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Optically Cleared U...
Optically Cleared Umeå brain template : An MR-based brain template and atlas for optical projection and light sheet fluorescence microscopy
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- Willekens, Stefanie M. A. (author)
- Umeå universitet,Umeå centrum för molekylär medicin (UCMM),Institutionen för klinisk mikrobiologi,Molekylär Infektionsmedicin, Sverige (MIMS)
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- Morini, Federico (author)
- Umeå universitet,Umeå centrum för molekylär medicin (UCMM)
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- Mediavilla, Tomás, 1991- (author)
- Umeå universitet,Institutionen för integrativ medicinsk biologi (IMB),Daniel Marcellino
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- Nilsson, Emma (author)
- Umeå universitet,Institutionen för klinisk mikrobiologi,Molekylär Infektionsmedicin, Sverige (MIMS)
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- Orädd, Greger (author)
- Umeå universitet,Institutionen för integrativ medicinsk biologi (IMB)
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- Chotiwan, Nunya (author)
- Umeå universitet,Institutionen för klinisk mikrobiologi,Molekylär Infektionsmedicin, Sverige (MIMS)
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- Visa, Montse (author)
- Karolinska Institute, Department of Molecular Medicine and Surgery, The Rolf Luft Research Center for Diabetes and Endocrinology, Stockholm, Sweden
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- Berggren, Per-Olof (author)
- Karolinska Institute, Department of Molecular Medicine and Surgery, The Rolf Luft Research Center for Diabetes and Endocrinology, Stockholm, Sweden
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- Ilegems, Erwin (author)
- Karolinska Institute, Department of Molecular Medicine and Surgery, The Rolf Luft Research Center for Diabetes and Endocrinology, Stockholm, Sweden
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- Överby, Anna K. (author)
- Umeå universitet,Molekylär Infektionsmedicin, Sverige (MIMS),Institutionen för klinisk mikrobiologi
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- Ahlgren, Ulf (author)
- Umeå universitet,Umeå centrum för molekylär medicin (UCMM)
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- Marcellino, Daniel (author)
- Umeå universitet,Institutionen för integrativ medicinsk biologi (IMB)
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(creator_code:org_t)
- Cold Spring Harbor Laboratory, 2024
- English.
- Related links:
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https://doi.org/10.1...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Subject headings
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- Optical projection tomography (OPT) and light sheet fluorescence microscopy (LSFM) are high-resolution optical imaging techniques operating in the mm-cm range, ideally suited forex vivo3D whole mouse brain imaging. Although these techniques exhibit high sensitivity and specificity for antibody-labeled targets, the provided anatomical information remains limited. To allow anatomical mapping of fluorescent signal in whole brain, we developed a novel magnetic resonance (MR) – based template with its associated tissue priors and atlas labels, specifically designed for brains subjected to tissue processing protocols required for 3D optical imaging. We investigated the effect of tissue pre-processing and clearing on brain size and morphology and developed optimized templates for BABB/Murrays clear (OCUM) and DBE/iDISCO (iOCUM) cleared brains. By creating optical-(i)OCUM fusion images using our mapping procedure, we localized dopamine transporter and translocator protein expression and tracer innervation from the eye to the lateral geniculate nucleus of thalamus and superior colliculus. These fusion images allowed for precise anatomical identification of fluorescent signal in discrete brain areas. As such, these templates enable applications in a broad range of research areas integrating optical 3D brain imaging by providing an MR template for cleared brains.
Subject headings
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Neurovetenskaper (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Neurosciences (hsv//eng)
Keyword
- Mesoscopic imaging
- OPT
- LSFM
- MRI
- neuroimaging
- brain template
- Neurology
- neurologi
Publication and Content Type
- vet (subject category)
- ovr (subject category)
To the university's database
- By the author/editor
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Willekens, Stefa ...
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Morini, Federico
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Mediavilla, Tomá ...
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Nilsson, Emma
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Orädd, Greger
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Chotiwan, Nunya
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show more...
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Visa, Montse
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Berggren, Per-Ol ...
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Ilegems, Erwin
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Överby, Anna K.
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Ahlgren, Ulf
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Marcellino, Dani ...
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show less...
- About the subject
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Basic Medicine
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and Neurosciences
- By the university
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Umeå University