2012-03-05T20:41:28-08:00
Resource:BrainSpan: Atlas of the Developing Human Brain
BrainSpan
curated
http://brainspan.org/
BrainSpan, an atlas of the developing human brain, is designed as a foundational resource for studying transcriptional mechanisms involved in human brain development. Created by a research consortium supported by three ARRA-funded grants through the National Institutes of Health, the atlas consists of a variety of data modalities and data mining tools, to be augmented incrementally through its completion in late 2011.
Data and Tools<br />
First, the atlas will provide high-resolution genome-wide transcriptional profiles of specific brain regions generated using cutting edge RNA Sequencing and exon microarray techniques. These data will provide comprehensive genomic coverage in targeted cortical and subcortical structures across the full course of human brain development. Up to 16 structures will be assayed over 13 developmental stages in males and females, generating approximately 1,000 unique biological samples for the atlas as a whole.
Second, the atlas will present the cellular distributions of a set of functionally important and anatomically restricted mRNA transcripts in the developing and adult human brain, generated using a standardized high throughput in situ hybridization (ISH) platform. These data will focus on five major brain regions during developmental periods clinically important for a variety of human neurodevelopmental disorders, including medial prefrontal cortex, primary visual cortex, hippocampus, amygdala and ventral striatum. One component of these data examines postnatal development for a set of genes and developmental stages designed to mirror the complementary NIH Blueprint Non-Human Primate (NHP) Atlas (www.blueprintnhpatlas.org). These data along with the Allen Developing Mouse Brain Atlas (developingmouse.brain-map.org) enable direct phylogenetic comparisons of gene expression patterns in human, macaque, and mouse. A second component focuses on the detailed adult expression patterns of genes implicated in various neurological and neuropsychiatric diseases including autism, schizophrenia, epilepsy, Parkinson's disease, and Alzheimer's disease. The final ISH data component delineates transcript distribution in the fetal brain for key genes involved in brain development.
Third, a series of imaging and/or histological reference atlases are being generated for each developmental stage to provide a neurodevelopmental and anatomical context for interpreting the transcriptome data. These atlases will consist of high resolution magnetic resonance imaging (MRI), multi-direction diffusion tensor imaging (DTI), and/or histological digital annotated reference atlases.
Finally, a suite of web-based tools will allow researchers to view, search and mine spatiotemporal gene expression patterns in the anatomical context of human brain development as well as link and integrate all data modalities. These data and tools are designed to provide a valuable public resource for researchers, educators and medical communities for relating specific transcriptional programs to processes of normal human brain development and to facilitate translational research into human neurological disease.
Consortium Members<br />
The atlas is being developed by a consortium consisting of the Allen Institute for Brain Science; Yale University (Nenad Sestan, Mark B. Gerstein); the Zilkha Neurogenetic Institute of the Keck School of Medicine of the University of Southern California (James A. Knowles, Pat Levitt); the Athinoula A. Martinos Center at Massachusetts General Hospital/Harvard Medical School and MIT HST/CSAIL (Bruce Fischl); and the University of California, Los Angeles (Daniel H. Geschwind), with strong collaborative support from the Genes, Cognition and Psychosis Program, which is part of the Intramural Research Program of NIMH, NIH (Thomas M. Hyde, Joel E. Kleinman, Daniel R. Weinberger).
The NIF Data Federation currently indexes 4 BrainSpan datasets: RNA-Seq exons, RNA-Seq exons summarized to genes, Exon microarray summarized to probe sets, and Exon microarray summarized to genes.
Category:RC2MH089921
Category:RC2MH090047
Category:RC2MH089929
nlx_58514
Resource:BrainSpan: Atlas of the Developing Human Brain
2011-10-18T00:00:00
BrainSpan - Atlas of the Developing Human Brain
Resource:BrainSpan: RNA-Seq exons summarized to genes
Resource:BrainSpan: RNA-Seq exons
Resource:BrainSpan: Exon microarray summarized to genes
Resource:BrainSpan: Exon microarray summarized to probe sets
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National Institute of Mental Health
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Molecular neuroanatomy resource
Gene expression
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University of Southern California Keck School of Medicine; California; USA
Yale University; Connecticut; USA
Resource:Allen Institute for Brain Science
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Expression atlas
Spatially referenced dataset
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File:BrainSpan - Atlas of the Developing Human Brain.PNG
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