A framework for building multi-tissue atlas of zebrafish embryo

Yen H. Le; Nicole Ducharme; Maria Bondesson; Ioannis A. Kakadiaris

doi:10.1109/isbi.2014.6867979

A framework for building multi-tissue atlas of zebrafish embryo

Yen H. Le, Nicole Ducharme, Maria Bondesson, Ioannis A. Kakadiaris

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

This paper presents a new framework for building a representative atlas of multiple tissue types for zebrafish embryos. In our framework, multiple normalization strategies were considered and evaluated. Moreover, to keep the resulting atlas representative, outlier samples were discovered and removed automatically. Our quality measure for multiple tissue channels was used for selecting the best resulting atlas and for driving the normalization process (to reduce the number of experiments). We applied our framework to computing a 2D atlas of five tissue types (vasculature, sensory neuronal precursors, somites, motor neurons, and yolk) from a population of 40 zebrafish embryos.

Original language	English (US)
Title of host publication	2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	750-753
Number of pages	4
ISBN (Electronic)	9781467319591
DOIs	https://doi.org/10.1109/isbi.2014.6867979
State	Published - Jul 29 2014
Event	2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014 - Beijing, China Duration: Apr 29 2014 → May 2 2014

Publication series

Name	2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014

Conference

Conference	2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014
Country/Territory	China
City	Beijing
Period	4/29/14 → 5/2/14

Keywords

Multichannel atlas
Tissue atlas
Zebrafish

ASJC Scopus subject areas

Biomedical Engineering
Radiology Nuclear Medicine and imaging

Access to Document

10.1109/isbi.2014.6867979

Cite this

Le, Y. H., Ducharme, N., Bondesson, M., & Kakadiaris, I. A. (2014). A framework for building multi-tissue atlas of zebrafish embryo. In 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014 (pp. 750-753). Article 6867979 (2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/isbi.2014.6867979

A framework for building multi-tissue atlas of zebrafish embryo. / Le, Yen H.; Ducharme, Nicole; Bondesson, Maria et al.
2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014. Institute of Electrical and Electronics Engineers Inc., 2014. p. 750-753 6867979 (2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Le, YH, Ducharme, N, Bondesson, M & Kakadiaris, IA 2014, A framework for building multi-tissue atlas of zebrafish embryo. in 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014., 6867979, 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014, Institute of Electrical and Electronics Engineers Inc., pp. 750-753, 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014, Beijing, China, 4/29/14. https://doi.org/10.1109/isbi.2014.6867979

Le YH, Ducharme N, Bondesson M, Kakadiaris IA. A framework for building multi-tissue atlas of zebrafish embryo. In 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014. Institute of Electrical and Electronics Engineers Inc. 2014. p. 750-753. 6867979. (2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014). doi: 10.1109/isbi.2014.6867979

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A framework for building multi-tissue atlas of zebrafish embryo

Abstract

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Conference

Keywords

ASJC Scopus subject areas

Access to Document

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