Machine learning and computer vision approaches for phenotypic profiling

BT Grys, DS Lo, N Sahin, OZ Kraus, Q Morris… - Journal of Cell …, 2017 - rupress.org
With recent advances in high-throughput, automated microscopy, there has been an
increased demand for effective computational strategies to analyze large-scale, image …

[HTML][HTML] Reproducible image-based profiling with Pycytominer

E Serrano, SN Chandrasekaran, D Bunten, KI Brewer… - ArXiv, 2023 - ncbi.nlm.nih.gov
Technological advances in high-throughput microscopy have facilitated the acquisition of
cell images at a rapid pace, and data pipelines can now extract and process thousands of …

Phenotypic image analysis software tools for exploring and understanding big image data from cell-based assays

K Smith, F Piccinini, T Balassa, K Koos, T Danka… - Cell systems, 2018 - cell.com
Phenotypic image analysis is the task of recognizing variations in cell properties using
microscopic image data. These variations, produced through a complex web of interactions …

[HTML][HTML] Data-analysis strategies for image-based cell profiling

JC Caicedo, S Cooper, F Heigwer, S Warchal, P Qiu… - Nature …, 2017 - nature.com
Image-based cell profiling is a high-throughput strategy for the quantification of phenotypic
differences among a variety of cell populations. It paves the way to studying biological …

Machine learning in cell biology–teaching computers to recognize phenotypes

C Sommer, DW Gerlich - Journal of cell science, 2013 - journals.biologists.com
Recent advances in microscope automation provide new opportunities for high-throughput
cell biology, such as image-based screening. High-complex image analysis tasks often …

Large-scale multi-class image-based cell classification with deep learning

N Meng, EY Lam, KK Tsia… - IEEE journal of biomedical …, 2018 - ieeexplore.ieee.org
Recent advances in ultra-high-throughput microscopy have enabled a new generation of
cell classification methodologies using image-based cell phenotypes alone. In contrast to …

Fast automated cell phenotype image classification

NA Hamilton, RS Pantelic, K Hanson, RD Teasdale - BMC bioinformatics, 2007 - Springer
Background The genomic revolution has led to rapid growth in sequencing of genes and
proteins, and attention is now turning to the function of the encoded proteins. In this respect …

Automatic identification of subcellular phenotypes on human cell arrays

C Conrad, H Erfle, P Warnat, N Daigle, T Lörch… - Genome …, 2004 - genome.cshlp.org
Light microscopic analysis of cell morphology provides a high-content readout of cell
function and protein localization. Cell arrays and microwell transfection assays on cultured …

Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning

TR Jones, AE Carpenter… - Proceedings of the …, 2009 - National Acad Sciences
Many biological pathways were first uncovered by identifying mutants with visible
phenotypes and by scoring every sample in a screen via tedious and subjective visual …

Artificial intelligence and cellular segmentation in tissue microscopy images

MS Durkee, R Abraham, MR Clark, ML Giger - The American journal of …, 2021 - Elsevier
With applications in object detection, image feature extraction, image classification, and
image segmentation, artificial intelligence is facilitating high-throughput analysis of image …