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Segmenting function...
Segmenting functional tissue units across human organs using community-driven development of generalizable machine learning algorithms
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- Jain, Yashvardhan (författare)
- Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, 47408, USA,Indiana Univ, Luddy Sch Informat Comp & Engn, Dept Intelligent Syst Engn, Bloomington, IN 47408 USA.
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- Godwin, Leah L. (författare)
- Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, 47408, USA,Indiana Univ, Luddy Sch Informat Comp & Engn, Dept Intelligent Syst Engn, Bloomington, IN 47408 USA.
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- Joshi, Sripad (författare)
- Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, 47408, USA,Indiana Univ, Luddy Sch Informat Comp & Engn, Dept Intelligent Syst Engn, Bloomington, IN 47408 USA.
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- Mandarapu, Shriya (författare)
- Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, 47408, USA,Indiana Univ, Luddy Sch Informat Comp & Engn, Dept Intelligent Syst Engn, Bloomington, IN 47408 USA.
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- Le, Trang (författare)
- KTH,Science for Life Laboratory, SciLifeLab,Cellulär och klinisk proteomik,Department of Bioengineering, Stanford University, Stanford, CA, 94305, USA,KTH Royal Inst Technol, Sch Engn Sci Chem Biotechnol & Hlth, Sci Life Lab, Stockholm, Sweden.;Stanford Univ, Dept Bioengn, Stanford, CA 94305 USA.
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- Lindskog, Cecilia (författare)
- Uppsala universitet,Cancerprecisionsmedicin
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- Lundberg, Emma (författare)
- KTH,Science for Life Laboratory, SciLifeLab,Cellulär och klinisk proteomik,Department of Bioengineering, Stanford University, Stanford, CA, 94305, USA; Department of Pathology, Stanford University, Stanford, CA, 94305, USA; Chan Zuckerberg Biohub, San Francisco, CA, 94305, USA,KTH Royal Inst Technol, Sch Engn Sci Chem Biotechnol & Hlth, Sci Life Lab, Stockholm, Sweden.;Stanford Univ, Dept Bioengn, Stanford, CA 94305 USA.;Stanford Univ, Dept Pathol, Stanford, CA 94305 USA.;Chan Zuckerberg Biohub, San Francisco, CA 94305 USA.
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- Börner, Katy (författare)
- Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, 47408, USA,Indiana Univ, Luddy Sch Informat Comp & Engn, Dept Intelligent Syst Engn, Bloomington, IN 47408 USA.
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Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, 47408, USA Indiana Univ, Luddy Sch Informat Comp & Engn, Dept Intelligent Syst Engn, Bloomington, IN 47408 USA (creator_code:org_t)
- Springer Nature, 2023
- 2023
- Engelska.
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Ingår i: Nature Communications. - : Springer Nature. - 2041-1723. ; 14:1
- Relaterad länk:
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https://doi.org/10.1...
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https://uu.diva-port... (primary) (Raw object)
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https://urn.kb.se/re...
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https://doi.org/10.1...
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https://urn.kb.se/re...
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Abstract
Ämnesord
Stäng
- The development of a reference atlas of the healthy human body requires automated image segmentation of major anatomical structures across multiple organs based on spatial bioimages generated from various sources with differences in sample preparation. We present the setup and results of the Hacking the Human Body machine learning algorithm development competition hosted by the Human Biomolecular Atlas (HuBMAP) and the Human Protein Atlas (HPA) teams on the Kaggle platform. We create a dataset containing 880 histology images with 12,901 segmented structures, engaging 1175 teams from 78 countries in community-driven, open-science development of machine learning models. Tissue variations in the dataset pose a major challenge to the teams which they overcome by using color normalization techniques and combining vision transformers with convolutional models. The best model will be productized in the HuBMAP portal to process tissue image datasets at scale in support of Human Reference Atlas construction.
Ämnesord
- TEKNIK OCH TEKNOLOGIER -- Medicinteknik -- Medicinsk bildbehandling (hsv//swe)
- ENGINEERING AND TECHNOLOGY -- Medical Engineering -- Medical Image Processing (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
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- art (ämneskategori)
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