Allen Brain Atlas-Driven Visualizations: a web-based gene expression energy visualization tool

Abstract

The Allen Brain Atlas-Driven Visualizations (ABADV) is a publicly accessible web-based tool created to retrieve and visualize expression energy data from the Allen Brain Atlas (ABA) across multiple genes and brain structures. Though the ABA offers their own search engine and software for researchers to view their growing collection of online public data sets, including extensive gene expression and neuroanatomical data from human and mouse brain, many of their tools limit the amount of genes and brain structures researchers can view at once. To complement their work, ABADV generates multiple pie charts, bar charts and heat maps of expression energy values for any given set of genes and brain structures. Such a suite of free and easy-to-understand visualizations allows for easy comparison of gene expression across multiple brain areas. In addition, each visualization links back to the ABA so researchers may view a summary of the experimental detail. ABADV is currently supported on modern web browsers and is compatible with expression energy data from the Allen Mouse Brain Atlas in situ hybridization data. By creating this web application, researchers can immediately obtain and survey numerous amounts of expression energy data from the ABA, which they can then use to supplement their work or perform meta-analysis. In the future, we hope to enable ABADV across multiple data resources.

A Cross-Species Systems Genetics Analysis Links APBB1IP as a Candidate for Schizophrenia and Prepulse Inhibition

“…Adapted from www.gtexportal.org. Lein et al, 2007;Sunkin et al, 2013;Zaldivar and Krichmar, 2014). The data is from Apbb1ip probe RP_050111_02_C07, with data taken from a sagittal cut from a 56-day old male C57BL/6J.…”

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Utilization of the allen gene expression atlas to gain further insight into glucocorticoid physiology in the adult mouse brain

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Maternally responsive neurons in the bed nucleus of the stria terminalis and medial preoptic area: Putative circuits for regulating anxiety and reward

“…This information was originally derived from the Allen Brain Atlas in situ mouse brain database 110 . Recently, a web-based tool has become available by the Allen Brain Atlas to visual gene expression within specified structures of the mouse brain 111 . In Figure 2B, we have created a heat map of relative gene expression levels within the POA and BNST.…”