Evidence map›Paper›PMID 28724969›Full record

ArticleScientific reports2017

Pathways to clinical CLARITY: volumetric analysis of irregular, soft, and heterogeneous tissues in development and disease.

Brian Hsueh, Vanessa M Burns, Philip Pauerstein, Katherine Holzem, Li Ye, Kristin Engberg, Ai-Chi Wang, Xueying Gu, Harini Chakravarthy, H Efsun Arda and 5 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.

0numbers the graph read from it
0cells of the map it votes in
28citing 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

28 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Review
  6. Article
  7. Article
  8. A guidebook for DISCO tissue clearing.Molecular systems biology · 2021
    Review
  9. Tissue Optical Clearing for Biomedical Imaging: From In Vitro to In Vivo.Advances in experimental medicine and biology · 2021
    Article
  10. Optical Imaging of Pancreatic Innervation.Frontiers in endocrinology · 2021
    Review
  11. Review
  12. Article
  13. Review
  14. Review
  15. Investigating Tumor Heterogeneity in Mouse Models.Annual review of cancer biology · 2020
    Article
  16. Tissue clearing and its applications in neuroscience.Nature reviews. Neuroscience · 2020
    Review
  17. Review
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

15 authors.

Brian HsuehDepartment of Bioengineering, Stanford University, Stanford, CA, 94305, USA.
Vanessa M BurnsDepartment of Chemical and Systems Biology, Stanford University, Stanford, CA, 94305, USA.
Philip PauersteinDepartment of Developmental Biology, Stanford University, Stanford, CA, 94305, USA.
Katherine HolzemDepartment of Biomedical Engineering, Washington University in St. Louis, St. Louis, MO, 63130, USA.
Li YeDepartment of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, 94305, USA.
Kristin EngbergDepartment of Bioengineering, Stanford University, Stanford, CA, 94305, USA.
Ai-Chi WangDepartment of Bioengineering, Stanford University, Stanford, CA, 94305, USA.
Xueying GuDepartment of Developmental Biology, Stanford University, Stanford, CA, 94305, USA.
Harini ChakravarthyDepartment of Developmental Biology, Stanford University, Stanford, CA, 94305, USA.
H Efsun ArdaDepartment of Developmental Biology, Stanford University, Stanford, CA, 94305, USA.
Gregory CharvilleDepartment of Pathology, Stanford University, Stanford, CA, 94305, USA.
Hannes VogelDepartment of Pathology, Stanford University, Stanford, CA, 94305, USA.
Igor R EfimovDepartment of Biomedical Engineering, Washington University in St. Louis, St. Louis, MO, 63130, USA.
Seung KimDepartment of Developmental Biology, Stanford University, Stanford, CA, 94305, USA.
Karl DeisserothDepartment of Bioengineering, Stanford University, Stanford, CA, 94305, USA. deissero@stanford.edu.

Funding

Exploration of Arrhythmogenic Triggers and Substrates in Heart FailureR01HL126802 · NHLBI · JOHNS HOPKINS UNIVERSITY · PI EFIMOV, IGOR R, GORELIK, JULIA · 2016 to 2019
$2.8M
Brain-wide functional mapping of circuits controlling hedonic feeding in obesityK01DK114165 · NIDDK · STANFORD UNIVERSITY · PI YE, LI · 2017 to 2021
$825k
NHLBI NIH HHS R01 HL126802NIDDK NIH HHS K01 DK114165
6 · The paper itself

Abstract

Three-dimensional tissue-structural relationships are not well captured by typical thin-section histology, posing challenges for the study of tissue physiology and pathology. Moreover, while recent progress has been made with intact methods for clearing, labeling, and imaging whole organs such as the mature brain, these approaches are generally unsuitable for soft, irregular, and heterogeneous tissues that account for the vast majority of clinical samples and biopsies. Here we develop a biphasic hydrogel methodology, which along with automated analysis, provides for high-throughput quantitative volumetric interrogation of spatially-irregular and friable tissue structures. We validate and apply this approach in the examination of a variety of developing and diseased tissues, with specific focus on the dynamics of normal and pathological pancreatic innervation and development, including in clinical samples. Quantitative advantages of the intact-tissue approach were demonstrated compared to conventional thin-section histology, pointing to broad applications in both research and clinical settings.

Indexed as

DiseaseOrganogenesisAnimalsFemaleHumansHydrogelsImaging, Three-DimensionalMice, Inbred C57BLNeural CrestNeurosecretory SystemsPancreasHydrogels

Identifiers

PMID28724969
PMCPMC5517617

What OpenQuestion holds

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Registered trials

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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.