http://precedings.nature.com/tags/Allen%20Institute%20for%20Brain%20Science Recently posted documents tagged with 'Allen Institute for Brain Science' Nature Publishing Group en Nature Precedings http://precedings.nature.com/images/header_logo.gif http://precedings.nature.com http://dx.doi.org/10.1038/npre.2008.2202.1 This report contains a summary of expression patterns for genes that are enriched in the motor nucleus of the trigeminal nerve (V) of the pons. All data is derived from the Allen Brain Atlas (ABA) in situ hybridization mouse project. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the motor nucleus of the trigeminal nerve were compared to the values of its larger parent structure, in this case the pons, for the purpose of extracting regionally selective gene expression data. The highest ranking genes were manually curated and verified. 50 genes were then selected and compiled for expression analysis. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the motor nucleus of the trigeminal nerve and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2202.1 Mon, 18 Aug 2008 17:03:55 UTC Motor Nucleus of the Trigeminal Nerve doi:10.1038/npre.2008.2202.1 2008-08-18 Allen Institute for Brain Science Nature Precedings 2008-08-18T17:03:55Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2201.1 This report contains a summary of expression patterns for genes that are enriched in the facial motor nucleus (VII) of the medulla. All data is derived from the Allen Brain Atlas (ABA) in situ hybridization mouse project. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the facial motor nucleus were compared to the values of its larger parent structure, in this case the medulla, for the purpose of extracting regionally selective gene expression data. The highest ranking genes were manually curated and verified. 50 genes were then selected and compiled for expression analysis. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the facial motor nucleus and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2201.1 Mon, 18 Aug 2008 09:53:03 UTC Facial Motor Nucleus doi:10.1038/npre.2008.2201.1 2008-08-18 Allen Institute for Brain Science Nature Precedings 2008-08-18T09:53:03Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2198.1 This report contains a summary of expression patterns for genes that are enriched in the Edinger-Westphal nucleus (EW) of the midbrain. All data are derived from the Allen Brain Atlas (ABA) in situ hybridization mouse project. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the Edinger-Westphal nucleus were compared to the values of its larger parent structure, in this case the midbrain, for the purpose of extracting regionally selective gene expression data. The highest ranking genes were manually curated and verified. 50 genes were then selected and compiled for expression analysis. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the Edinger-Westphal nucleus and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2198.1 Mon, 18 Aug 2008 09:52:24 UTC Edinger-Westphal Nucleus doi:10.1038/npre.2008.2198.1 2008-08-18 Allen Institute for Brain Science Nature Precedings 2008-08-18T09:52:24Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2200.1 This report contains a summary of expression patterns for genes that are enriched in the Purkinje cell layer (CBXpu) of the cerebellum. All data is derived from the Allen Brain Atlas (ABA) in situ hybridization mouse project. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the CBXpu were compared to the values of its larger parent structure, in this case the cerebellar cortex, for the purpose of extracting regionally selective gene expression data. The highest ranking genes were manually curated and verified. 50 genes were then selected and compiled for expression analysis. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2200.1 Fri, 15 Aug 2008 16:31:41 UTC Cerebellar Cortex, Purkinje Cell Layer doi:10.1038/npre.2008.2200.1 2008-08-15 Allen Institute for Brain Science Nature Precedings 2008-08-15T16:31:41Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2094.1 This report contains a gene expression summary of the oculomotor nucleus, derived from the Allen Brain Atlas (ABA) in situ hybridization mouse data set. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the oculomotor nucleus were compared to the values of the macro/parent-structure, in this case the midbrain, for the purpose of extracting regionally selective gene expression data. The genes with the highest ranking selectivity ratios were manually curated and verified. 50 genes were then selected and compiled for expression characterization. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the oculomotor nucleus and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2094.1 Mon, 21 Jul 2008 12:42:17 UTC Oculomotor Nucleus doi:10.1038/npre.2008.2094.1 2008-07-21 Allen Institute for Brain Science Nature Precedings 2008-07-21T12:42:17Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2095.1 This report contains a gene expression summary of the dentate gyrus (DG), derived from the Allen Brain Atlas (ABA) in situ hybridization mouse data set. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the dentate gyrus were compared to the values of the macro/parent-structure, in this case the hippocampal region, for the purpose of extracting regionally selective gene expression data. The genes with the highest ranking selectivity ratios were manually curated and verified. 50 genes were then selected and compiled for expression characterization. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the dentate gyrus and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2095.1 Mon, 21 Jul 2008 09:20:34 UTC Dentate Gyrus doi:10.1038/npre.2008.2095.1 2008-07-21 Allen Institute for Brain Science Nature Precedings 2008-07-21T09:20:34Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2096.1 This report contains a gene expression summary of the CA2 pyramidal cell layer (CA2sp), derived from the Allen Brain Atlas (ABA) in situ hybridization mouse data set. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the CA2sp were compared to the values of the macro/parent-structure, in this case the pyramidal layer of Ammon’s Horn, for the purpose of extracting regionally selective gene expression data. The genes with the highest ranking selectivity ratios were manually curated and verified. 50 genes were then selected and compiled for expression characterization. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the CA2sp and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2096.1 Fri, 18 Jul 2008 21:23:34 UTC CA2 Pyramidal Layer doi:10.1038/npre.2008.2096.1 2008-07-18 Allen Institute for Brain Science Nature Precedings 2008-07-18T21:23:34Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2093.1 This report contains a gene expression summary of the anterior olfactory nucleus (AON), derived from the Allen Brain Atlas (ABA) in situ hybridization mouse data set. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the AON were compared to the values of the macro/parent-structure, in this case the olfactory areas, for the purpose of extracting regionally selective gene expression data. The genes with the highest ranking selectivity ratios were manually curated and verified. 50 genes were then selected and compiled for expression characterization. The experimental data for each gene may be accessed via the links provided; additional data in the sagittal plane may also be accessed using the ABA. Correlations between gene expression in the AON and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of the 50 genes selected for this report. http://dx.doi.org/10.1038/npre.2008.2093.1 Fri, 18 Jul 2008 20:07:51 UTC Anterior Olfactory Nucleus doi:10.1038/npre.2008.2093.1 2008-07-18 Allen Institute for Brain Science Nature Precedings 2008-07-18T20:07:51Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2055.1 This report contains a gene expression summary of the ventral posterior complex of the thalamus (VP), derived from the Allen Brain Atlas (ABA) in-situ hybridization (ISH) mouse data set. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the VP were compared to the values of the macro/parent-structure, in this case the thalamus, for the purpose of extracting regionally specific gene expression data. The highest ranking ratios were then manually curated and verified. The 50 Select Genes were compiled for expression characterization. The experimental data for each gene may be accessed via the links provided; complementary sagittal data may also be accessed using the ABA. Correlation between gene expression in the VP and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally and are presented below. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of these 50 Select Genes. http://dx.doi.org/10.1038/npre.2008.2055.1 Tue, 08 Jul 2008 16:47:19 UTC Ventral Posterior Complex of the Thalamus doi:10.1038/npre.2008.2055.1 2008-07-08 Allen Institute for Brain Science Nature Precedings 2008-07-08T16:47:19Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/ http://dx.doi.org/10.1038/npre.2008.2053.1 This report contains a gene expression summary of the area postrema (AP), derived from the Allen Brain Atlas (ABA) in-situ hybridization (ISH) mouse data set. The structure’s location and morphological characteristics in the mouse brain are described using the Nissl data found in the Allen Reference Atlas. Using an established algorithm, the expression values of the AP were compared to the values of the macro/parent-structure, in this case the medulla, for the purpose of extracting regionally specific gene expression data. The highest ranking ratios were then manually curated and verified. The 50 Select Genes were compiled for expression characterization. The experimental data for each gene may be accessed via the links provided; complementary sagittal data may also be accessed using the ABA. Correlation between gene expression in the AP and the rest of the brain, across all genes in the coronal dataset (~4300 genes), were derived computationally and are presented below. A gene ontology table (derived from DAVID Bioinformatics Resources 2007) is also included, highlighting possible functions of these 50 Select Genes. http://dx.doi.org/10.1038/npre.2008.2053.1 Tue, 08 Jul 2008 13:29:05 UTC Area Postrema doi:10.1038/npre.2008.2053.1 2008-07-08 Allen Institute for Brain Science Nature Precedings 2008-07-08T13:29:05Z Manuscript Genetics & Genomics Neuroscience http://creativecommons.org/licenses/by/3.0/