RT Journal Article
SR Electronic
T1 Cell Painting, an image-based assay for morphological profiling
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 049817
DO 10.1101/049817
A1 Mark-Anthony Bray
A1 Shantanu Singh
A1 Han Han
A1 Chadwick T. Davis
A1 Blake Borgeson
A1 Cathy Hartland
A1 Maria Kost-Alimova
A1 Sigrun M. Gustafsdottir
A1 Christopher C. Gibson
A1 Anne E. Carpenter
YR 2016
UL http://biorxiv.org/content/early/2016/04/25/049817.abstract
AB In morphological profiling, quantitative data are extracted from microscopy images of cells to identify biologically relevant similarities and differences among samples based on these profiles. This protocol describes the design and execution of experiments using Cell Painting, a morphological profiling assay multiplexing six fluorescent dyes imaged in five channels, to reveal eight broadly relevant cellular components or organelles. Automated image analysis software identifies individual cells and measures ~1,500 morphological features (various measures of size, shape, texture, intensity, etc.) to produce a rich profile suitable for detecting subtle phenotypes. Profiles of cell populations treated with different experimental perturbations can be compared to suit many goals, such as identifying the phenotypic impact of chemical or genetic perturbations, grouping compounds and/or genes into functional pathways, and identifying signatures of disease. Cell culture and image acquisition takes 2 weeks; feature extraction and data analysis take an additional 1-2 weeks.