Skip to end of metadata
Go to start of metadata

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="84bcfed6-d68e-4314-8dee-a3f2078052ea"><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="8adb5637-8d26-4708-8f13-db6fecf126ae"><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="944f0c8e-ac96-4b42-81fe-ba94a4c14a16"><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="85a93c35-2b3c-496c-b0d9-1461c53946e0"><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="5726ab1c-e964-4680-927d-90a71f12cc3b"><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="5d91f46e-a16a-4d77-b132-bbf94d6d79a9"><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="29c46146-aa36-419e-ae02-7a099f0a3728"><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="e3234059-98de-4e82-a7a0-add561bb9002"><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="bd791533-13fd-4ab8-944d-0b888f2a6ccf"><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="4e599d96-00a7-4b13-9796-278fd82573e0"><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="3126616d-4086-4db9-89a1-6c14e0ee882d"><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="ac87892e-22a7-4b77-983a-442ebb1b71fb"><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
  • No labels