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Results: 6298
07504513d424f013
Sample:
Cortex 20201201_CJYanma_Ex10_PVALB+THSD7a-_Hippo-Region 004
Image and morphological reconstruction of a cortical interneuron (3b) from marmoset, Yanma, after systemic viral IV injection with AAV2/9-hDlx-GFP-fGFP, imaged in December 2020 - positive for DLX5/6-GFP, positive for Parvalbumin and negative for Thrombospondin Type 1 Domain Containing 7A.
Investigator
Guoping Feng
Feng Lab
Massachusetts Institute of Technology
Funding
1-U01-MH114819-01
Experiment
Modality: spatial transcriptomics
Method: smFISH
Technique: smFISH
Structure: Cortex
Organism: marmoset
TransLine: CJYanma
Cells: 1
BIL: /bil/data/07/50/07504513d424f013/
HTTPS: https://download.brainimagelibrary.org/07/50/07504513d424f013/
1535a69f63702bca
Sample:
0539051309
8 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai224(TICL-NLS-EGFP-ICF-NLS-dT)-hyg/wt
Cells: NA
BIL: /bil/data/15/35/1535a69f63702bca/0539051309/
HTTPS: https://download.brainimagelibrary.org/15/35/1535a69f63702bca/0539051309/
1535a69f63702bca
Sample:
0539046487
8 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai193(TICL-EGFP-ICF-tdT)-hyg/wt
Cells: NA
BIL: /bil/data/15/35/1535a69f63702bca/0539046487/
HTTPS: https://download.brainimagelibrary.org/15/35/1535a69f63702bca/0539046487/
1535a69f63702bca
Sample:
0539048696
8 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai193(TICL-EGFP-ICF-tdT)-hyg/wt
Cells: NA
BIL: /bil/data/15/35/1535a69f63702bca/0539048696/
HTTPS: https://download.brainimagelibrary.org/15/35/1535a69f63702bca/0539048696/
9ad0d3df8d000071
Sample:
1043176403
301 neuron reconstructions in swc format. Each reconstruction has an swc marker annotation file where '10' indicates that dendrites were truncated and '30' is the node where the surface of the tissue was closest to the soma. Each reconstruction also has an HDF5 file mapping the synapses of the neuron.
Investigator
AIBS/Seung/Tolias
AIBS/Seung/Tolias
Allen Institute for Brain Science
Funding
IARPA: D16PC00003 (Baylor), D16PC00004 (Allen), D16PC0005 (Princeton)
Experiment
Modality: cell morphology
Method: EM
Technique: EM
Structure: VISp2/3
Organism: mouse
TransLine: NA
Cells: 1
BIL: /bil/data/9a/d0/9ad0d3df8d000071/1043176403
HTTPS: https://download.brainimagelibrary.org/9a/d0/9ad0d3df8d000071/1043176403
158d3a3e89fc7719
Sample:
MOp output - AAVDJ-SypGFP-mRuby
Triple anterograde output from MOs MOp and SSp, and MOp output with SypEGFP labeled boutons.
Investigator
Hongwei Dong
Hongwei Dong
University of California, Los Angeles
Funding
1-U01-MH-114829-01
Experiment
Modality: anatomy/morphology
Method: AAVDJ-hSyn-tdTomato-sypEGFP Injection
Technique: Pressure Injection
Structure: Whole brain
Organism: mouse
TransLine: C57BL6
Cells: NA
BIL: /bil/data/15/8d/158d3a3e89fc7719/MOp_output_-_AAVDJ-SypGFP-mRuby
HTTPS: https://download.brainimagelibrary.org/15/8d/158d3a3e89fc7719/MOp_output_-_AAVDJ-SypGFP-mRuby
b4d41a4bf7614449
Sample:
P14_JN0046_Bg
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Autofluorescence
Method: Background
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: C57BL/6
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0046/LSFM/Background
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0046/LSFM/Background
b4d41a4bf7614449
Sample:
P14_JN0044_NT
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Fluorescent Stain
Method: Neurotrace
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: C57BL/6
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0044/LSFM/Neurotrace
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0044/LSFM/Neurotrace
b4d41a4bf7614449
Sample:
P14_JN0124_PVAi14
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: tdTomato amplification antibody labelling
Method: Parvalbumin
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0124/LSFM/Parvalbumin
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0124/LSFM/Parvalbumin
b4d41a4bf7614449
Sample:
P14_JN0124_NT
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Fluorescent Stain
Method: Neurotrace
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0124/LSFM/Neurotrace
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0124/LSFM/Neurotrace
b4d41a4bf7614449
Sample:
P04_JN0025_NT
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Fluorescent Stain
Method: Neurotrace
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: C57BL/6
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P04_JN0025/LSFM/Neurotrace
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P04_JN0025/LSFM/Neurotrace
b4d41a4bf7614449
Sample:
P04_JN0025_Lectin
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Fluorescent Stain
Method: Lectin
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: C57BL/6
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P04_JN0025/LSFM/Lectin
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P04_JN0025/LSFM/Lectin
b4d41a4bf7614449
Sample:
P14_JN0073_NT
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Fluorescent Stain
Method: Neurotrace
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0073/LSFM/Neurotrace
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0073/LSFM/Neurotrace
b4d41a4bf7614449
Sample:
P14_JN0073_PVAi14
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: tdTomato amplification antibody labelling
Method: Parvalbumin
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0073/LSFM/Parvalbumin
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0073/LSFM/Parvalbumin
b4d41a4bf7614449
Sample:
P14_JN0073_Bg
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Autofluorescence
Method: Background
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0073/LSFM/Background
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0073/LSFM/Background
b4d41a4bf7614449
Sample:
P14_JN0069_NT
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Fluorescent Stain
Method: Neurotrace
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0069/LSFM/Neurotrace
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0069/LSFM/Neurotrace
b4d41a4bf7614449
Sample:
P14_JN0069_PV-Ai14
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: tdTomato amplification antibody labelling
Method: Parvalbumin
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0069/LSFM/Parvalbumin
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0069/LSFM/Parvalbumin
b4d41a4bf7614449
Sample:
P14_JN0069_Bg
Brain development is characterized by a diverse set of cell types that are born and connected into rapidly growing, complex 3D structures across time. Quantitative understanding of cell type composition and distribution in different brain regions provides fundamental knowledge about the building blocks of the brain and serves as an essential baseline with which to assess changes that may occur in brain disorders. Common coordinate frameworks (CCF) provide an essential spatial context with which to understand cell type composition and 3D arrangement in the mouse brain. For the adult mouse brain, the Allen CCF currently serves as a standard atlas resource with which to map and integrate results from different studies. On the other hand, the lack of CCFs in developing mouse brains significantly impedes progress on quantitative spatiotemporal understanding of cell types during neurodevelopment. To address this deficiency, we have assembled a highly synergistic, multi-institutional team with complementary skill sets to create developmental CCFs with associated ontology and true 3D anatomical labels while also demonstrating the application of our CCFs by generating quantitative mappings of GABAergic neurons in the developing mouse brain. Toward this end, we will first utilize MRI and light sheet fluorescent microscopy (LSFM) to develop high-resolution developmental CCFs at seven different developmental time points (E11.5, E13.5, E15.5, E18.5, P4, P14, and P56) with different cellular features highlighted, including total cell density, myelination, and neurovasculature. Second, we will create fully3D anatomical labels for the CCFs based on cellular and gene expression information, and build a comprehensive ontology that will allow anatomical region changes to be linked across development and maturation. Lastly, we will generate a cellular-resolution quantitative map of GABAergic neuronal subtypes using tissue clearing and LSFM imaging in developing mouse brains. The successful completion of this project will enable a broad field of scientists to leverage modern brain mapping technologies more effectively in studying the developing mouse brain.
Investigator
Yongsoo Kim
Yongsoo Kim Lab
Pennsylvania State University
Funding
1-RF1-MH124605-01
Experiment
Modality: Autofluorescence
Method: Background
Technique: LSFM
Structure: whole brain
Organism: mouse
TransLine: Parvalbumin-Cre-Ai14C
Cells: 0
BIL: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0069/LSFM/Background
HTTPS: /bil/lz/sbrain81/b4d41a4bf7614449/P14_JN0069/LSFM/Background
df75626840c76c15
Sample:
AIBS_730859101
Raw fMOST image files for ~30 mouse specimens
Investigator
Zeng, Hongkui
Zeng Lab
Allen Institute for Brain Science
Funding
1-U19-MH114830-01
Experiment
Modality: cell morphology
Method: fMOST
Technique: fMOST
Structure: Whole brain
Organism: mouse
Cells: 0
BIL: /bil/data/df/75/df75626840c76c15/mouseID_367667-18052
HTTPS: https://download.brainimagelibrary.org/df/75/df75626840c76c15/mouseID_367667-18052
df75626840c76c15
Sample:
AIBS_998016366
Raw fMOST image files for ~30 mouse specimens
Investigator
Zeng, Hongkui
Zeng Lab
Allen Institute for Brain Science
Funding
1-U19-MH114830-01
Experiment
Modality: cell morphology
Method: fMOST
Technique: fMOST
Structure: Whole brain
Organism: mouse
Cells: 0
BIL: /bil/data/df/75/df75626840c76c15/mouseID_373187-191817
HTTPS: https://download.brainimagelibrary.org/df/75/df75626840c76c15/mouseID_373187-191817
1535a69f63702bca
Sample:
0539049651
8 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai224(TICL-NLS-EGFP-ICF-NLS-dT)-hyg/wt
Cells: NA
BIL: /bil/data/15/35/1535a69f63702bca/0539049651/
HTTPS: https://download.brainimagelibrary.org/15/35/1535a69f63702bca/0539049651/
1535a69f63702bca
Sample:
0539051460
8 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai193(TICL-EGFP-ICF-tdT)-hyg/wt
Cells: NA
BIL: /bil/data/15/35/1535a69f63702bca/0539051460/
HTTPS: https://download.brainimagelibrary.org/15/35/1535a69f63702bca/0539051460/
1535a69f63702bca
Sample:
0539046671
8 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai193(TICL-EGFP-ICF-tdT)-hyg/wt
Cells: NA
BIL: /bil/data/15/35/1535a69f63702bca/0539046671/
HTTPS: https://download.brainimagelibrary.org/15/35/1535a69f63702bca/0539046671/
9e60ff3c60ae6228
Sample:
0539071939
18 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai193(TICL-EGFP-ICF-tdT)-hyg/wt
Cells: NA
BIL: /bil/data/9e/60/9e60ff3c60ae6228/0539071939
HTTPS: https://download.brainimagelibrary.org/9e/60/9e60ff3c60ae6228/0539071939
9e60ff3c60ae6228
Sample:
0539071919
18 mouse enhancer virus labeling two-photon serial tomography coronal image data sets
Investigator
Bosiljka Tasic
Tasic Lab
Allen Institute for Brain Science
Funding
1-RF1-MH121274-01
Experiment
Modality: population imaging
Method: enhancer virus labeling - cell population characterization
Technique: enhancer virus labeling
Structure: Brain
Organism: mouse
TransLine: Ai193(TICL-EGFP-ICF-tdT)-hyg/wt
Cells: NA
BIL: /bil/data/9e/60/9e60ff3c60ae6228/0539071919
HTTPS: https://download.brainimagelibrary.org/9e/60/9e60ff3c60ae6228/0539071919