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Research Article

Development of an Automated Imaging Pipeline for the Analysis of the Zebrafish Larval Kidney

  • Jens H. Westhoff mail,

    jens.westhoff@med.uni-heidelberg.de (JHW); urban.liebel@kit.edun (UL); jochen.gehrig@kit.edu (JG)

    Affiliation: Department of Pediatrics I, University Children’s Hospital, University of Heidelberg, Heidelberg, Germany

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  • Stefan Giselbrecht,

    Affiliation: Institute for Biological Interfaces 2, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany

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  • Miriam Schmidts,

    Affiliation: Molecular Medicine Unit, Birth Defects Research Centre, University College London (UCL), Institute of Child Health, London, United Kingdom

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  • Sebastian Schindler,

    Affiliation: Department of Pediatrics I, University Children’s Hospital, University of Heidelberg, Heidelberg, Germany

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  • Philip L. Beales,

    Affiliation: Molecular Medicine Unit, Birth Defects Research Centre, University College London (UCL), Institute of Child Health, London, United Kingdom

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  • Burkhard Tönshoff,

    Affiliation: Department of Pediatrics I, University Children’s Hospital, University of Heidelberg, Heidelberg, Germany

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  • Urban Liebel mail,

    jens.westhoff@med.uni-heidelberg.de (JHW); urban.liebel@kit.edun (UL); jochen.gehrig@kit.edu (JG)

    Affiliations: Institute for Applied Computer Science, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany, Accelerator Laboratory, Innovation Department, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany;

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  • Jochen Gehrig mail

    jens.westhoff@med.uni-heidelberg.de (JHW); urban.liebel@kit.edun (UL); jochen.gehrig@kit.edu (JG)

    Affiliations: Institute of Toxicology and Genetics, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany, Accelerator Laboratory, Innovation Department, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany;

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  • Published: December 04, 2013
  • DOI: 10.1371/journal.pone.0082137

About the Authors

Jens H. Westhoff, Sebastian Schindler, Burkhard Tönshoff
Department of Pediatrics I, University Children’s Hospital, University of Heidelberg, Heidelberg, Germany
Stefan Giselbrecht
Institute for Biological Interfaces 2, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
Miriam Schmidts, Philip L. Beales
Molecular Medicine Unit, Birth Defects Research Centre, University College London (UCL), Institute of Child Health, London, United Kingdom
Urban Liebel
Institute for Applied Computer Science, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
Jochen Gehrig
Institute of Toxicology and Genetics, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany
Urban Liebel, Jochen Gehrig
Accelerator Laboratory, Innovation Department, Karlsruhe Institute of Technology, Eggenstein-Leopoldshafen, Germany;

Corresponding Authors

Competing Interests

The authors have the following conflicts. UL is co-founder and executive director, and JG is application strategist at Acquifer GmbH. There are no patents, products in development or marketed products to declare. This does not alter the authors' adherence to all the PLOS ONE policies on sharing data and materials.

Author Contributions

Conceived and designed the experiments: JHW JG SG MS PLB. Performed the experiments: SS JHW JG MS. Analyzed the data: JHW SS MS JG. Contributed reagents/materials/analysis tools: SG. Wrote the manuscript: JHW JG MS. Designed the orientation tool: SG JG. Generated data handling and visualization tools: JG. Designed morpholino injections experiments: MS PLB. Designed the study: JHW JG. Supervised the study: JHW JG UL. Gave general advice and edited the manuscript: BT.