Atlas Drawings and Ontologies
A set of high resolution digital reference atlases have been created to provide neuroanatomical context to the in situ hybridization and axonal projection data.
From the API, you can:
- Download the colorized and label atlas images
- Download atlas drawings in SVG (scalable vector graphics) format
- Download the underlying high resolution histological images
- Download the associated structural ontology
The following atlases are available through the API (click on Atlas ID to view in interactive atlas viewer):
Atlas ID |
|
Atlas Name |
Image Type |
Ontology |
StructureGraph ID |
GraphicGroupLabels |
||||
|---|---|---|---|---|---|---|---|---|---|---|
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="85e8bef8-2063-43cf-a46b-486c6b7026b4"><ac:plain-text-body><![CDATA[ |
[1 |
http://atlas.brain-map.org/atlas?atlas=1] |
!P56_Coronal.png |
width=32! |
"Mouse, P56 Coronal" |
"Atlas - Adult Mouse" |
"Mouse Brain Atlas" |
1 |
[28,159226751] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="0a76819c-fdf2-4033-8dea-a068a96e11c0"><ac:plain-text-body><![CDATA[ |
[2 |
http://atlas.brain-map.org/atlas?atlas=2] |
!P56_Sagittal.png |
width=32! |
"Mouse, P56 Sagittal" |
"Atlas - Adult Mouse" |
"Mouse Brain Atlas" |
1 |
[28] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="16a18096-1393-4849-854d-33ac3de2679e"><ac:plain-text-body><![CDATA[ |
[181276165 |
http://atlas.brain-map.org/atlas?atlas=181276165] |
!DevMouse_P56.jpg |
width=32! |
"Developing Mouse, P56" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="46ca885b-d3ae-4598-83ab-c1ed0b1de9af"><ac:plain-text-body><![CDATA[ |
[181276164 |
http://atlas.brain-map.org/atlas?atlas=181276164] |
!DevMouse_P14.jpg |
width=32! |
"Developing Mouse, P14" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32,167675952] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="6bae6844-0dea-4474-9e0d-5f4753b48f7b"><ac:plain-text-body><![CDATA[ |
[181276162 |
http://atlas.brain-map.org/atlas?atlas=181276162] |
!DevMouse_P4.jpg |
width=32! |
"Developing Mouse, P4" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="e63fe8c5-45bf-4e94-a986-2ee6a5532040"><ac:plain-text-body><![CDATA[ |
[181276160 |
http://atlas.brain-map.org/atlas?atlas=181276160] |
!DevMouse_E18pt5.jpg |
width=32! |
"Developing Mouse, E18.5" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="ef4b2c15-54ec-42ae-99d6-16279a12f6b2"><ac:plain-text-body><![CDATA[ |
[181276151 |
http://atlas.brain-map.org/atlas?atlas=181276151] |
!DevMouse_E15pt5.jpg |
width=32! |
"Developing Mouse, E15.5" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="6557d2a7-88d8-42bb-b1e2-bbc1c03446ee"><ac:plain-text-body><![CDATA[ |
[181276130 |
http://atlas.brain-map.org/atlas?atlas=181276130] |
!DevMouse_E13pt5.jpg |
width=32! |
"Developing Mouse, E13.5" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="7345ff68-1884-4f5e-84c6-aba2d28b3a59"><ac:plain-text-body><![CDATA[ |
[181275741 |
http://atlas.brain-map.org/atlas?atlas=181275741] |
!DevMouse_E11pt5.jpg |
width=32! |
"Developing Mouse, E11.5" |
"Atlas - Developing Mouse" |
"Developing Mouse Brain Atlas" |
17 |
[32,126768961] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="179c3979-043b-45c4-a60b-442ed1242513"><ac:plain-text-body><![CDATA[ |
[138322605 |
http://atlas.brain-map.org/atlas?atlas=138322605] |
!Human_34y.jpg |
width=32! |
"Human, 34 yrs" |
"Atlas - Developing Human" |
"Developing Human Brain Atlas" |
17 |
[31,113753815,113753816] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="7e0daa68-0247-4e0b-85d8-c4fd1156532d"><ac:plain-text-body><![CDATA[ |
[3 |
http://atlas.brain-map.org/atlas?atlas=3] |
!Human_21pcw.jpg |
width=25! |
"Human, 21 pcw" |
"Atlas - Developing Human" |
"Developing Human Brain Atlas" |
16 |
[31] |
]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="0ae0b1bf-8b26-41f7-ae20-f960d59a6b6b"><ac:plain-text-body><![CDATA[ |
[138322603 |
http://atlas.brain-map.org/atlas?atlas=138322603] |
!Human_15pcw.jpg |
width=20! |
"Human, 15 pcw" |
"Atlas - Developing Human" |
"Developing Human Brain Atlas" |
16 |
[31] |
]]></ac:plain-text-body></ac:structured-macro> |
Atlas Metadata
The sections for each Atlas comes from a single AtlasDataSet (child class of SectionDataSet) and single Specimen. Typically, only a subset of AtlasImages (child class of SectionImage) is used for the reference atlas. A "annotated" image is identified by the SubImage "annotated" attribute and the corresponding image type.
Example queries:
- Annotated images for the "Mouse, P56 Coronal" atlas
- Annotated images for the "Human, 34 yrs" atlas