Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets

Yiran Li; Stephen J. Lockett; Robert J. Kinders; Wojciech Czaja

doi:10.1109/ISBI.2018.8363720

Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets

Yiran Li, Stephen J. Lockett, Robert J. Kinders, Wojciech Czaja

Institute for Mathematics and its Applications

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

Abstract

The capability of assessing 2 dimensional images from biological tissue specimens at high resolution requires not only improved optical and biomarker methods, but also is critically dependent on mathematical techniques that enable efficient analyses of larger and more complex data sets in which positional information is accurately assessed. We present here a novel shearlet computational method that detects regions of interest in 2-dimensional tumor biopsy images, using directional information and multiscale analysis. The regions putatively correspond to epithelial or mesenchymal areas of cells, which is of critical interest to clinicians since transition from epithelia to mesenchyme promotes tumor invasion and resistance to chemotherapy. The method significantly outperformed two benchmark methods based on wavelets and shearlets.

Original language	English (US)
Title of host publication	2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018
Publisher	IEEE Computer Society
Pages	916-920
Number of pages	5
ISBN (Electronic)	9781538636367
DOIs	https://doi.org/10.1109/ISBI.2018.8363720
State	Published - May 23 2018
Event	15th IEEE International Symposium on Biomedical Imaging, ISBI 2018 - Washington, United States Duration: Apr 4 2018 → Apr 7 2018

Publication series

Name	Proceedings - International Symposium on Biomedical Imaging
Volume	2018-April
ISSN (Print)	1945-7928
ISSN (Electronic)	1945-8452

Other

Other	15th IEEE International Symposium on Biomedical Imaging, ISBI 2018
Country/Territory	United States
City	Washington
Period	4/4/18 → 4/7/18

Bibliographical note

Funding Information:
This project has been funded in whole or in part with Federal funds from the National Cancer Institute, National Institutes of Health, under Contract No. HHSN261200800001E. The content of this publication does not necessarily reflect the views or policies of the Department of Health and Human Services, nor does mention of trade names, commercial products, or organizations imply endorsement by the U.S. Government. NCI-Frederick is accredited by AAALAC International and follows the Public Health Service Policy for the Care and Use of Laboratory Animals. Animal care was provided in accordance with the procedures outlined in the Guide for Care and Use of Laboratory Animals (National Research Council; 2011; National Academy Press; Washington, D.C.). W. Czaja has been in part supported by NSF grant #DMS1738003.

Publisher Copyright:
© 2018 IEEE.

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Publisher link

10.1109/ISBI.2018.8363720

Find It

Find It at U of M Libraries

Cite this

Li, Y., Lockett, S. J., Kinders, R. J., & Czaja, W. (2018). Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets. In 2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018 (pp. 916-920). (Proceedings - International Symposium on Biomedical Imaging; Vol. 2018-April). IEEE Computer Society. https://doi.org/10.1109/ISBI.2018.8363720

Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets. / Li, Yiran; Lockett, Stephen J.; Kinders, Robert J. et al.
2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018. IEEE Computer Society, 2018. p. 916-920 (Proceedings - International Symposium on Biomedical Imaging; Vol. 2018-April).

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

Li, Y, Lockett, SJ, Kinders, RJ & Czaja, W 2018, Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets. in 2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018. Proceedings - International Symposium on Biomedical Imaging, vol. 2018-April, IEEE Computer Society, pp. 916-920, 15th IEEE International Symposium on Biomedical Imaging, ISBI 2018, Washington, United States, 4/4/18. https://doi.org/10.1109/ISBI.2018.8363720

@inproceedings{9b9201adfed049939b74e9b725b0e253,

title = "Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets",

abstract = "The capability of assessing 2 dimensional images from biological tissue specimens at high resolution requires not only improved optical and biomarker methods, but also is critically dependent on mathematical techniques that enable efficient analyses of larger and more complex data sets in which positional information is accurately assessed. We present here a novel shearlet computational method that detects regions of interest in 2-dimensional tumor biopsy images, using directional information and multiscale analysis. The regions putatively correspond to epithelial or mesenchymal areas of cells, which is of critical interest to clinicians since transition from epithelia to mesenchyme promotes tumor invasion and resistance to chemotherapy. The method significantly outperformed two benchmark methods based on wavelets and shearlets.",

author = "Yiran Li and Lockett, {Stephen J.} and Kinders, {Robert J.} and Wojciech Czaja",

note = "Funding Information: This project has been funded in whole or in part with Federal funds from the National Cancer Institute, National Institutes of Health, under Contract No. HHSN261200800001E. The content of this publication does not necessarily reflect the views or policies of the Department of Health and Human Services, nor does mention of trade names, commercial products, or organizations imply endorsement by the U.S. Government. NCI-Frederick is accredited by AAALAC International and follows the Public Health Service Policy for the Care and Use of Laboratory Animals. Animal care was provided in accordance with the procedures outlined in the Guide for Care and Use of Laboratory Animals (National Research Council; 2011; National Academy Press; Washington, D.C.). W. Czaja has been in part supported by NSF grant #DMS1738003. Publisher Copyright: {\textcopyright} 2018 IEEE.; 15th IEEE International Symposium on Biomedical Imaging, ISBI 2018 ; Conference date: 04-04-2018 Through 07-04-2018",

year = "2018",

month = may,

day = "23",

doi = "10.1109/ISBI.2018.8363720",

language = "English (US)",

series = "Proceedings - International Symposium on Biomedical Imaging",

publisher = "IEEE Computer Society",

pages = "916--920",

booktitle = "2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018",

}

TY - GEN

T1 - Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets

AU - Li, Yiran

AU - Lockett, Stephen J.

AU - Kinders, Robert J.

AU - Czaja, Wojciech

N1 - Funding Information: This project has been funded in whole or in part with Federal funds from the National Cancer Institute, National Institutes of Health, under Contract No. HHSN261200800001E. The content of this publication does not necessarily reflect the views or policies of the Department of Health and Human Services, nor does mention of trade names, commercial products, or organizations imply endorsement by the U.S. Government. NCI-Frederick is accredited by AAALAC International and follows the Public Health Service Policy for the Care and Use of Laboratory Animals. Animal care was provided in accordance with the procedures outlined in the Guide for Care and Use of Laboratory Animals (National Research Council; 2011; National Academy Press; Washington, D.C.). W. Czaja has been in part supported by NSF grant #DMS1738003. Publisher Copyright: © 2018 IEEE.

PY - 2018/5/23

Y1 - 2018/5/23

N2 - The capability of assessing 2 dimensional images from biological tissue specimens at high resolution requires not only improved optical and biomarker methods, but also is critically dependent on mathematical techniques that enable efficient analyses of larger and more complex data sets in which positional information is accurately assessed. We present here a novel shearlet computational method that detects regions of interest in 2-dimensional tumor biopsy images, using directional information and multiscale analysis. The regions putatively correspond to epithelial or mesenchymal areas of cells, which is of critical interest to clinicians since transition from epithelia to mesenchyme promotes tumor invasion and resistance to chemotherapy. The method significantly outperformed two benchmark methods based on wavelets and shearlets.

AB - The capability of assessing 2 dimensional images from biological tissue specimens at high resolution requires not only improved optical and biomarker methods, but also is critically dependent on mathematical techniques that enable efficient analyses of larger and more complex data sets in which positional information is accurately assessed. We present here a novel shearlet computational method that detects regions of interest in 2-dimensional tumor biopsy images, using directional information and multiscale analysis. The regions putatively correspond to epithelial or mesenchymal areas of cells, which is of critical interest to clinicians since transition from epithelia to mesenchyme promotes tumor invasion and resistance to chemotherapy. The method significantly outperformed two benchmark methods based on wavelets and shearlets.

UR - http://www.scopus.com/inward/record.url?scp=85048070244&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85048070244&partnerID=8YFLogxK

U2 - 10.1109/ISBI.2018.8363720

DO - 10.1109/ISBI.2018.8363720

M3 - Conference contribution

AN - SCOPUS:85048070244

T3 - Proceedings - International Symposium on Biomedical Imaging

SP - 916

EP - 920

BT - 2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018

PB - IEEE Computer Society

T2 - 15th IEEE International Symposium on Biomedical Imaging, ISBI 2018

Y2 - 4 April 2018 through 7 April 2018

ER -

Detection of epithelial versus mesenchymal regions in 2D images of tumor biopsies using shearlets

Abstract

Publication series

Other

Bibliographical note

UN SDGs

Publisher link

Find It

Other files and links

Fingerprint

Cite this