BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting

Zhongyi Huang; Yao Ding; Guoli Song; Lin Wang; Ruizhe Geng; Hongliang He; Shan Du; Xia Liu; Yonghong Tian; Yongsheng Liang; S. Kevin Zhou; Jie Chen

doi:10.1007/978-3-030-59722-1_28

BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting

Zhongyi Huang, Yao Ding, Guoli Song, Lin Wang, Ruizhe Geng, Hongliang He, Shan Du, Xia Liu, Yonghong Tian, Yongsheng Liang, S. Kevin Zhou, Jie Chen^*

^*Corresponding author for this work

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

22 Citations (Scopus)

Abstract

Breast cancer is a main malignant tumor for women and the incidence is trending to ascend. Detecting positive and negative tumor cells in the immunohistochemically stained sections of breast tissue to compute the Ki-67 index is an essential means to determine the degree of malignancy of breast cancer. However, there are scarcely public datasets about cell detection of Ki-67 stained images. In this paper, we introduce a large-scale Breast tumor Cell Dataset (BCData) for cell detection and counting, which contains 1,338 images with 181,074 annotated cells belonging to two categories, i.e., positive and negative tumor cells. (We state that our dataset can only be used for non-commercial research.) Our dataset varies widely in both the distributing density of tumor cells and the Ki-67 index. We conduct several cell detection and counting methods on this dataset to set the first benchmark. We believe that our dataset will facilitate further research in cell detection and counting fields in clustering, overlapping, and variational stained conditions. Our dataset is available at https://sites.google.com/view/bcdataset

Original language	English
Title of host publication	Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings
Editors	Anne L. Martel, Purang Abolmaesumi, Danail Stoyanov, Diana Mateus, Maria A. Zuluaga, S. Kevin Zhou, Daniel Racoceanu, Leo Joskowicz
Publisher	Springer Science and Business Media Deutschland GmbH
Pages	289-298
Number of pages	10
ISBN (Print)	9783030597214
DOIs	https://doi.org/10.1007/978-3-030-59722-1_28
Publication status	Published - 2020
Externally published	Yes
Event	23rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2020 - Lima, Peru Duration: 4 Oct 2020 → 8 Oct 2020

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	12265 LNCS
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Conference

Conference	23rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2020
Country/Territory	Peru
City	Lima
Period	4/10/20 → 8/10/20

Keywords

Breast tumor cell dataset
Cell counting
Cell detection

UN SDGs

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

Access to Document

10.1007/978-3-030-59722-1_28

Cite this

Huang, Z., Ding, Y., Song, G., Wang, L., Geng, R., He, H., Du, S., Liu, X., Tian, Y., Liang, Y., Zhou, S. K., & Chen, J. (2020). BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting. In A. L. Martel, P. Abolmaesumi, D. Stoyanov, D. Mateus, M. A. Zuluaga, S. K. Zhou, D. Racoceanu, & L. Joskowicz (Eds.), Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings (pp. 289-298). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 12265 LNCS). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/978-3-030-59722-1_28

Huang, Zhongyi ; Ding, Yao ; Song, Guoli et al. / BCData : A Large-Scale Dataset and Benchmark for Cell Detection and Counting. Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings. editor / Anne L. Martel ; Purang Abolmaesumi ; Danail Stoyanov ; Diana Mateus ; Maria A. Zuluaga ; S. Kevin Zhou ; Daniel Racoceanu ; Leo Joskowicz. Springer Science and Business Media Deutschland GmbH, 2020. pp. 289-298 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

@inproceedings{ca5eb41d52a840018e7d498430384f81,

title = "BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting",

abstract = "Breast cancer is a main malignant tumor for women and the incidence is trending to ascend. Detecting positive and negative tumor cells in the immunohistochemically stained sections of breast tissue to compute the Ki-67 index is an essential means to determine the degree of malignancy of breast cancer. However, there are scarcely public datasets about cell detection of Ki-67 stained images. In this paper, we introduce a large-scale Breast tumor Cell Dataset (BCData) for cell detection and counting, which contains 1,338 images with 181,074 annotated cells belonging to two categories, i.e., positive and negative tumor cells. (We state that our dataset can only be used for non-commercial research.) Our dataset varies widely in both the distributing density of tumor cells and the Ki-67 index. We conduct several cell detection and counting methods on this dataset to set the first benchmark. We believe that our dataset will facilitate further research in cell detection and counting fields in clustering, overlapping, and variational stained conditions. Our dataset is available at https://sites.google.com/view/bcdataset",

keywords = "Breast tumor cell dataset, Cell counting, Cell detection",

author = "Zhongyi Huang and Yao Ding and Guoli Song and Lin Wang and Ruizhe Geng and Hongliang He and Shan Du and Xia Liu and Yonghong Tian and Yongsheng Liang and Zhou, {S. Kevin} and Jie Chen",

note = "Publisher Copyright: {\textcopyright} 2020, Springer Nature Switzerland AG.; 23rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2020 ; Conference date: 04-10-2020 Through 08-10-2020",

year = "2020",

doi = "10.1007/978-3-030-59722-1_28",

language = "English",

isbn = "9783030597214",

series = "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)",

publisher = "Springer Science and Business Media Deutschland GmbH",

pages = "289--298",

editor = "Martel, {Anne L.} and Purang Abolmaesumi and Danail Stoyanov and Diana Mateus and Zuluaga, {Maria A.} and Zhou, {S. Kevin} and Daniel Racoceanu and Leo Joskowicz",

booktitle = "Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings",

address = "Germany",

}

Huang, Z, Ding, Y, Song, G, Wang, L, Geng, R, He, H, Du, S, Liu, X, Tian, Y, Liang, Y, Zhou, SK & Chen, J 2020, BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting. in AL Martel, P Abolmaesumi, D Stoyanov, D Mateus, MA Zuluaga, SK Zhou, D Racoceanu & L Joskowicz (eds), Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 12265 LNCS, Springer Science and Business Media Deutschland GmbH, pp. 289-298, 23rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2020, Lima, Peru, 4/10/20. https://doi.org/10.1007/978-3-030-59722-1_28

BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting. / Huang, Zhongyi; Ding, Yao; Song, Guoli et al.
Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings. ed. / Anne L. Martel; Purang Abolmaesumi; Danail Stoyanov; Diana Mateus; Maria A. Zuluaga; S. Kevin Zhou; Daniel Racoceanu; Leo Joskowicz. Springer Science and Business Media Deutschland GmbH, 2020. p. 289-298 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 12265 LNCS).

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

TY - GEN

T1 - BCData

T2 - 23rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2020

AU - Huang, Zhongyi

AU - Ding, Yao

AU - Song, Guoli

AU - Wang, Lin

AU - Geng, Ruizhe

AU - He, Hongliang

AU - Du, Shan

AU - Liu, Xia

AU - Tian, Yonghong

AU - Liang, Yongsheng

AU - Zhou, S. Kevin

AU - Chen, Jie

PY - 2020

Y1 - 2020

N2 - Breast cancer is a main malignant tumor for women and the incidence is trending to ascend. Detecting positive and negative tumor cells in the immunohistochemically stained sections of breast tissue to compute the Ki-67 index is an essential means to determine the degree of malignancy of breast cancer. However, there are scarcely public datasets about cell detection of Ki-67 stained images. In this paper, we introduce a large-scale Breast tumor Cell Dataset (BCData) for cell detection and counting, which contains 1,338 images with 181,074 annotated cells belonging to two categories, i.e., positive and negative tumor cells. (We state that our dataset can only be used for non-commercial research.) Our dataset varies widely in both the distributing density of tumor cells and the Ki-67 index. We conduct several cell detection and counting methods on this dataset to set the first benchmark. We believe that our dataset will facilitate further research in cell detection and counting fields in clustering, overlapping, and variational stained conditions. Our dataset is available at https://sites.google.com/view/bcdataset

AB - Breast cancer is a main malignant tumor for women and the incidence is trending to ascend. Detecting positive and negative tumor cells in the immunohistochemically stained sections of breast tissue to compute the Ki-67 index is an essential means to determine the degree of malignancy of breast cancer. However, there are scarcely public datasets about cell detection of Ki-67 stained images. In this paper, we introduce a large-scale Breast tumor Cell Dataset (BCData) for cell detection and counting, which contains 1,338 images with 181,074 annotated cells belonging to two categories, i.e., positive and negative tumor cells. (We state that our dataset can only be used for non-commercial research.) Our dataset varies widely in both the distributing density of tumor cells and the Ki-67 index. We conduct several cell detection and counting methods on this dataset to set the first benchmark. We believe that our dataset will facilitate further research in cell detection and counting fields in clustering, overlapping, and variational stained conditions. Our dataset is available at https://sites.google.com/view/bcdataset

KW - Breast tumor cell dataset

KW - Cell counting

KW - Cell detection

UR - http://www.scopus.com/inward/record.url?scp=85092742286&partnerID=8YFLogxK

U2 - 10.1007/978-3-030-59722-1_28

DO - 10.1007/978-3-030-59722-1_28

M3 - Conference contribution

AN - SCOPUS:85092742286

SN - 9783030597214

T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

SP - 289

EP - 298

BT - Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings

A2 - Martel, Anne L.

A2 - Abolmaesumi, Purang

A2 - Stoyanov, Danail

A2 - Mateus, Diana

A2 - Zuluaga, Maria A.

A2 - Zhou, S. Kevin

A2 - Racoceanu, Daniel

A2 - Joskowicz, Leo

PB - Springer Science and Business Media Deutschland GmbH

Y2 - 4 October 2020 through 8 October 2020

ER -

Huang Z, Ding Y, Song G, Wang L, Geng R, He H et al. BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting. In Martel AL, Abolmaesumi P, Stoyanov D, Mateus D, Zuluaga MA, Zhou SK, Racoceanu D, Joskowicz L, editors, Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Proceedings. Springer Science and Business Media Deutschland GmbH. 2020. p. 289-298. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). doi: 10.1007/978-3-030-59722-1_28

BCData: A Large-Scale Dataset and Benchmark for Cell Detection and Counting

Abstract

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Keywords

UN SDGs

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