CIDRE: an illumination-correction method for optical microscopy

doi:10.1038/nmeth.3323

. 2015 May;12(5):404-6.

doi: 10.1038/nmeth.3323. Epub 2015 Mar 16.

CIDRE: an illumination-correction method for optical microscopy

Kevin Smith¹, Yunpeng Li², Filippo Piccinini³, Gabor Csucs¹, Csaba Balazs¹, Alessandro Bevilacqua⁴, Peter Horvath⁵

Affiliations

¹ Scientific Center for Optical and Electron Microscopy, ETH Zürich, Zurich, Switzerland.
² Computer Vision Laboratory, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
³ Advanced Research Center on Electronic Systems, University of Bologna, Bologna, Italy.
⁴ 1] Advanced Research Center on Electronic Systems, University of Bologna, Bologna, Italy. [2] Department of Computer Science and Engineering, University of Bologna, Bologna, Italy.
⁵ 1] Institute of Biochemistry, ETH Zürich, Zurich, Switzerland. [2] Synthetic and System Biology Unit, Biological Research Center, Szeged, Hungary. [3] Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland.

PMID: 25775044
DOI: 10.1038/nmeth.3323

Free article

CIDRE: an illumination-correction method for optical microscopy

Kevin Smith et al. Nat Methods. 2015 May.

Free article

. 2015 May;12(5):404-6.

doi: 10.1038/nmeth.3323. Epub 2015 Mar 16.

Authors

Kevin Smith¹, Yunpeng Li², Filippo Piccinini³, Gabor Csucs¹, Csaba Balazs¹, Alessandro Bevilacqua⁴, Peter Horvath⁵

Affiliations

¹ Scientific Center for Optical and Electron Microscopy, ETH Zürich, Zurich, Switzerland.
² Computer Vision Laboratory, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
³ Advanced Research Center on Electronic Systems, University of Bologna, Bologna, Italy.
⁴ 1] Advanced Research Center on Electronic Systems, University of Bologna, Bologna, Italy. [2] Department of Computer Science and Engineering, University of Bologna, Bologna, Italy.
⁵ 1] Institute of Biochemistry, ETH Zürich, Zurich, Switzerland. [2] Synthetic and System Biology Unit, Biological Research Center, Szeged, Hungary. [3] Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland.

PMID: 25775044
DOI: 10.1038/nmeth.3323

Abstract

Uneven illumination affects every image acquired by a microscope. It is often overlooked, but it can introduce considerable bias to image measurements. The most reliable correction methods require special reference images, and retrospective alternatives do not fully model the correction process. Our approach overcomes these issues for most optical microscopy applications without the need for reference images.

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[1] Nat Methods. 2006 Jul;3(7):525-31 - PubMed

[2] Nat Methods. 2006 Jul;3(7):525-31 - PubMed

[3] Curr Protoc Cytom. 2014 Apr 01;68:10.14.1-10 - PubMed

[4] Curr Protoc Cytom. 2014 Apr 01;68:10.14.1-10 - PubMed

[5] Opt Lett. 2008 Jan 15;33(2):156-8 - PubMed

[6] Opt Lett. 2008 Jan 15;33(2):156-8 - PubMed

[7] IEEE Trans Pattern Anal Mach Intell. 2010 Dec;32(12):2276-88 - PubMed

[8] IEEE Trans Pattern Anal Mach Intell. 2010 Dec;32(12):2276-88 - PubMed

[9] J Clin Pathol. 2003 Aug;56(8):619-21 - PubMed

[10] J Clin Pathol. 2003 Aug;56(8):619-21 - PubMed

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CIDRE: an illumination-correction method for optical microscopy

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CIDRE: an illumination-correction method for optical microscopy

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