AIMC Topic: Organoids
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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...
Network-based machine learning in colorectal and bladder organoid models predicts anti-cancer drug efficacy in patients.
Nature communications
Oct 30, 2020
Cancer patient classification using predictive biomarkers for anti-cancer drug responses is essential for improving therapeutic outcomes. However, current machine-learning-based predictions of drug response often fail to identify robust translational...
OrganoidTracker: Efficient cell tracking using machine learning and manual error correction.
PloS one
Oct 22, 2020
Time-lapse microscopy is routinely used to follow cells within organoids, allowing direct study of division and differentiation patterns. There is an increasing interest in cell tracking in organoids, which makes it possible to study their growth and...
Review of Artificial Intelligence Applications and Algorithms for Brain Organoid Research.
Interdisciplinary sciences, computational life sciences
Aug 24, 2020
The human brain organoid is a miniature three-dimensional tissue culture that can simulate the structure and function of the brain in an in vitro culture environment. Although we consider that human brain organoids could be used to understand brain d...
CytoCensus, mapping cell identity and division in tissues and organs using machine learning.
eLife
May 19, 2020
A major challenge in cell and developmental biology is the automated identification and quantitation of cells in complex multilayered tissues. We developed CytoCensus: an easily deployed implementation of supervised machine learning that extends conv...
Organoids
Cell Division
Tissue Culture Techniques
Time-Lapse Imaging
Microscopy, Video
Animals, Genetically Modified
Automation
Drosophila melanogaster
Larva
Time Factors
Image Processing, Computer-Assisted
Mice
Female
Machine Learning
Mutation
Reproducibility of Results
Phenotype
Retina
Animals
Brain
Zebrafish
Male
Embryo, Mammalian
Machine learning-assisted neurotoxicity prediction in human midbrain organoids.
Parkinsonism & related disorders
May 8, 2020
INTRODUCTION: Brain organoids are highly complex multi-cellular tissue proxies, which have recently risen as novel tools to study neurodegenerative diseases such as Parkinson's disease (PD). However, with increasing complexity of the system, usage of...
OrgaQuant: Human Intestinal Organoid Localization and Quantification Using Deep Convolutional Neural Networks.
Scientific reports
Aug 28, 2019
Organoid cultures are proving to be powerful in vitro models that closely mimic the cellular constituents of their native tissue. Organoids are typically expanded and cultured in a 3D environment using either naturally derived or synthetic extracellu...
A high-throughput screening and computation platform for identifying synthetic promoters with enhanced cell-state specificity (SPECS).
Nature communications
Jun 28, 2019
Cell state-specific promoters constitute essential tools for basic research and biotechnology because they activate gene expression only under certain biological conditions. Synthetic Promoters with Enhanced Cell-State Specificity (SPECS) can be supe...
Epigenetic Heritability of Cell Plasticity Drives Cancer Drug Resistance through a One-to-Many Genotype-to-Phenotype Paradigm.
Cancer research
Aug 1, 2025
UNLABELLED: Cancer drug resistance is multifactorial, driven by heritable (epi)genetic changes but also by phenotypic plasticity. In this study, we dissected the drivers of resistance by perturbing organoids derived from patients with colorectal canc...
Development of an AI model for DILI-level prediction using liver organoid brightfield images.
Communications biology
Jun 7, 2025
AI image processing techniques hold promise for clinical applications by enabling analysis of complex status information from cells. Importantly, real-time brightfield imaging has advantages of informativeness, non-destructive nature, and low cost ov...
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