331-Shimojo-MouseBrainAnatomicalRegion
Author reviewedSemantic segmentation data of eight anatomical regions for mouse brain slices with neurogenic-tagged neurons from NeuroGT database
Project ID
331-Shimojo-MouseBrainAnatomicalRegion
Title
Semantic segmentation data of eight anatomical regions for mouse brain slices with neurogenic-tagged neurons from NeuroGT database
Description
Semantic segmentation results of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for 84 imaging data sets of mouse brain slices provided from NeuroGT database
Release Date
2023-12-24
Update Date
-
License
Version
1.0.0
Method Summary
Under article review.
Paper DOI
-
Paper URL
-
Kind
Image data
Quantitative data
Total
1833 files / 3.4 TB
Image datasets
zipped 84 files / 1.6 TB, raw image 1245 files / 1.6 TB, total 1329 files / 3.3 TB
Quantitative datasets
zipped 84 files / 1.8 GB, raw bdml 168 files / 52.4 GB, total 252 files / 54.2 GB
Organism
Mus musculus
(
NCBITaxon:10090
)
Strain
C57BL/6
Neurog2CreER(G2A); TaumGFP-nLacZ
C57BL/6 neuroG2^{CreER}(G2A); Tau^{mGFP-nLacZ}
Cell line
-
Biological Process
nervous system development
(
GO:0007399
)
Cellular Component
nucleus
(
GO:0005634
)
cell body
(
GO:0044297
)
plasma membrane
(
GO:0005886
)
neuron projection
(
GO:0043005
)
Medical Subject Headings
neurons
(
MeSH:D009474
)
cell body
(
MeSH:D066146
)
brain
(
MeSH:D001921
)
mice transgenic
(
MeSH:D008822
)
immunohistochemistry
(
MeSH:D007150
)
axons
(
MeSH:D001369
)
Method involved in biological imaging
bright-field microscopy
(
FBbi:00000243
)
chemically fixed tissue
(
FBbi:00000002
)
cryostat-sectioned tissue
(
FBbi:00000027
)
horseradish peroxidase
(
FBbi:00000138
)
Image datasets
84
Quantitative datasets
84
Paper DOI / Paper URL
Shimojo Y, Suehara K, Hirata T, Tohsato Y (2023) IPSJ Transactions on Bioinformatics (under review)
People
Contact
Yukako Tohsato
Ritsumeikan University
Faculty of Information Science and Engineering
Laboratory of compubational biology
1-1-1 Noji-higashi, Kusatsu, Shiga 525-8577 Japan
Imaging dataset contributor
-
Quantitative dataset contributor
Yuki Shimojo
(Ritsumeikan University)
Kazuki Suehara
(Nara Institute of Science and Technology)
Tatsumi Hirata
(National Institute of Genetics)
Yukako Tohsato
(Ritsumeikan University)
Datasets
Thumbnail
Dataset
Organism
Kind / Links
brain sections of a P7 mouse (ID:1) that was birthdate tagged at E16.5 (TM16.5) and visualized for nucleus-localized beta-galactosidase reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM16.5_L dataset) that was neurogenic-tagged at E16.5 and was visualized for nucleus-localized beta-galactosidase reporter (L)
brain sections of a P7 mouse (ID:3) that was birthdate tagged at E17.5 (TM17.5) and visualized for membrane-localized GFP reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM17.5_G dataset) that was neurogenic-tagged at E17.5 and was visualized for membrane-localized GFP reporter (G)
brain sections of a P7 mouse (ID:3) that was birthdate tagged at E17.5 (TM17.5) and visualized for nucleus-localized beta-galactosidase reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM17.5_L dataset) that was neurogenic-tagged at E17.5 and was visualized for nucleus-localized beta-galactosidase reporter (L)
brain sections of a P7 mouse (ID:2) that was birthdate tagged at E18.5 (TM18.5) and visualized for membrane-localized GFP reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM18.5_G dataset) that was neurogenic-tagged at E18.5 and was visualized for membrane-localized GFP reporter (G)
brain sections of a P7 mouse (ID:2) that was birthdate tagged at E18.5 (TM18.5) and visualized for nucleus-localized beta-galactosidase reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM18.5_L dataset) that was neurogenic-tagged at E18.5 and was visualized for nucleus-localized beta-galactosidase reporter (L)
brain sections of a P7 mouse (ID:1) that was birthdate tagged at E9.5 (TM9.5) and visualized for membrane-localized GFP reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM9.5_G dataset) that was neurogenic-tagged at E9.5 and was visualized for membrane-localized GFP reporter (G)
brain sections of a P7 mouse (ID:1) that was birthdate tagged at E9.5 (TM9.5) and visualized for nucleus-localized beta-galactosidase reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_TM9.5_L dataset) that was neurogenic-tagged at E9.5 and was visualized for nucleus-localized beta-galactosidase reporter (L)
brain sections of a P7 mouse (ID:2) without a TM injection (woTM) stained for membrane-localized GFP reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_woTM_G dataset) that was not injected TM (woTM) and was visualized for membrane-localized GFP reporter (G)
brain sections of a P7 mouse (ID:2) without a TM injection (woTM) stained for nucleus-localized beta-galactosidase reporter
BDML file for semantic segmentation data of eight anatomical regions (isocortex, olfactory area, hippocampal formation, cerebral nuclei, interbrain, midbrain, hindbrain, and cerebellum) for images of samples obtained by slicing P7 mouse brain (G2AN_woTM_L dataset) that was not injected TM (woTM) and was visualized for nucleus-localized beta-galactosidase reporter (L)