Skip to content

Research at St Andrews

Reducing data acquisition for light-sheet microscopy by extrapolation between imaged planes

Research output: Contribution to journalArticlepeer-review

DOI

Open Access Status

  • Embargoed (until 20/04/21)

Author(s)

Ziv Shemesh, Gal Chaimovich, Liron Gino, Nisan Ozana, Jonathan Nylk, Kishan Dholakia, Zeev Zalevsky

School/Research organisations

Abstract

Light‐sheet fluorescence microscopy (LSFM) is a powerful technique that can provide high‐resolution images of biological samples. Therefore, this technique offers significant improvement for three‐dimensional (3D) imaging of living cells. However, producing high‐resolution 3D images of a single cell or biological tissues, normally requires high acquisition rate of focal planes, which means a large amount of sample sections. Consequently, it consumes a vast amount of processing time and memory, especially when studying real‐time processes inside living cells. We describe an approach to minimize data acquisition by interpolation between planes using a phase retrieval algorithm. We demonstrate this approach on LSFM data sets and show reconstruction of intermediate sections of the sparse samples. Since this method diminishes the required amount of acquisition focal planes, it also reduces acquisition time of samples as well. Our suggested method has proven to reconstruct unacquired intermediate planes from diluted data sets up to 10× fold. The reconstructed planes were found correlated to the original preacquired samples (control group) with correlation coefficient of up to 90%. Given the findings, this procedure appears to be a powerful method for inquiring and analyzing biological samples.
Close

Details

Original languageEnglish
Article numbere202000035
JournalJournal of Biophotonics
VolumeEarly View
Early online date20 Apr 2020
DOIs
Publication statusE-pub ahead of print - 20 Apr 2020

    Research areas

  • Gerchberg-Saxton algorithm, Light-sheet microscopy, Super resolution

Discover related content
Find related publications, people, projects and more using interactive charts.

View graph of relations

Related by author

  1. Emergent physics-informed design of deep learning for microscopy

    Wijesinghe, P. & Dholakia, K., 18 Mar 2021, (Accepted/In press) In: Journal of Physics: Photonics.

    Research output: Contribution to journalReview articlepeer-review

  2. Optical forces and torques on eccentric nanoscale core–shell particles

    Sun, Q., Dholakia, K. & Greentree, A. D., 10 Mar 2021, In: ACS Photonics.

    Research output: Contribution to journalArticlepeer-review

  3. Transverse optical binding for a dual dipolar dielectric nanoparticle dimer

    Duan, X-Y., Bruce, G. D., Dholakia, K., Wang, Z-G., Li, F. & Yang, Y-P., 19 Jan 2021, In: Physical Review. A, Atomic, molecular, and optical physics. 103, 1, 013721.

    Research output: Contribution to journalArticlepeer-review

  4. Initiating revolutions for optical manipulation: the origins and applications of rotational dynamics of trapped particles

    Bruce, G. D., Rodriguez Sevilla, P. & Dholakia, K., 2021, In: Advances in Physics: X. 6, 1, 74 p., 1838322.

    Research output: Contribution to journalReview articlepeer-review

  5. Incorporation of nitrogen in diamond films – a new way of tuning parameters for optical passive elements

    Kosowska, M., Pawłowska, S., Sankaran, K. J., Majchrowicz, D., Haenen, K., Dholakia, K. & Szczerska, M., 11 Dec 2020, In: Diamond and Related Materials. In Press, 10822.

    Research output: Contribution to journalArticlepeer-review

Related by journal

  1. Handheld volumetric manual compression-based quantitative microelastography

    Fang, Q., Frewer, L., Zilkens, R., Krajancich, B., Curatolo, A., Chin, L., Foo, K. Y., Lakhiani, D. D., Sanderson, R. W., Wijesinghe, P., Anstie, J. D., Dessauvagie, B. F., Latham, B., Saunders, C. M. & Kennedy, B. F., 27 Feb 2020, In: Journal of Biophotonics. Early View, e201960196.

    Research output: Contribution to journalArticlepeer-review

  2. Optical palpation for the visualization of tumor in human breast tissue

    Allen, W. M., Wijesinghe, P., Dessauvagie, B. F., Latham, B., Saunders, C. M. & Kennedy, B. F., Jan 2019, In: Journal of Biophotonics. 12, 1, 11 p., e201800180.

    Research output: Contribution to journalArticlepeer-review

  3. Raman spectroscopy investigation of biochemical changes in tumor spheroids with aging and after treatment with staurosporine

    Jamieson, L. E., Harrison, D. J. & Campbell, C. J., May 2019, In: Journal of Biophotonics. 12, 5, e201800201.

    Research output: Contribution to journalArticlepeer-review

  4. Depth-resolved multimodal imaging: wavelength modulated spatially offset Raman spectroscopy with optical coherence tomography

    Chen, M., Mas, J., Forbes, L. H., Andrews, M. R. & Dholakia, K., Jan 2018, In: Journal of Biophotonics. 11, 1, 7 p., e201700129.

    Research output: Contribution to journalArticlepeer-review

ID: 267900656

Top