission is a multiscale process, revealed by various approaches, going from the molecular to the cellular level. This correspondence points out to our recent contributions in this field. We now provide the physical and…
Spatial Transcriptomics (ST) enables the measurement of gene expression while preserving spatial information, offering critical insights into tissue architecture and disease pathology. Recent developments have explored the use of…
Solving inverse problems in natural sciences often requires a search pro- cess to find explanatory models that match collected field data. Inverse problems are often under-determined meaning that there are many poten- tial explanatory…
A growing number of efforts aim to understand what people see when using a visualization. These efforts provide scientific grounding to complement design intuitions, leading to more effective visualization practice. However, published…
Signal transduction and cell function are governed by the spatiotemporal organization of membrane-associated molecules. Despite significant advances in visualizing molecular distributions by 3D light microscopy, cell biologists still have…
Spatial transcriptomics clustering is pivotal for identifying cell subpopulations by leveraging spatial location information. While recent graph-based methods modeling cell-cell interactions have improved clustering accuracy, they remain…
Visual localization is a useful alternative to standard localization techniques. It works by utilizing cameras. In a typical scenario, features are extracted from captured images and compared with geo-referenced databases. Location…
The role of direct cell-to-cell spread in viral infections - where virions spread between host and susceptible cells without needing to be secreted into the extracellular environment - has come to be understood as essential to the dynamics…
Cell tracking enables data extraction from time-lapse "cell movies" and promotes modeling biological processes at the single-cell level. We introduce a new fully automated computational strategy to track accurately cells across frames in…
Spatial transcriptomics data analysis integrates cellular transcriptional activity with spatial coordinates to identify spatial domains, infer cell-type dynamics, and characterize gene expression patterns within tissues. Despite recent…
In this paper, we describe a Graphical User Interface (GUI) designed to manage large quantities of image data of a biological system. After setting the design requirements for the system, we developed an ecology quantification GUI that…
The pathway is a biological term that refers to a series of interactions between molecules in a cell that causes a certain product or a change in the cell. Pathway analysis is a powerful method for gene expression analysis. Through pathway…
Spatial transcriptomics (ST) is essential for understanding diseases and developing novel treatments. It measures gene expression of each fine-grained area (i.e., different windows) in the tissue slide with low throughput. This paper…
High-throughput screening using cell images is an efficient method for screening new candidates for pharmaceutical drugs. To complete the screening process, it is essential to have an efficient process for analyzing cell images. This paper…