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HTTP/1.1 200 OKDate: Tue, 25 Nov 2025 02:18:16 GMTContent-Type: text/html; charsetutf-8Transfer-Encoding: chunkedConnection: keep-aliveSet-Cookie: AWSALBxAXQaINiywFBg4gR6Qm7zich04t4ZmO51Ow1QkfsXHIJ5aTTqlF6g/aA6DcVvARkGuyZPKVxiRy/vR6lH+B8+g4ow50laBAoNPD2+hYC1fGHPG1QPY8bC/yVKyF9; ExpiresTue, 02 Dec 2025 02:18:16 GMT; Path/Set-Cookie: AWSALBCORSxAXQaINiywFBg4gR6Qm7zich04t4ZmO51Ow1QkfsXHIJ5aTTqlF6g/aA6DcVvARkGuyZPKVxiRy/vR6lH+B8+g4ow50laBAoNPD2+hYC1fGHPG1QPY8bC/yVKyF9; ExpiresTue, 02 Dec 2025 02:18:16 GMT; Path/; SameSiteNoneServer: ApacheCache-Control: max-age0, private, must-revalidateX-UA-Compatible: IEEdge,chrome1X-Runtime: 0.006973X-Request-Id: c1e861ab9cf9f06e36bbfb4822fa26f8X-Powered-By: Phusion Passenger 5.0.30Set-Cookie: _conn_sessionBAh7B0kiD3Nlc3Npb25faWQGOgZFRkkiJWI3ODI5NTllMjU2NDg0ZjEyZWM0ZGFmMTVlZDFjM2I5BjsAVEkiEF9jc3JmX3Rva2VuBjsARkkiMUVHTkVHSWxkSUJIa1pXU28vL1NieXdlUTVYWnQ4N0g4WDdJbyt6MkhVRU09BjsARg%3D%3D--c098cd7388bd38841446dd713d9e2eb6327aeeff; path/; HttpOnlyETag: 29015a40bb75fd05374bbc4285d89c77Status: 200 OKCache-Control: max-age0Expires: Tue, 25 Nov 2025 02:18:16 GMT

!DOCTYPE html>html>    head>      meta http-equivX-UA-Compatible contentIE10/>      meta http-equivcontent-type contenttext/html;charsetUTF-8/>      meta nameviewport contentwidthdevice-width, initial-scale1.0>      meta namedescription content/>      meta namekeywords content/>      meta nameversion content108/>      title>Allen Reference Atlases :: Atlas Viewer/title>      script>          var _pSupressBrowserFlashWarning  true;      /script>      link href/assets/home.css mediaall relstylesheet typetext/css />      script src/assets/manifests/overview_manifest.js typetext/javascript>/script>        link href//www.brain-map.org/external_assets/stylesheets/portal.css mediascreen relstylesheet typetext/css />  script src//www.brain-map.org/external_assets/javascripts/portal.js typetext/javascript>/script>  script typetext/javascript>  /***********************************************  * AnyLink Drop Down Menu- © Dynamic Drive (www.dynamicdrive.com)  * This notice MUST stay intact for legal use  * Visit http://www.dynamicdrive.com/ for full source code  ***********************************************/  /script>  script typetext/javascript>    /*** each application needs to define these three variables ***/    var _pTabId  pAtlas;                        // select Reference Atlases tab    var _pMoreProjectsId  pMoreProjects;                    // specify ID of More Projects tab    var _pImagePath  //www.brain-map.org/external_assets/images/;  // location of plugin image assets within the /public directory (must end with a /)  /script>  script typetext/javascript>    function initialize() {      /*** do your stuff, then initialize the portal plugin ***/      _pPortalOnLoad();    }  /script>      meta contentauthenticity_token namecsrf-param />meta contentEGNEGIldIBHkZWSo//SbyweQ5XZt87H8X7Io+z2HUEM namecsrf-token />            style>      html, body {        margin:0px;      }          ul#portal_menu_tools_list {        min-width: 187px; /* the Reference Atlases string expands the tab */      }      /style>    /head>    body onloadinitialize()>        div classsiteContent>          script src//www.brain-map.org/external_assets/javascripts/portalHeader.js typetext/javascript>/script>          div classintro-box>h3>Allen Brain Reference Atlases/h3>p>The Allen Institute for Brain Science has generated multiple reference atlases, to use with our online datasets or as stand-alone resources.  Refer to our a hrefhttp://www.alleninstitute.org/legal/citation-policy/ targetcitation>Citation Policy/a> for information on how you may use these images in your work. /p>	/div>div classrow_container>	div classrow>		div classleft_container>						div classless_info less container-legend>Adult Mouse/div>					div classblurb less>				These anatomical reference atlases illustrate the adult mouse brain in coronal and sagittal planes of section.  They are the spatial framework for datasets such as in situ hybridization, cell projection maps, and in vitro cell characterization.			/div>						div classmore_info less data-atlasthreeD>				p>					The Allen Brain Explorer (beta) is an application that allows users to browse multimodal datasets in an annotated 3D spatial framework. It is created from a 3D volumetric reference atlas, annotated symmetrically using image data averaged from 1,675 adult mouse brain specimens.				/p>			/div>						div classmore_info less data-atlas602630314>				p>The 2D coronal reference atlas is created from a 3D volumetric reference atlas, annotated symmetrically using an average of data merged from 1,675 brain specimens. It provides spatial context and a common coordinate framework for mapping data in the Allen Mouse Connectivity Atlas, the Allen Cell Types Database (mouse), and the Allen Brain Observatory.				/p>				p>				132 virtual planes at 100 µm intervals				/p>			/div>						div classmore_info less data-atlas1>				p>The 2D coronal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 56. It provides the spatial context for in situ hybridization-based gene expression in the Allen Mouse Brain Atlas./p>132 coronal sections at 100 µm intervals			/div>						div classmore_info less data-atlas2>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 56. It provides the spatial context for in situ hybridization-based gene expression in the Allen Mouse Brain Atlas./p>21 sagittal sections at 200 µm intervals			/div>			/div>		div classright_container>			div classright-container-left-bit>				a href//connectivity.brain-map.org/3d-viewer target_blank>div classicon_container data-atlasthreeD stylebackground-image:url(/assets/3d_viewer_icon_white.png); background-size:cover;>/div>/a>				a hrefatlas?atlas602630314 target_blank>div classicon_container data-atlas602630314 stylebackground-image:url(/assets/atlas_coronal_2d.png); background-size:cover;>/div>/a>			/div>			div classother_atlases>				a hrefatlas?atlas1 target_blank>div classicon_container small data-atlas1 stylebackground-image:url(/assets/v3/2011-Coronal-small.jpg); background-size:cover;>/div>/a>				a hrefatlas?atlas2 target_blank>div classicon_container small data-atlas2 stylebackground-image:url(/assets/v3/2011-Sagittal-small.jpg); background-size:cover;>/div>/a>			/div>		/div>		/div>	div classdocs-row>		a href//help.brain-map.org/download/attachments/2818171/Mouse_Common_Coordinate_Framework.pdf>documentation/a>		|		a hrefhttp://connectivity.brain-map.org/static/referencedata targetmouse_supp_histology>reference histological data/a>		|		a hrefhttps://allensdk.rtfd.io/en/latest/reference_space.html targetmouse_supp_histology>SDK/a>		|		a hrefhttp://help.brain-map.org/display/mouseconnectivity/API targetmouse_supp_histology>API/a>		|		a hrefhttps://community.brain-map.org/t/allen-mouse-ccf-accessing-and-using-related-data-and-tools/359 targetmouse_supp_histology>Community Forum/a>		|		a hrefhttp://download.alleninstitute.org/publications/allen_mouse_brain_common_coordinate_framework/ targetmouse_supp_histology>Additional Reference Data/a>	/div>	div classrow>		div classleft_container>						div classless_info less container-legend>Adult Human/div>					div classblurb less>				These anatomical reference atlases illustrate the adult human brain, using modified Brodmann or gyral annotation.  			/div>					div classmore_info less data-atlas265297126>				p>The 2D coronal reference atlas is annotated on Nissl sections from a 34-year-old female based on a modified Brodmann nomenclature. It provides spatial context for gene expression in the Allen Human Brain Atlas and the BrainSpan Atlas of the Developing Human Brain./p>106 coronal sections at 0.4 - 3.4 mm intervals			/div>					div classmore_info less data-atlas138322605>			p>The 2D coronal reference atlas is annotated on Nissl sections from a 34-year-old female, by gyrus. It provides spatial context for gene expression in the Allen Human Brain Atlas and the BrainSpan Atlas of the Developing Human Brain./p>106 coronal sections at 0.4 - 3.4 mm intervals			/div>				/div>		div classright_container>			a hrefatlas?atlas265297126 target_blank>div classicon_container data-atlas265297126 stylebackground-image:url(/assets/v3/H-Adult-B-f.jpg); background-size:cover;>/div>/a>			a hrefatlas?atlas138322605 target_blank>div classicon_container data-atlas138322605 stylebackground-image:url(/assets/v3/H-Adult-G-f.jpg); background-size:cover;>/div>/a>					/div>	/div>	div classdocs-row>		a href//help.brain-map.org/display/devhumanbrain/Documentation?preview/3506181/7274568/BrainSpan_Reference_Atlas.pdf targetdoc>documentation/a>		|		a href//help.brain-map.org/display/humanbrain/Documentation?preview/2818165/6651925/HBA_Ontology-and-Nomenclature.pdf targetdoc>ontology/a>		|		a hrefhttp://www.brainspan.org/static/atlas targetdoc>supplemental histological data/a>		|		a hrefhttps://www.ncbi.nlm.nih.gov/pubmed/27418273 targetdoc>citation/a>		!-- | a hrefhttp://www.brainspan.org/static/atlas targetref>reference data/a> | a hrefhttps://www.ncbi.nlm.nih.gov/pubmed/24695229 targetpub>publication/a> -->	/div>	div classrow>		div classleft_container>						div classless_info less  container-legend>Developing Mouse/div>					div classblurb less>				These anatomical reference atlases illustrate the developing mouse brain, covering seven stages of embryonic (E) and postnatal (P) development.  Dr. Luis Puelles used a custom developmental taxonomy for annotation of the Allen Developing Mouse Brain Reference Atlases. 			/div>					div classmore_info less data-atlas181276165>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 56 (P56). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>21 sagittal sections at 200 µm intervals			/div>						div classmore_info less data-atlas181276164>			 p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 14 (P14). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>39 sagittal sections at 125 µm intervals			/div>						div classmore_info less data-atlas181276162>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 4 (P4). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>23 sagittal sections at 160 µm intervals			/div>			div classmore_info less data-atlas181276160>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 18.5 (E18.5) or Theiler stage 26 (TS26). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>19 sagittal sections at 120 µm intervals			/div>						div classmore_info less data-atlas181276151>			 p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 15.5 (E15.5) or Theiler stage 24 (TS24). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>16 sagittal sections at 120 µm intervals			/div>						div classmore_info less data-atlas181276130>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 13.5 (E13.5) or Theiler stage 21 (TS21). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>15 sagittal sections at 100 µm intervals			/div>						div classmore_info less data-atlas181275741>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 11.5 (E11.5) or Theiler stage 19 (TS19). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>28 sagittal sections at 40 µm intervals			/div>		/div>		div classright_container>			div classright-container-left-bit dev_mouse>				div classother_dev_mouse_atlases>					a hrefatlas?atlas181275741 target_blank>div classicon_container small data-atlas181275741 stylebackground-image:url(/assets/v3/M-E11_5-f.jpg); background-size:cover;>/div>/a>					a hrefatlas?atlas181276130 target_blank>div classicon_container small data-atlas181276130 stylebackground-image:url(/assets/v3/M-E13_5-f.jpg); background-size:cover;>/div>/a>									a hrefatlas?atlas181276151 target_blank>div classicon_container small data-atlas181276151 stylebackground-image:url(/assets/v3/M-E15_5-f.jpg); background-size:cover;>/div>/a>				/div>				div classother_dev_mouse_atlases>					a hrefatlas?atlas181276160 target_blank>div classicon_container small data-atlas181276160 stylebackground-image:url(/assets/v3/M-E18_5-f.jpg); background-size:cover;>/div>/a>														a hrefatlas?atlas181276162 target_blank>div classicon_container small data-atlas181276162 stylebackground-image:url(/assets/v3/M-P4-f.jpg); background-size:cover;>/div>/a>										a hrefatlas?atlas181276164 target_blank>div classicon_container small data-atlas181276164 stylebackground-image:url(/assets/v3/M-P14-f.jpg); background-size:cover;>/div>/a>				/div>			/div>			div classright-container-right-bit>				a hrefatlas?atlas181276165 target_blank>div classicon_container small data-atlas181276165 stylebackground-image:url(/assets/v3/M-P56-f.jpg); background-size:cover;>/div>/a>			/div>		/div>	/div>	div classdocs-row>		a href//help.brain-map.org/download/attachments/4325389/ReferenceAtlas_DevMouse.pdf?version1&modificationDate1370999986479&apiv2>documentation/a> | a hrefhttp://developingmouse.brain-map.org/static/atlas targetref>SUPPLEMENTAL HISTOLOGICAL DATA /a>	/div>	div classrow>		div classleft_container>						div classless_info less  container-legend>Developing Human/div>					div classblurb less>				These anatomical reference atlases illustrate the developing human brain, covering two embryonic stages.   			/div>					div classmore_info less data-atlas138322603>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an embryo at 15 weeks post-conception (15 pcw). It provides the spatial context for gene expression in the BrainSpan Atlas of the Developing Human Brain. /p>46 coronal sections at 0.5 to 1.0 mm intervals			/div>						div classmore_info less data-atlas3>			 	p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an embryo at 21 weeks post-conception (21 pcw). It provides the spatial context for gene expression in the BrainSpan Atlas of the Developing Human Brain./p>81 coronal sections from the cerebrum at 0.5 to 1.2 mm intervals			/div>						div classmore_info less data-atlas287730656>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an embryo at 21 weeks post-conception (21 pcw). It provides the spatial context for gene expression in the BrainSpan Atlas of the Developing Human Brain./p>41 transverse sections from the brainstem at 0.25 to 0.5 mm intervals			/div>		/div>		div classright_container>			a hrefatlas?atlas138322603 target_blank>div classicon_container medium data-atlas138322603 stylebackground-image:url(/assets/v3/H-15-pcw-f.jpg); background-size:cover;>/div>/a>			a hrefatlas?atlas3 target_blank>div classicon_container medium data-atlas3 stylebackground-image:url(/assets/v3/H-21-pcw-cb-f.jpg); background-size:cover;>/div>/a>			a hrefatlas?atlas287730656 target_blank>div classicon_container medium data-atlas287730656 stylebackground-image:url(/assets/v3/H-21-pcw-bs-f.jpg); background-size:cover;>/div>/a>		/div>	/div>	div classdocs-row>		a href//help.brain-map.org/display/devhumanbrain/Documentation?preview/3506181/7274568/BrainSpan_Reference_Atlas.pdf targetdoc>documentation/a> 		| a href//help.brain-map.org/download/attachments/3506181/Ontology_and_Nomenclature.pdf?version1&modificationDate1382036553218&apiv2 targetref>ontology/a>		| a hrefhttp://www.brainspan.org/static/atlas targetref>SUPPLEMENTAL HISTOLOGICAL DATA/a>	/div>	div classrow>		div classleft_container>						div classless_info less  container-legend>Mouse Spinal Cord/div>					div classblurb less>				These anatomical reference atlases illustrate the mouse spinal cord in adult and juvenile C57Bl6 mouse.  They provide a spatial map for the Allen Mouse Spinal Cord Atlases of gene expression.  Dr. Charles Watson and Dr, Gulgun Kayalioglu created a custom taxonomy for annotation of the spinal cord, covering cervical, thoracic, lumbar, sacral, and coccygeal segments.			/div>					div classmore_info less data-atlas101056386>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a juvenile male C57Bl6 mouse, postnatal day 4 (P4). It provides the spatial context for in situ hybridization-based gene expression in Allen Mouse Spinal Cord Atlas./p>34 transverse sections at 2 mm intervalsbr/>span classflash_warn>Note: Image viewer functionality may not be supported in current web browsers/span>			/div>					div classmore_info less data-atlas101006525>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an adult male C57Bl6 mouse, postnatal day 56 (P56). It provides the spatial context for in situ hybridization-based gene expression in Allen Mouse Spinal Cord Atlas./p>34 transverse sections at 2 mm intervalsbr/>span classflash_warn>Note: Image viewer functionality may not be supported in current web browsers/span>			/div>			/div>		div classright_container>			a hrefhttp://mousespinal.brain-map.org/siv?imageId101056386 target_blank>div classicon_container medium data-atlas101056386 stylebackground-image:url(/assets/v3/M-SC-P4-f2.jpg); background-size:cover;>/div>/a>			a hrefhttp://mousespinal.brain-map.org/siv?imageId101006525 target_blank>div classicon_container medium data-atlas101006525 stylebackground-image:url(/assets/v3/M-SC-P56-f2.jpg); background-size:cover;>/div>/a>		/div>	/div>	div classdocs-row>		a hrefhttp://mousespinal.brain-map.org/spinal/common/content/ReferenceAtlas.pdf targetdoc>documentation/a> | a hrefhttp://mousespinal.brain-map.org/imageseries/showref.html  targetref>reference data/a>	/div>/div>script>var ua  navigator.userAgent;var doc  document.getElementsByTagName(body)0;if( (ua.match(/rv:11.0/i)) || (ua.match(/MSIE 10.0/i)) || (ua.match(/Edge/i)) ) {	doc.className  doc.className + ie;}jQuery(document).ready(function() {	console.log(doc ready);	var icons  jQuery(.icon_container);	icons.on(mouseover, function() {		show_more_info(this, true, this.getAttribute(data-atlas));	});	icons.on(mouseout, function() {		show_more_info(this, false);	});		});function show_more_info(node, show, atlas_id) {	var grandparent  jQuery(node).closest(.row);	if(show) {		grandparent.find(.less_info).removeClass(less);		grandparent.find(.blurb).removeClass(less);		grandparent.find(.more_infodata-atlas+atlas_id+).removeClass(less);	} else {		grandparent.find(.more_info).addClass(less);		grandparent.find(.less_info).addClass(less);		grandparent.find(.blurb).addClass(less);	}}	/script>        div classseparator>/div>        div classseparator>/div>        div classseparator>/div>        div classseparator>/div>        script src//www.brain-map.org/external_assets/javascripts/portalFooter.js typetext/javascript>/script>       /div>    /body>/html>

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HTTP/1.1 200 OKDate: Tue, 25 Nov 2025 02:18:16 GMTContent-Type: text/html; charsetutf-8Transfer-Encoding: chunkedConnection: keep-aliveSet-Cookie: AWSALBdPDqmCMHDyo9s3P2RFibIzVN39RPDM/xHbiJlrAOR5vztrSVKt+6KoCJzGQ9oYSmQkLRDE0O8pjdGh3CDISOn117W3arByMVqGEaOj92jxddbrQl/MeclMAuKMjp; ExpiresTue, 02 Dec 2025 02:18:16 GMT; Path/Set-Cookie: AWSALBCORSdPDqmCMHDyo9s3P2RFibIzVN39RPDM/xHbiJlrAOR5vztrSVKt+6KoCJzGQ9oYSmQkLRDE0O8pjdGh3CDISOn117W3arByMVqGEaOj92jxddbrQl/MeclMAuKMjp; ExpiresTue, 02 Dec 2025 02:18:16 GMT; Path/; SameSiteNone; SecureServer: ApacheCache-Control: max-age0, private, must-revalidateX-UA-Compatible: IEEdge,chrome1X-Runtime: 0.006326X-Request-Id: f0bb8eba2c36711cf7012161c647bee6X-Powered-By: Phusion Passenger 5.0.30Set-Cookie: _conn_sessionBAh7B0kiD3Nlc3Npb25faWQGOgZFRkkiJTQyNTdmMmJkMjU5NzRkZjhiOTNiZDAzMjk0YjE1ZTI3BjsAVEkiEF9jc3JmX3Rva2VuBjsARkkiMVBia0dTWDlVSzdPZ2tlNWhHTG9DQS9vWmJ3U00wVm5xWExwa09VUVlNVEk9BjsARg%3D%3D--5cc9b1e8b6707100c5076f03948650fe7a48a293; path/; HttpOnlyETag: 6187faee854e4b978ab88707b327766eStatus: 200 OKCache-Control: max-age0Expires: Tue, 25 Nov 2025 02:18:16 GMT

!DOCTYPE html>html>    head>      meta http-equivX-UA-Compatible contentIE10/>      meta http-equivcontent-type contenttext/html;charsetUTF-8/>      meta nameviewport contentwidthdevice-width, initial-scale1.0>      meta namedescription content/>      meta namekeywords content/>      meta nameversion content108/>      title>Allen Reference Atlases :: Atlas Viewer/title>      script>          var _pSupressBrowserFlashWarning  true;      /script>      link href/assets/home.css mediaall relstylesheet typetext/css />      script src/assets/manifests/overview_manifest.js typetext/javascript>/script>        link href//www.brain-map.org/external_assets/stylesheets/portal.css mediascreen relstylesheet typetext/css />  script src//www.brain-map.org/external_assets/javascripts/portal.js typetext/javascript>/script>  script typetext/javascript>  /***********************************************  * AnyLink Drop Down Menu- © Dynamic Drive (www.dynamicdrive.com)  * This notice MUST stay intact for legal use  * Visit http://www.dynamicdrive.com/ for full source code  ***********************************************/  /script>  script typetext/javascript>    /*** each application needs to define these three variables ***/    var _pTabId  pAtlas;                        // select Reference Atlases tab    var _pMoreProjectsId  pMoreProjects;                    // specify ID of More Projects tab    var _pImagePath  //www.brain-map.org/external_assets/images/;  // location of plugin image assets within the /public directory (must end with a /)  /script>  script typetext/javascript>    function initialize() {      /*** do your stuff, then initialize the portal plugin ***/      _pPortalOnLoad();    }  /script>      meta contentauthenticity_token namecsrf-param />meta contentPbkGSX9UK7Ogke5hGLoCA/oZbwSM0VnqXLpkOUQYMTI namecsrf-token />            style>      html, body {        margin:0px;      }          ul#portal_menu_tools_list {        min-width: 187px; /* the Reference Atlases string expands the tab */      }      /style>    /head>    body onloadinitialize()>        div classsiteContent>          script src//www.brain-map.org/external_assets/javascripts/portalHeader.js typetext/javascript>/script>          div classintro-box>h3>Allen Brain Reference Atlases/h3>p>The Allen Institute for Brain Science has generated multiple reference atlases, to use with our online datasets or as stand-alone resources.  Refer to our a hrefhttp://www.alleninstitute.org/legal/citation-policy/ targetcitation>Citation Policy/a> for information on how you may use these images in your work. /p>	/div>div classrow_container>	div classrow>		div classleft_container>						div classless_info less container-legend>Adult Mouse/div>					div classblurb less>				These anatomical reference atlases illustrate the adult mouse brain in coronal and sagittal planes of section.  They are the spatial framework for datasets such as in situ hybridization, cell projection maps, and in vitro cell characterization.			/div>						div classmore_info less data-atlasthreeD>				p>					The Allen Brain Explorer (beta) is an application that allows users to browse multimodal datasets in an annotated 3D spatial framework. It is created from a 3D volumetric reference atlas, annotated symmetrically using image data averaged from 1,675 adult mouse brain specimens.				/p>			/div>						div classmore_info less data-atlas602630314>				p>The 2D coronal reference atlas is created from a 3D volumetric reference atlas, annotated symmetrically using an average of data merged from 1,675 brain specimens. It provides spatial context and a common coordinate framework for mapping data in the Allen Mouse Connectivity Atlas, the Allen Cell Types Database (mouse), and the Allen Brain Observatory.				/p>				p>				132 virtual planes at 100 µm intervals				/p>			/div>						div classmore_info less data-atlas1>				p>The 2D coronal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 56. It provides the spatial context for in situ hybridization-based gene expression in the Allen Mouse Brain Atlas./p>132 coronal sections at 100 µm intervals			/div>						div classmore_info less data-atlas2>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 56. It provides the spatial context for in situ hybridization-based gene expression in the Allen Mouse Brain Atlas./p>21 sagittal sections at 200 µm intervals			/div>			/div>		div classright_container>			div classright-container-left-bit>				a href//connectivity.brain-map.org/3d-viewer target_blank>div classicon_container data-atlasthreeD stylebackground-image:url(/assets/3d_viewer_icon_white.png); background-size:cover;>/div>/a>				a hrefatlas?atlas602630314 target_blank>div classicon_container data-atlas602630314 stylebackground-image:url(/assets/atlas_coronal_2d.png); background-size:cover;>/div>/a>			/div>			div classother_atlases>				a hrefatlas?atlas1 target_blank>div classicon_container small data-atlas1 stylebackground-image:url(/assets/v3/2011-Coronal-small.jpg); background-size:cover;>/div>/a>				a hrefatlas?atlas2 target_blank>div classicon_container small data-atlas2 stylebackground-image:url(/assets/v3/2011-Sagittal-small.jpg); background-size:cover;>/div>/a>			/div>		/div>		/div>	div classdocs-row>		a href//help.brain-map.org/download/attachments/2818171/Mouse_Common_Coordinate_Framework.pdf>documentation/a>		|		a hrefhttp://connectivity.brain-map.org/static/referencedata targetmouse_supp_histology>reference histological data/a>		|		a hrefhttps://allensdk.rtfd.io/en/latest/reference_space.html targetmouse_supp_histology>SDK/a>		|		a hrefhttp://help.brain-map.org/display/mouseconnectivity/API targetmouse_supp_histology>API/a>		|		a hrefhttps://community.brain-map.org/t/allen-mouse-ccf-accessing-and-using-related-data-and-tools/359 targetmouse_supp_histology>Community Forum/a>		|		a hrefhttp://download.alleninstitute.org/publications/allen_mouse_brain_common_coordinate_framework/ targetmouse_supp_histology>Additional Reference Data/a>	/div>	div classrow>		div classleft_container>						div classless_info less container-legend>Adult Human/div>					div classblurb less>				These anatomical reference atlases illustrate the adult human brain, using modified Brodmann or gyral annotation.  			/div>					div classmore_info less data-atlas265297126>				p>The 2D coronal reference atlas is annotated on Nissl sections from a 34-year-old female based on a modified Brodmann nomenclature. It provides spatial context for gene expression in the Allen Human Brain Atlas and the BrainSpan Atlas of the Developing Human Brain./p>106 coronal sections at 0.4 - 3.4 mm intervals			/div>					div classmore_info less data-atlas138322605>			p>The 2D coronal reference atlas is annotated on Nissl sections from a 34-year-old female, by gyrus. It provides spatial context for gene expression in the Allen Human Brain Atlas and the BrainSpan Atlas of the Developing Human Brain./p>106 coronal sections at 0.4 - 3.4 mm intervals			/div>				/div>		div classright_container>			a hrefatlas?atlas265297126 target_blank>div classicon_container data-atlas265297126 stylebackground-image:url(/assets/v3/H-Adult-B-f.jpg); background-size:cover;>/div>/a>			a hrefatlas?atlas138322605 target_blank>div classicon_container data-atlas138322605 stylebackground-image:url(/assets/v3/H-Adult-G-f.jpg); background-size:cover;>/div>/a>					/div>	/div>	div classdocs-row>		a href//help.brain-map.org/display/devhumanbrain/Documentation?preview/3506181/7274568/BrainSpan_Reference_Atlas.pdf targetdoc>documentation/a>		|		a href//help.brain-map.org/display/humanbrain/Documentation?preview/2818165/6651925/HBA_Ontology-and-Nomenclature.pdf targetdoc>ontology/a>		|		a hrefhttp://www.brainspan.org/static/atlas targetdoc>supplemental histological data/a>		|		a hrefhttps://www.ncbi.nlm.nih.gov/pubmed/27418273 targetdoc>citation/a>		!-- | a hrefhttp://www.brainspan.org/static/atlas targetref>reference data/a> | a hrefhttps://www.ncbi.nlm.nih.gov/pubmed/24695229 targetpub>publication/a> -->	/div>	div classrow>		div classleft_container>						div classless_info less  container-legend>Developing Mouse/div>					div classblurb less>				These anatomical reference atlases illustrate the developing mouse brain, covering seven stages of embryonic (E) and postnatal (P) development.  Dr. Luis Puelles used a custom developmental taxonomy for annotation of the Allen Developing Mouse Brain Reference Atlases. 			/div>					div classmore_info less data-atlas181276165>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 56 (P56). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>21 sagittal sections at 200 µm intervals			/div>						div classmore_info less data-atlas181276164>			 p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 14 (P14). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>39 sagittal sections at 125 µm intervals			/div>						div classmore_info less data-atlas181276162>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, postnatal day 4 (P4). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>23 sagittal sections at 160 µm intervals			/div>			div classmore_info less data-atlas181276160>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 18.5 (E18.5) or Theiler stage 26 (TS26). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>19 sagittal sections at 120 µm intervals			/div>						div classmore_info less data-atlas181276151>			 p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 15.5 (E15.5) or Theiler stage 24 (TS24). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>16 sagittal sections at 120 µm intervals			/div>						div classmore_info less data-atlas181276130>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 13.5 (E13.5) or Theiler stage 21 (TS21). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>15 sagittal sections at 100 µm intervals			/div>						div classmore_info less data-atlas181275741>			p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a single adult male C57Bl6 mouse, embryonic day 11.5 (E11.5) or Theiler stage 19 (TS19). It provides the spatial context for in situ hybridization-based gene expression in the Allen Developing Mouse Brain Atlas./p>28 sagittal sections at 40 µm intervals			/div>		/div>		div classright_container>			div classright-container-left-bit dev_mouse>				div classother_dev_mouse_atlases>					a hrefatlas?atlas181275741 target_blank>div classicon_container small data-atlas181275741 stylebackground-image:url(/assets/v3/M-E11_5-f.jpg); background-size:cover;>/div>/a>					a hrefatlas?atlas181276130 target_blank>div classicon_container small data-atlas181276130 stylebackground-image:url(/assets/v3/M-E13_5-f.jpg); background-size:cover;>/div>/a>									a hrefatlas?atlas181276151 target_blank>div classicon_container small data-atlas181276151 stylebackground-image:url(/assets/v3/M-E15_5-f.jpg); background-size:cover;>/div>/a>				/div>				div classother_dev_mouse_atlases>					a hrefatlas?atlas181276160 target_blank>div classicon_container small data-atlas181276160 stylebackground-image:url(/assets/v3/M-E18_5-f.jpg); background-size:cover;>/div>/a>														a hrefatlas?atlas181276162 target_blank>div classicon_container small data-atlas181276162 stylebackground-image:url(/assets/v3/M-P4-f.jpg); background-size:cover;>/div>/a>										a hrefatlas?atlas181276164 target_blank>div classicon_container small data-atlas181276164 stylebackground-image:url(/assets/v3/M-P14-f.jpg); background-size:cover;>/div>/a>				/div>			/div>			div classright-container-right-bit>				a hrefatlas?atlas181276165 target_blank>div classicon_container small data-atlas181276165 stylebackground-image:url(/assets/v3/M-P56-f.jpg); background-size:cover;>/div>/a>			/div>		/div>	/div>	div classdocs-row>		a href//help.brain-map.org/download/attachments/4325389/ReferenceAtlas_DevMouse.pdf?version1&modificationDate1370999986479&apiv2>documentation/a> | a hrefhttp://developingmouse.brain-map.org/static/atlas targetref>SUPPLEMENTAL HISTOLOGICAL DATA /a>	/div>	div classrow>		div classleft_container>						div classless_info less  container-legend>Developing Human/div>					div classblurb less>				These anatomical reference atlases illustrate the developing human brain, covering two embryonic stages.   			/div>					div classmore_info less data-atlas138322603>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an embryo at 15 weeks post-conception (15 pcw). It provides the spatial context for gene expression in the BrainSpan Atlas of the Developing Human Brain. /p>46 coronal sections at 0.5 to 1.0 mm intervals			/div>						div classmore_info less data-atlas3>			 	p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an embryo at 21 weeks post-conception (21 pcw). It provides the spatial context for gene expression in the BrainSpan Atlas of the Developing Human Brain./p>81 coronal sections from the cerebrum at 0.5 to 1.2 mm intervals			/div>						div classmore_info less data-atlas287730656>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an embryo at 21 weeks post-conception (21 pcw). It provides the spatial context for gene expression in the BrainSpan Atlas of the Developing Human Brain./p>41 transverse sections from the brainstem at 0.25 to 0.5 mm intervals			/div>		/div>		div classright_container>			a hrefatlas?atlas138322603 target_blank>div classicon_container medium data-atlas138322603 stylebackground-image:url(/assets/v3/H-15-pcw-f.jpg); background-size:cover;>/div>/a>			a hrefatlas?atlas3 target_blank>div classicon_container medium data-atlas3 stylebackground-image:url(/assets/v3/H-21-pcw-cb-f.jpg); background-size:cover;>/div>/a>			a hrefatlas?atlas287730656 target_blank>div classicon_container medium data-atlas287730656 stylebackground-image:url(/assets/v3/H-21-pcw-bs-f.jpg); background-size:cover;>/div>/a>		/div>	/div>	div classdocs-row>		a href//help.brain-map.org/display/devhumanbrain/Documentation?preview/3506181/7274568/BrainSpan_Reference_Atlas.pdf targetdoc>documentation/a> 		| a href//help.brain-map.org/download/attachments/3506181/Ontology_and_Nomenclature.pdf?version1&modificationDate1382036553218&apiv2 targetref>ontology/a>		| a hrefhttp://www.brainspan.org/static/atlas targetref>SUPPLEMENTAL HISTOLOGICAL DATA/a>	/div>	div classrow>		div classleft_container>						div classless_info less  container-legend>Mouse Spinal Cord/div>					div classblurb less>				These anatomical reference atlases illustrate the mouse spinal cord in adult and juvenile C57Bl6 mouse.  They provide a spatial map for the Allen Mouse Spinal Cord Atlases of gene expression.  Dr. Charles Watson and Dr, Gulgun Kayalioglu created a custom taxonomy for annotation of the spinal cord, covering cervical, thoracic, lumbar, sacral, and coccygeal segments.			/div>					div classmore_info less data-atlas101056386>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from a juvenile male C57Bl6 mouse, postnatal day 4 (P4). It provides the spatial context for in situ hybridization-based gene expression in Allen Mouse Spinal Cord Atlas./p>34 transverse sections at 2 mm intervalsbr/>span classflash_warn>Note: Image viewer functionality may not be supported in current web browsers/span>			/div>					div classmore_info less data-atlas101006525>				p>The 2D sagittal reference atlas is annotated on Nissl sections collected from an adult male C57Bl6 mouse, postnatal day 56 (P56). It provides the spatial context for in situ hybridization-based gene expression in Allen Mouse Spinal Cord Atlas./p>34 transverse sections at 2 mm intervalsbr/>span classflash_warn>Note: Image viewer functionality may not be supported in current web browsers/span>			/div>			/div>		div classright_container>			a hrefhttp://mousespinal.brain-map.org/siv?imageId101056386 target_blank>div classicon_container medium data-atlas101056386 stylebackground-image:url(/assets/v3/M-SC-P4-f2.jpg); background-size:cover;>/div>/a>			a hrefhttp://mousespinal.brain-map.org/siv?imageId101006525 target_blank>div classicon_container medium data-atlas101006525 stylebackground-image:url(/assets/v3/M-SC-P56-f2.jpg); background-size:cover;>/div>/a>		/div>	/div>	div classdocs-row>		a hrefhttp://mousespinal.brain-map.org/spinal/common/content/ReferenceAtlas.pdf targetdoc>documentation/a> | a hrefhttp://mousespinal.brain-map.org/imageseries/showref.html  targetref>reference data/a>	/div>/div>script>var ua  navigator.userAgent;var doc  document.getElementsByTagName(body)0;if( (ua.match(/rv:11.0/i)) || (ua.match(/MSIE 10.0/i)) || (ua.match(/Edge/i)) ) {	doc.className  doc.className + ie;}jQuery(document).ready(function() {	console.log(doc ready);	var icons  jQuery(.icon_container);	icons.on(mouseover, function() {		show_more_info(this, true, this.getAttribute(data-atlas));	});	icons.on(mouseout, function() {		show_more_info(this, false);	});		});function show_more_info(node, show, atlas_id) {	var grandparent  jQuery(node).closest(.row);	if(show) {		grandparent.find(.less_info).removeClass(less);		grandparent.find(.blurb).removeClass(less);		grandparent.find(.more_infodata-atlas+atlas_id+).removeClass(less);	} else {		grandparent.find(.more_info).addClass(less);		grandparent.find(.less_info).addClass(less);		grandparent.find(.blurb).addClass(less);	}}	/script>        div classseparator>/div>        div classseparator>/div>        div classseparator>/div>        div classseparator>/div>        script src//www.brain-map.org/external_assets/javascripts/portalFooter.js typetext/javascript>/script>       /div>    /body>/html>

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api.brain-map.org	2025-04-14	44.230.237.159
atlas.brain-map.org	2025-11-25	44.230.142.100
www.brain-map.org	2024-11-25	163.123.189.31

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