AIMC Topic: Endoplasmic Reticulum
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Spatial patterns of hepatocyte glucose flux revealed by stable isotope tracing and multi-scale microscopy.
Nature communications
Jul 1, 2025
Metabolic homeostasis requires engagement of catabolic and anabolic pathways consuming nutrients that generate and consume energy and biomass. Our current understanding of cell homeostasis and metabolism, including how cells utilize nutrients, comes ...
Single Molecule Localization Super-resolution Dataset for Deep Learning with Paired Low-resolution Images.
Scientific data
Apr 23, 2025
Deep learning super-resolution microscopy has advanced rapidly in recent years. Super-resolution images acquired by single molecule localization microscopy (SMLM) are ideal sources for high-quality datasets. However, the scarcity of public datasets l...
Computational Fuzzy Modelling Approach to Analyze Neuronal Calcium Dynamics With Intracellular Fluxes.
Cell biochemistry and biophysics
Oct 7, 2024
Mathematical neuroscience investigates how calcium distribution in nerve cells affects the neurological system. The interaction of numerous systems is necessary for the operation of several cellular processes in neuron cells, such as calcium, buffer,...
DeepmRNALoc: A Novel Predictor of Eukaryotic mRNA Subcellular Localization Based on Deep Learning.
Molecules (Basel, Switzerland)
Mar 1, 2023
The subcellular localization of messenger RNA (mRNA) precisely controls where protein products are synthesized and where they function. However, obtaining an mRNA's subcellular localization through wet-lab experiments is time-consuming and expensive,...
Deep neural network automated segmentation of cellular structures in volume electron microscopy.
The Journal of cell biology
Dec 5, 2022
Volume electron microscopy is an important imaging modality in contemporary cell biology. Identification of intracellular structures is a laborious process limiting the effective use of this potentially powerful tool. We resolved this bottleneck with...
DeepContact: High-throughput quantification of membrane contact sites based on electron microscopy imaging.
The Journal of cell biology
Aug 5, 2022
Membrane contact site (MCS)-mediated organelle interactions play essential roles in the cell. Quantitative analysis of MCSs reveals vital clues for cellular responses under various physiological and pathological conditions. However, an efficient tool...
VGG-UNet/VGG-SegNet Supported Automatic Segmentation of Endoplasmic Reticulum Network in Fluorescence Microscopy Images.
Scanning
Jun 8, 2022
This research work aims to implement an automated segmentation process to extract the endoplasmic reticulum (ER) network in fluorescence microscopy images (FMI) using pretrained convolutional neural network (CNN). The threshold level of the raw FMT i...
Super resolution microscopy and deep learning identify Zika virus reorganization of the endoplasmic reticulum.
Scientific reports
Dec 1, 2020
The endoplasmic reticulum (ER) is a complex subcellular organelle composed of diverse structures such as tubules, sheets and tubular matrices. Flaviviruses such as Zika virus (ZIKV) induce reorganization of ER membranes to facilitate viral replicatio...
Machine-learning assisted confocal imaging of intracellular sites of triglycerides and cholesteryl esters formation and storage.
Analytica chimica acta
May 3, 2020
All living systems are maintained by a constant flux of metabolic energy and, among the different reactions, the process of lipids storage and lipolysis is of fundamental importance. Current research has focused on the investigation of lipid droplets...
ilastik: interactive machine learning for (bio)image analysis.
Nature methods
Sep 30, 2019
We present ilastik, an easy-to-use interactive tool that brings machine-learning-based (bio)image analysis to end users without substantial computational expertise. It contains pre-defined workflows for image segmentation, object classification, coun...
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