Evidence map›Paper›PMID 35545715›Full record

ArticleNature methods2022

A hybrid open-top light-sheet microscope for versatile multi-scale imaging of cleared tissues.

Adam K Glaser, Kevin W Bishop, Lindsey A Barner, Etsuo A Susaki, Shimpei I Kubota, Gan Gao, Robert B Serafin, Pooja Balaram, Emily Turschak, Philip R Nicovich and 27 more

Abstract read
In one paragraph

Article in Nature methods, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 99 papers.

0numbers the graph read from it
0cells of the map it votes in
99citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

99 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Prototype-based AI triage for 3D pathology.bioRxiv : the preprint server for biology · 2026
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  11. High-throughput, organ-scale 3D tubule tracking using TubuleMAP.bioRxiv : the preprint server for biology · 2026
    Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. Review
  17. Article
  18. Applications and development of in situ nucleic acid visualization techniques.Frontiers in bioengineering and biotechnology · 2026
    Review
  19. Article
  20. Article

39 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

37 authors.

Adam K GlaserDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA. akglaser@uw.edu.ORCID http://orcid.org/0000-0003-3558-8994
Kevin W BishopDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-8722-6464
Lindsey A BarnerDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA.
Etsuo A SusakiDepartment of Biochemistry and Systems Biomedicine, Graduate School of Medicine, Juntendo University, Tokyo, Japan.
Shimpei I KubotaDepartment of Molecular Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-3188-3988
Gan GaoDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA.
Robert B SerafinDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA.
Pooja BalaramAllen Institute for Brain Science, Seattle, WA, USA.
Emily TurschakAllen Institute for Brain Science, Seattle, WA, USA.
Philip R NicovichCajal Neuroscience, Seattle, WA, USA.
Hoyin LaiLeica Microsystems, Inc, Buffalo Grove, IL, USA.
Luciano A G LucasLeica Microsystems, Inc, Buffalo Grove, IL, USA.
Yating YiDepartment of Restorative Sciences, Texas A&M University, Dallas, TX, USA.
Eva K NicholsDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.
Hongyi HuangDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA.
Nicholas P RederDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA.
Jasmine J WilsonDepartment of Immunology, University of Washington, Seattle, WA, USA.
Ramya SivakumarDepartment of Immunology, University of Washington, Seattle, WA, USA.
Elya ShamskhouDepartment of Immunology, University of Washington, Seattle, WA, USA.
Caleb R StoltzfusDepartment of Immunology, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-0543-345X
Xing WeiDepartment of Urology, University of Washington, Seattle, WA, USA.
Andrew K HemptonDepartment of Biology, University of Washington, Seattle, WA, USA.
Marko PendeMDI Biological Laboratory, Bar Harbor, ME, USA.
Prayag MurawalaMDI Biological Laboratory, Bar Harbor, ME, USA.ORCID http://orcid.org/0000-0002-0607-1059
Hans-Ulrich DodtDepartment for Bioelectronics, Vienna University of Technology, Vienna, Austria.
Takato ImaizumiDepartment of Biology, University of Washington, Seattle, WA, USA.
Jay ShendureDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-1516-1865
Brian J BeliveauDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0003-1314-3118
Michael Y GernerDepartment of Immunology, University of Washington, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-5406-8308
Li XinDepartment of Urology, University of Washington, Seattle, WA, USA.
Hu ZhaoDepartment of Restorative Sciences, Texas A&M University, Dallas, TX, USA.
Lawrence D TrueDepartment of Laboratory Medicine & Pathology, University of Washington, Seattle, WA, USA.
R Clay ReidAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-8697-6797
Jayaram ChandrashekarAllen Institute for Neural Dynamics, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-6412-0114
Hiroki R UedaLaboratory for Synthetic Biology, RIKEN Center for Biosystems Dynamics Research, Osaka, Japan.
Karel SvobodaAllen Institute for Neural Dynamics, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-6670-7362
Jonathan T C LiuDepartment of Mechanical Engineering, University of Washington, Seattle, WA, USA. jonliu@uw.edu.ORCID http://orcid.org/0000-0001-5650-3086

Funding

Understanding the role of thyroid hormone signaling during axolotl limb regenerationP20GM104318 · NIGMS · MOUNT DESERT ISLAND BIOLOGICAL LAB · PI DRUMMOND, IAIN A. · 2013 to 2023
$23.0M
Viral Strategies for Functional Connectomics in the Visual SystemR01NS104949 · NINDS · ALLEN INSTITUTE · PI REID, R CLAY · 2017 to 2021
$4.5M
Molecular Mechanisms of Initiation of Benign Prostatic HyperplasiaR01DK107436 · NIDDK · UNIVERSITY OF WASHINGTON · PI XIN, LI · 2016 to 2024
$4.4M
Molecular Mechanisms of Seasonal Time MeasurementR01GM079712 · NIGMS · UNIVERSITY OF WASHINGTON · PI IMAIZUMI, TAKATO · 2007 to 2022
$3.5M
The Prostate Epithelial Cell Lineage HierarchyR01DK092202 · NIDDK · UNIVERSITY OF WASHINGTON · PI XIN, LI · 2011 to 2019
$3.2M
In vivo dual-axis confocal microscopy of 5-ALA-induced PpIX to guide low-grade glioma resectionsR01CA244170 · NCI · UNIVERSITY OF WASHINGTON · PI LIU, JONATHAN T.C., SANAI, NADER · 2020 to 2024
$2.8M
Axonal connectomics: dense mapping of projection patterns between cortical areasRF1MH117820 · NIMH · ALLEN INSTITUTE · PI REID, R CLAY · 2019 to 2019
$2.3M
Instrumentation platform for 3D pathology with open-top light-sheet microscopyR01EB031002 · NIBIB · UNIVERSITY OF WASHINGTON · PI LIU, JONATHAN T.C. · 2021 to 2024
$1.9M
Light-sheet micro-aspiration microscopy for the isolation and analysis of rare tumor cells from intact clinical specimensR00CA240681 · NCI · ALLEN INSTITUTE · PI GLASER, ADAM K · 2021 to 2023
$745k
Light-sheet micro-aspiration microscopy for the isolation and analysis of rare tumor cells from intact clinical specimensK99CA240681 · NCI · UNIVERSITY OF WASHINGTON · PI GLASER, ADAM K · 2019 to 2020
$316k
Austrian Science Fund FWF P 31263Howard Hughes Medical InstituteNCI NIH HHS K99 CA240681NCI NIH HHS R00 CA240681NCI NIH HHS R01 CA244170NIBIB NIH HHS R01 EB031002NIDDK NIH HHS R01 DK092202NIDDK NIH HHS R01 DK107436NIGMS NIH HHS P20 GM104318NIGMS NIH HHS R01 GM079712NIMH NIH HHS RF1 MH117820NINDS NIH HHS R01 NS104949
6 · The paper itself

Abstract

Light-sheet microscopy has emerged as the preferred means for high-throughput volumetric imaging of cleared tissues. However, there is a need for a flexible system that can address imaging applications with varied requirements in terms of resolution, sample size, tissue-clearing protocol, and transparent sample-holder material. Here, we present a 'hybrid' system that combines a unique non-orthogonal dual-objective and conventional (orthogonal) open-top light-sheet (OTLS) architecture for versatile multi-scale volumetric imaging. We demonstrate efficient screening and targeted sub-micrometer imaging of sparse axons within an intact, cleared mouse brain. The same system enables high-throughput automated imaging of multiple specimens, as spotlighted by a quantitative multi-scale analysis of brain metastases. Compared with existing academic and commercial light-sheet microscopy systems, our hybrid OTLS system provides a unique combination of versatility and performance necessary to satisfy the diverse requirements of a growing number of cleared-tissue imaging applications.

Indexed as

MicroscopyAnimalsMice

Identifiers

PMID35545715
PMCPMC9214839

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.