# Allen Human Brain Atlas **URL:** https://community.brain-map.org/c/how-to/human-atlas/25.md [Latest](https://community.brain-map.org/latest.md) · [Categories](https://community.brain-map.org/categories.md) · [Tags](https://community.brain-map.org/tags.md) --- ## [Documentation: Human Brain Atlas](https://community.brain-map.org/t/documentation-human-brain-atlas/2879)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 0\ **Last updated:** [January 9, 2024, 4:09am UTC](https://community.brain-map.org/t/documentation-human-brain-atlas/2879 "2024-01-09T04:09:21Z")
Documentation: Allen Human Brain Atlas Document Description Microarray Survey Overview of methods for the microarray survey Microarray Data Normalization Description of normalization methods used for the microa… --- ## [How to: Allen Human Brain Atlas](https://community.brain-map.org/t/how-to-allen-human-brain-atlas/2869)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 1\ **Last updated:** [March 6, 2024, 1:14pm UTC](https://community.brain-map.org/t/how-to-allen-human-brain-atlas/2869 "2024-03-06T13:14:12Z")
This is the online help for the Allen Human Brain Atlas web application. The Dataset The Allen Human Brain Atlas is a unique multi-modal atlas of the human brain, integrating anatomic and genomic information and coupled… --- ## [Create 3D images?](https://community.brain-map.org/t/create-3d-images/3419)
**Author:** [@sabrawer](https://community.brain-map.org/u/sabrawer)\ **Replies:** 5\ **Last updated:** [September 14, 2026, 1:49pm UTC](https://community.brain-map.org/t/create-3d-images/3419 "2026-09-14T13:49:40Z")
Is there software to convert the coronal sections of the human brain atlas to 3D versions? I am interested in smaller areas of a few (5 - 10) successive sections. If not, is there a recommended CAD program to do this? --- ## [Download Human Brain Explorer 2 for Mac](https://community.brain-map.org/t/download-human-brain-explorer-2-for-mac/4850)
**Author:** [@jconrad](https://community.brain-map.org/u/jconrad)\ **Replies:** 3\ **Last updated:** [February 20, 2026, 9:00pm UTC](https://community.brain-map.org/t/download-human-brain-explorer-2-for-mac/4850 "2026-02-20T21:00:12Z")
Hi, I tried to download the Human Brain Explorer 2 for Mac. Unfortunately clicking the download button give a page not found error. Can you guide me to where I can download the viewer correctly. Thank you, Best regar… --- ## [Not able to download or view Human ISH data](https://community.brain-map.org/t/not-able-to-download-or-view-human-ish-data/4492)
**Author:** [@MPanday](https://community.brain-map.org/u/MPanday)\ **Replies:** 10\ **Last updated:** [August 19, 2025, 3:09pm UTC](https://community.brain-map.org/t/not-able-to-download-or-view-human-ish-data/4492 "2025-08-19T15:09:16Z")
Hello, I’ve been trying to access the Allen Human Brain Atlas ISH Database, and I have notived that I’m not able to view or download any image data from the website. I’m interacting with the cortex study, and this has b… --- ## [How to get white matter tract anisotropy](https://community.brain-map.org/t/how-to-get-white-matter-tract-anisotropy/4563)
**Author:** [@bricoyle](https://community.brain-map.org/u/bricoyle)\ **Replies:** 1\ **Last updated:** [August 11, 2025, 3:37pm UTC](https://community.brain-map.org/t/how-to-get-white-matter-tract-anisotropy/4563 "2025-08-11T15:37:46Z")
The Allen Brain Atlas contains valuable white matter tract data. How do we obtain white matter anisotropy, showing the direction of bundled axons? --- ## [Human Brain Atlas: In Situ Hybridization (ISH) Data](https://community.brain-map.org/t/human-brain-atlas-in-situ-hybridization-ish-data/2872)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 4\ **Last updated:** [May 1, 2025, 9:01pm UTC](https://community.brain-map.org/t/human-brain-atlas-in-situ-hybridization-ish-data/2872 "2025-05-01T21:01:26Z")
Searching Gene Search Search by Study Gene Classification Viewing Images Experiment Details Page Zoom and Pan (ZAP) Image Viewer High Resolution Image Viewer Specimen Detail Information Gene expression data is av… --- ## [Human Cortical Layer Markers](https://community.brain-map.org/t/human-cortical-layer-markers/4355)
**Author:** [@MPanday](https://community.brain-map.org/u/MPanday)\ **Replies:** 2\ **Last updated:** [May 1, 2025, 8:56pm UTC](https://community.brain-map.org/t/human-cortical-layer-markers/4355 "2025-05-01T20:56:30Z")
Hi There, A quick question. I know that the database can be filtered for a series of different disease or development gene families, but is there a list of cortical layer marker genes in documentation that I can access?… --- ## [Les colonnes et les lignes de MicroArray](https://community.brain-map.org/t/les-colonnes-et-les-lignes-de-microarray/3728)
**Author:** [@yousfi.smail](https://community.brain-map.org/u/yousfi.smail)\ **Replies:** 0\ **Last updated:** [October 3, 2024, 8:54am UTC](https://community.brain-map.org/t/les-colonnes-et-les-lignes-de-microarray/3728 "2024-10-03T08:54:59Z")
Une question toute bête pour une utilisateur non spécialisé. 946 colonnes et les 58692 lignes des Microarray, représente quoi et pourquoi les noms des lignes et colonnes ne sont pas renseignés --- ## [Allen Human Brain Atlas: Youtube tutorial](https://community.brain-map.org/t/allen-human-brain-atlas-youtube-tutorial/3517)
**Author:** [@SvenOtto](https://community.brain-map.org/u/SvenOtto)\ **Replies:** 0\ **Last updated:** [July 22, 2024, 4:49pm UTC](https://community.brain-map.org/t/allen-human-brain-atlas-youtube-tutorial/3517 "2024-07-22T16:49:52Z")
--- ## [Itksnap view of annotation files](https://community.brain-map.org/t/itksnap-view-of-annotation-files/3427)
**Author:** [@sabrawer](https://community.brain-map.org/u/sabrawer)\ **Replies:** 0\ **Last updated:** [June 26, 2024, 6:30pm UTC](https://community.brain-map.org/t/itksnap-view-of-annotation-files/3427 "2024-06-26T18:30:05Z")
I would like to view the same information as the human adult brain atlas web viewer, but in itksnap. I downloaded the annotation.nii and itksnap\_segmentation.nii files, but the views in itksnap are much coarser, with non… --- ## [Human Brain Atlas: Microarray Data Download](https://community.brain-map.org/t/human-brain-atlas-microarray-data-download/2874)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 3\ **Last updated:** [April 16, 2024, 1:26am UTC](https://community.brain-map.org/t/human-brain-atlas-microarray-data-download/2874 "2024-04-16T01:26:14Z")
Download Page The available options for downloading the microarray data include downloading the entire normalized data set for each brain by clicking on the text links in the box (as seen in the image below), or using th… --- ## [Relative size of microarray samples compared to cortical ribbon](https://community.brain-map.org/t/relative-size-of-microarray-samples-compared-to-cortical-ribbon/3074)
**Author:** [@leana.king](https://community.brain-map.org/u/leana.king)\ **Replies:** 2\ **Last updated:** [February 23, 2024, 8:06pm UTC](https://community.brain-map.org/t/relative-size-of-microarray-samples-compared-to-cortical-ribbon/3074 "2024-02-23T20:06:12Z")
Hi, I wanted to see if there is any way to view images of dissected tissue samples for microarray analyses relative to cortical sheet or ribbon it was taken from? For example, an image of a given slice of the cortex, wit… --- ## [Human Brain Atlas: API](https://community.brain-map.org/t/human-brain-atlas-api/2876)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 0\ **Last updated:** [January 8, 2024, 10:32pm UTC](https://community.brain-map.org/t/human-brain-atlas-api/2876 "2024-01-08T22:32:52Z")
ALLEN BRAIN ATLAS API Experimental Overview and Metadata Supplemental RNA-Sequencing Data Downloading Expression Values Differential Search Correlative Search Magnetic Resonance Imaging The Allen Human Brain Atlas i… --- ## [Human Brain Atlas: Microarray Data](https://community.brain-map.org/t/human-brain-atlas-microarray-data/2870)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 0\ **Last updated:** [January 8, 2024, 6:56pm UTC](https://community.brain-map.org/t/human-brain-atlas-microarray-data/2870 "2024-01-08T18:56:50Z")
Gene Search Boolean Syntax Differential Search Mouse Differential Search Search Results Gene Classification Correlative Search Download Search Results Data Visualization Data Aggregation and Normalization Heat Maps G… --- ## [Human Brain Atlas: Brain Explorer](https://community.brain-map.org/t/human-brain-atlas-brain-explorer/2875)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 0\ **Last updated:** [January 8, 2024, 9:59pm UTC](https://community.brain-map.org/t/human-brain-atlas-brain-explorer/2875 "2024-01-08T21:59:03Z")
BRAIN EXPLORER® 2 3-D VIEWER System Requirements Windows Minimum Configuration Mac Minimum Configuration Installation Windows Mac Installing Atlases Getting Updates Viewing Gene Expression Image Viewer Structure … --- ## [Human Brain Atlas: Magnetic Resonance Images (MRI)](https://community.brain-map.org/t/human-brain-atlas-magnetic-resonance-images-mri/2871)
**Author:** [@ray.sanchez](https://community.brain-map.org/u/ray.sanchez)\ **Replies:** 0\ **Last updated:** [January 8, 2024, 7:19pm UTC](https://community.brain-map.org/t/human-brain-atlas-magnetic-resonance-images-mri/2871 "2024-01-08T19:19:06Z")
Select the MRI tab to view the Microarray Specimen MRI page, or click on a Donor link over the microarray heatmap or in the Gene Detail or Probe Detail pages. The Microarray Specimen MRI page displays axial, coronal and…