CLARITY tissue-clearing method
E47391
CLARITY is a neuroscience technique that renders biological tissues transparent while preserving their molecular structure, enabling high-resolution, three-dimensional imaging of intact organs such as the brain.
All labels observed (3)
How this entity was disambiguated
This entity first appeared as the object of triple T374610 — resolving that mention is where its identity was fixed. The disambiguator weighed these candidate entities and picked the highlighted one (or “None”, minting a new entity). This is how homonymy is resolved: the same surface form can point to different entities.
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: CLARITY tissue-clearing method Context triple: [Karl Deisseroth, knownFor, CLARITY tissue-clearing method]
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A.
Biomedical Optics Express
Biomedical Optics Express is a peer-reviewed scientific journal focusing on research and developments in the field of biomedical optics and photonics.
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B.
Molecular Biology of the Cell
Molecular Biology of the Cell is a leading peer-reviewed scientific journal that publishes research and reviews in cell biology and related molecular life sciences.
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C.
Fresnel zone plates
Fresnel zone plates are diffractive optical elements composed of concentric rings that focus light through interference rather than refraction, serving as lens alternatives in applications like X-ray and microscopy.
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D.
Blaschka Glass Models of Plants
The Blaschka Glass Models of Plants are an extraordinary collection of scientifically accurate, hand-crafted glass botanical sculptures created in the late 19th and early 20th centuries by Leopold and Rudolf Blaschka.
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E.
Technical Corrections to the Bayh–Dole Act
Technical Corrections to the Bayh–Dole Act is a legislative measure that refined and clarified the original Bayh–Dole Act’s provisions governing the ownership and commercialization of inventions arising from federally funded research.
- F. None of above. chosen
- G. Unsure - the case is ambiguous/there is not enough information to decide.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: CLARITY tissue-clearing method Target entity description: CLARITY is a neuroscience technique that renders biological tissues transparent while preserving their molecular structure, enabling high-resolution, three-dimensional imaging of intact organs such as the brain.
-
A.
Biomedical Optics Express
Biomedical Optics Express is a peer-reviewed scientific journal focusing on research and developments in the field of biomedical optics and photonics.
-
B.
Molecular Biology of the Cell
Molecular Biology of the Cell is a leading peer-reviewed scientific journal that publishes research and reviews in cell biology and related molecular life sciences.
-
C.
Fresnel zone plates
Fresnel zone plates are diffractive optical elements composed of concentric rings that focus light through interference rather than refraction, serving as lens alternatives in applications like X-ray and microscopy.
-
D.
Blaschka Glass Models of Plants
The Blaschka Glass Models of Plants are an extraordinary collection of scientifically accurate, hand-crafted glass botanical sculptures created in the late 19th and early 20th centuries by Leopold and Rudolf Blaschka.
-
E.
Technical Corrections to the Bayh–Dole Act
Technical Corrections to the Bayh–Dole Act is a legislative measure that refined and clarified the original Bayh–Dole Act’s provisions governing the ownership and commercialization of inventions arising from federally funded research.
- F. None of above. chosen
Statements (50)
| Predicate | Object |
|---|---|
| instanceOf |
imaging preparation method
ⓘ
neuroscience technique ⓘ tissue clearing technique ⓘ |
| acronym | CLARITY ⓘ |
| advantage |
avoids physical sectioning of tissue
ⓘ
maintains spatial relationships in intact organs ⓘ |
| appliedTo |
human brain tissue
ⓘ
mouse brain ⓘ other organs ⓘ spinal cord ⓘ |
| compatibleWith |
confocal microscopy
ⓘ
fluorescent proteins ⓘ immunohistochemistry ⓘ in situ hybridization ⓘ light-sheet microscopy ⓘ two-photon microscopy ⓘ |
| developedAt | Stanford University ⓘ |
| developedBy |
Karl Deisseroth
ⓘ
Kwanghun Chung ⓘ |
| enables |
deep tissue imaging without sectioning
ⓘ
high-resolution imaging of brain tissue ⓘ three-dimensional imaging of intact organs ⓘ |
| field |
connectomics
ⓘ
histology ⓘ neuroanatomy ⓘ neuroscience ⓘ |
| fullName |
Clear Lipid-exchanged Acrylamide-hybridized Rigid Imaging/Immunostaining/In situ hybridization-compatible Tissue-hYdrogel
ⓘ
linked to:
CLARITY tissue-clearing method
|
| inspired |
development of PACT tissue clearing
ⓘ
development of PARS tissue clearing ⓘ development of other hydrogel-based clearing methods ⓘ |
| keyStep |
electrophoretic tissue clearing
ⓘ
hydrogel embedding of tissue ⓘ lipid removal ⓘ passive tissue clearing ⓘ |
| limitation |
clearing process can be time-consuming
ⓘ
requires specialized equipment for active clearing ⓘ |
| preserves |
fine structural details
ⓘ
nucleic acids ⓘ proteins ⓘ |
| publicationYear | 2013 ⓘ |
| relatedTo |
3DISCO tissue clearing method
ⓘ
Scale tissue clearing method ⓘ SeeDB tissue clearing method ⓘ |
| renders | biological tissues optically transparent ⓘ |
| usedFor |
mapping neural circuits
ⓘ
pathological analysis of brain tissue ⓘ studying brain connectivity ⓘ visualizing long-range axonal projections ⓘ |
| uses |
acrylamide-based hydrogel
ⓘ
sodium dodecyl sulfate detergent ⓘ |
How these facts were elicited
The pipeline generated the facts above by prompting gpt-5.1 with this entity's name + description and the instruction below.
Instruction
You are a knowledge base construction expert. Given a subject entity and a description of it, return factual statements that you know for the subject as a JSON list of dictionaries(triples), where keys must be "subject", "predicate" and "object". The number of facts may be very high, between 25 to 50 or more, for very popular subjects. For less popular subjects, the number of facts can be very low, like 5 or 10. # Requirements - If you don't know the subject at all, return an empty list. - If the subject is not a named entity, return an empty list. - Include at least one triple where predicate is "instanceOf". - Do not get too wordy. - Separate several objects into multiple triples with one object.
Input
Subject: CLARITY tissue-clearing method Description of subject: CLARITY is a neuroscience technique that renders biological tissues transparent while preserving their molecular structure, enabling high-resolution, three-dimensional imaging of intact organs such as the brain.
Referenced by (5)
Full triples — surface form annotated when it differs from this entity's canonical label.
CLARITY tissue-clearing method
→
fullName
→
Clear Lipid-exchanged Acrylamide-hybridized Rigid Imaging/Immunostaining/In situ hybridization-compatible Tissue-hYdrogel
ⓘ
linked to: CLARITY tissue-clearing method
CLARITY
→
fullName
→
Clear Lipid-exchanged Acrylamide-hybridized Rigid Imaging/Immunostaining/In situ hybridization-compatible Tissue-hYdrogel
ⓘ
linked to: CLARITY tissue-clearing method
linked to: CLARITY tissue-clearing method