A high-throughput analysis method to detect regions of interest and quantify zebrafish embryo images

Journal of Biomolecular Screening

Volumn 15, Issue 9, 2010, Pages 1152-1159

  Xu, Xiaoyan ^a   Xu, Xiaoyin ^b   Huang, Xin ^a   Xia, Weiming ^c   Xia, Shunren ^a  

^a ZHEJIANG UNIVERSITY   (China)

^b BRIGHAM AND WOMEN S HOSPITAL   (United States)

^c HARVARD MEDICAL SCHOOL   (United States)

Author keywords

detect region of interest; high throughput screening; image analysis; imaging; microscopy; morphological features; zebrafish

Indexed keywords

PIGMENT;

ALGORITHM; ARTICLE; CONTROLLED STUDY; EMBRYO; HIGH THROUGHPUT SCREENING; IMAGE ANALYSIS; MORPHOLOGY; NERVOUS SYSTEM DEVELOPMENT; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; ZEBRA FISH;

ALGORITHMS; ANIMALS; DIMETHYL SULFOXIDE; EMBRYO, NONMAMMALIAN; HIGH-THROUGHPUT SCREENING ASSAYS; IMAGING, THREE-DIMENSIONAL; PIGMENTS, BIOLOGICAL; ZEBRAFISH;

DANIO RERIO;

EID: 78650139563     PISSN: 10870571     EISSN: 1552454X     Source Type: Journal    
DOI: 10.1177/1087057110379155     Document Type: Article

References (15)

1. Patton EE, Zon LI: The art and design of genetic screens: zebrafish. Nat Rev Genet 2001 ; 2: 956-966.
2. Streisinger G., Walker C., Dower N., Knauber D., Singer F.: Production of clones of homozygous diploid zebra fish (Brachydanio rerio). Nature 1981 ; 291: 293-296.
3. Campbell WA, Yang H., Zetterberg H., Baulac S., Sears JA, Liu T., et al. Zebrafish lacking Alzheimer presenilin enhancer 2 (Pen-2) demonstrate excessive p53-dependent apoptosis and neuronal loss. J Neurochem 2006 ; 96: 1423-1440.
4. Fouquet B., Weinstein BM, Serluca FC, Fishman MC: Vessel patterning in the embryo of the zebrafish: guidance by notochord. Dev Biol 1997 ; 183: 37-48.
5. Paquet D., Bhat R., Sydow A., Mandelkow EM, Berg S., Hellberg S., et al. A zebrafish model of tauopathy allows in vivo imaging of neuronal cell death and drug evaluation. J Clin Invest 2009 ; 119: 1382-1395.
6. Xia W.: Exploring Alzheimer's disease in zebrafish. J Alzheimers Dis 2010 ; 20: 981-990.
7. Moon HS, Jacobson EM, Khersonsky SM, Luzung MR, Walsh DP, Xiong W., et al. A novel microtubule destabilizing entity from orthogonal synthesis of triazine library and zebrafish embryo screening. J Am Chem Soc 2002 ; 124: 11608-11609.
8. Liu T., Li G., Nie J., Tarokh A., Zhou X., Guo L., et al. An automated method for cell detection in zebrafish. Neuroinformatics 2008 ; 6: 5-21.
9. Liu T., Nie J., Li G., Guo L., Wong ST: ZFIQ: a software package for zebrafish biology. Bioinformatics 2008 ; 24: 438-489.
10. Kamali M., Day LJ, Brooks DH, Zhou X., O' Malley DM: Automated identification of neurons in 3D confocal datasets from zebrafish brainstem. J Microsc 2009 ; 233: 114-131.
11. Li G., Liu T., Tarokh A., Nie J., Guo L., Mara A., et al. 3D cell nuclei segmentation based on gradient flow tracking. BMC Cell Biol 2007 ; 8: 40.
12. Vogt A., Cholewinski A., Shen X., Nelson SG, Lazo JS, Tsang M., et al. Automated image-based phenotypic analysis in zebrafish embryos. Dev Dyn 2009 ; 238: 656-663.
13. Burt PJ, Adelson EH: The Laplacian pyramid as a compact image code. IEEE Trans Comm 1983 ; 31: 532-540.
14. Otsu N.: A threshold selection method from gray-level histograms. IEEE Trans Sys Man Cyber 1979 ; 9: 62-66.
15. Arslanova D., Yang T., Xu X., Wong ST, Augelli-Szafran CE, Xia W.: Phenotypic analysis of images of zebrafish treated with Alzheimer's gamma-secretase inhibitors. BMC Biotechnol 2010 ; 10: 24.