title: An automated assay for the assessment of cardiac arrest in fish embryo.
abstract: Studies on fish embryo models are widely developed in research. They are used in several research fields including drug discovery or environmental toxicology. In this article, we propose an entirely automated assay to detect cardiac arrest in Medaka (Oryzias latipes) based on image analysis. We propose a multi-scale pipeline based on mathematical morphology. Starting from video sequences of entire wells in 24-well plates, we focus on the embryo, detect its heart, and ascertain whether or not the heart is beating based on intensity variation analysis. Our image analysis pipeline only uses commonly available operators. It has a low computational cost, allowing analysis at the same rate as acquisition. From an initial dataset of 3192 videos, 660 were discarded as unusable (20.7%), 655 of them correctly so (99.25%) and only 5 incorrectly so (0.75%). The 2532 remaining videos were used for our test. On these, 45 errors were made, leading to a success rate of 98.23%.
authors.affiliation: Université Paris-Est, LIGM (UMR 8049), CNRS, ENPC, ESIEE, UPEM, 2 Boulevard Blaise Pascal, 93162 Noisy-le-Grand, France. Electronic address: elodie.puybareau@esiee.fr.
authors.forename: Elodie
authors.initials: E
authors.lastname: Puybareau
authors.affiliation: Université Paris-Est, LIGM (UMR 8049), CNRS, ENPC, ESIEE, UPEM, 2 Boulevard Blaise Pascal, 93162 Noisy-le-Grand, France; L'OREAL Research & Innovation, Aulnay sous Bois, France. Electronic address: dgenest@rd.loreal.com.
authors.forename: Diane
authors.initials: D
authors.lastname: Genest
authors.affiliation: L'OREAL Research & Innovation, Aulnay sous Bois, France.
authors.forename: Emilie
authors.initials: E
authors.lastname: Barbeau
authors.affiliation: L'OREAL Research & Innovation, Aulnay sous Bois, France.
authors.forename: Marc
authors.initials: M
authors.lastname: Léonard
authors.affiliation: Université Paris-Est, LIGM (UMR 8049), CNRS, ENPC, ESIEE, UPEM, 2 Boulevard Blaise Pascal, 93162 Noisy-le-Grand, France.
authors.forename: Hugues
authors.initials: H
authors.lastname: Talbot
mesh_terms: D000818:Animals; D005318:Fetal Heart / Q000000981:diagnostic imaging* / Q000473:pathology; D006323:Heart Arrest / Q000000981:diagnostic imaging* / Q000196:embryology* / Q000473:pathology; D007090:Image Interpretation, Computer-Assisted / Q000379:methods*; D000069550:Machine Learning; D009990:Oryzias / Q000196:embryology*; D010363:Pattern Recognition, Automated / Q000379:methods; D010781:Photography / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity
keywords: Change detection; Connected filtering; Image stabilization; Medaka; Segmentation; Toxicology