The Allen Brain Atlas: 5 years and beyond

[1]  Bruce G. Jenks A Self-Study Tutorial using the Allen Brain Explorer and Brain Atlas to Teach Concepts of Mammalian Neuroanatomy and Brain Function , 2009, Journal of undergraduate neuroscience education : JUNE : a publication of FUN, Faculty for Undergraduate Neuroscience.

[2]  Sean R. Eddy,et al.  A tool for identification of genes expressed in patterns of interest using the Allen Brain Atlas , 2009, Bioinform..

[3]  J. Park,et al.  Altered brain gene expression profiles associated with the pathogenesis of phenylketonuria in a mouse model. , 2009, Clinica chimica acta; international journal of clinical chemistry.

[4]  R. Dingledine,et al.  Quantitative transcriptional neuroanatomy of the rat hippocampus: Evidence for wide‐ranging, pathway‐specific heterogeneity among three principal cell layers , 2009, Hippocampus.

[5]  Allan R. Jones,et al.  An anatomic gene expression atlas of the adult mouse brain , 2009, Nature Neuroscience.

[6]  J. Satoh,et al.  Protein microarray analysis identifies human cellular prion protein interactors , 2009, Neuropathology and applied neurobiology.

[7]  H. Simon,et al.  Linkage of cDNA expression profiles of mesencephalic dopaminergic neurons to a genome-wide in situ hybridization database , 2009, Molecular Neurodegeneration.

[8]  P. Joyce,et al.  Downregulation of Ccnd1 and Hes6 in rat hippocampus after chronic exposure to the antidepressant paroxetine , 2008, Acta Neuropsychiatrica.

[9]  S. Sakakibara,et al.  Developmental and spatial expression pattern of α‐Taxilin in the rat central nervous system , 2008, The Journal of comparative neurology.

[10]  S. Horvath,et al.  Functional organization of the transcriptome in human brain , 2008, Nature Neuroscience.

[11]  Lu Lu,et al.  Dissection of a QTL Hotspot on Mouse Distal Chromosome 1 that Modulates Neurobehavioral Phenotypes and Gene Expression , 2008, PLoS genetics.

[12]  C. Levelt,et al.  Genetic control of experience‐dependent plasticity in the visual cortex , 2008, Genes, brain, and behavior.

[13]  R. Ramos,et al.  Cytoarchitecture and transcriptional profiles of neocortical malformations in inbred mice. , 2008, Cerebral cortex.

[14]  T. Prolla,et al.  Evolution of the Aging Brain Transcriptome and Synaptic Regulation , 2008, PloS one.

[15]  Chuan-Yun Li,et al.  Molecular Genetics of Addiction and Related Heritable Phenotypes , 2008, Annals of the New York Academy of Sciences.

[16]  Anna M. Lee,et al.  Protein Kinases and Addiction , 2008, Annals of the New York Academy of Sciences.

[17]  B. Tabakoff,et al.  Genomic Insights into Acute Alcohol Tolerance , 2008, Journal of Pharmacology and Experimental Therapeutics.

[18]  M. Lazdunski,et al.  Mtap2 Is a Constituent of the Protein Network That Regulates Twik-Related K+ Channel Expression and Trafficking , 2008, The Journal of Neuroscience.

[19]  N. Inestrosa,et al.  The role of Wnt signaling in neuronal dysfunction in Alzheimer's Disease , 2008, Molecular Neurodegeneration.

[20]  J. Mariani,et al.  Normal adult climbing fiber monoinnervation of cerebellar Purkinje cells in mice lacking MHC class I molecules , 2008, Developmental neurobiology.

[21]  A. Baude,et al.  Distribution of zinedin in the rat brain , 2008, Journal of neurochemistry.

[22]  Helgi B. Schiöth,et al.  Analysis of the network of feeding neuroregulators using the Allen Brain Atlas , 2008, Neuroscience & Biobehavioral Reviews.

[23]  N. Grahame,et al.  The genomic determinants of alcohol preference in mice , 2008, Mammalian Genome.

[24]  J. Sanes,et al.  Ome sweet ome: what can the genome tell us about the connectome? , 2008, Current Opinion in Neurobiology.

[25]  J. Nathans,et al.  An Essential Role for Frizzled5 in Neuronal Survival in the Parafascicular Nucleus of the Thalamus , 2008, The Journal of Neuroscience.

[26]  L. Honig,et al.  Retromer deficiency observed in Alzheimer's disease causes hippocampal dysfunction, neurodegeneration, and Aβ accumulation , 2008, Proceedings of the National Academy of Sciences.

[27]  P. Gorwood,et al.  Nrxn3 upregulation in the globus pallidus of mice developing cocaine addiction , 2008, Neuroreport.

[28]  Sean McWilliam,et al.  Origin, evolution, and biological role of miRNA cluster in DLK-DIO3 genomic region in placental mammals. , 2008, Molecular biology and evolution.

[29]  U. Francke,et al.  Comparative study of brain morphology in Mecp2 mutant mouse models of Rett syndrome , 2008, The Journal of comparative neurology.

[30]  Noriko Osumi,et al.  The Neurogenesis-Controlling Factor, Pax6, Inhibits Proliferation and Promotes Maturation in Murine Astrocytes , 2008, The Journal of Neuroscience.

[31]  John Aach,et al.  Identification of molecular markers of bipolar cells in the murine retina , 2008, The Journal of comparative neurology.

[32]  Janghoo Lim,et al.  Opposing effects of polyglutamine expansion on native protein complexes contribute to SCA1 , 2008, Nature.

[33]  S. Small,et al.  Retromer sorting: a pathogenic pathway in late-onset Alzheimer disease. , 2008, Archives of neurology.

[34]  C. Shaw,et al.  The insulin-like growth factor pathway is altered in spinocerebellar ataxia type 1 and type 7 , 2008, Proceedings of the National Academy of Sciences.

[35]  B. D. Rodgers,et al.  Clinical, agricultural, and evolutionary biology of myostatin: a comparative review. , 2008, Endocrine reviews.

[36]  Songsong Cao,et al.  Hypothesis-based RNAi screening identifies neuroprotective genes in a Parkinson's disease model , 2008, Proceedings of the National Academy of Sciences.

[37]  Y. Xing,et al.  A Transcriptome Database for Astrocytes, Neurons, and Oligodendrocytes: A New Resource for Understanding Brain Development and Function , 2008, The Journal of Neuroscience.

[38]  V. Gladyshev,et al.  Comparative Analysis of Selenocysteine Machinery and Selenoproteome Gene Expression in Mouse Brain Identifies Neurons as Key Functional Sites of Selenium in Mammals* , 2008, Journal of Biological Chemistry.

[39]  Zhou-Feng Chen,et al.  Involvement of P311 in the affective, but not in the sensory component of pain , 2008, Molecular pain.

[40]  Hong Wei Dong,et al.  Allen reference atlas : a digital color brain atlas of the C57Black/6J male mouse , 2008 .

[41]  Steven J. M. Jones,et al.  Identification of a set of genes showing regionally enriched expression in the mouse brain , 2008, BMC Neuroscience.

[42]  H. Schiöth,et al.  Expression profile of the entire family of Adhesion G protein-coupled receptors in mouse and rat , 2008, BMC Neuroscience.

[43]  Lydia Ng,et al.  Exploration and visualization of gene expression with neuroanatomy in the adult mouse brain , 2008, BMC Bioinformatics.

[44]  Michael Hawrylycz,et al.  Quantitative methods for genome-scale analysis of in situ hybridization and correlation with microarray data , 2008, Genome Biology.

[45]  Christopher Joseph Pal,et al.  Analyzing in situ gene expression in the mouse brain with image registration, feature extraction and block clustering , 2007, BMC Bioinformatics.

[46]  G. Uhl,et al.  Neurexin 3 polymorphisms are associated with alcohol dependence and altered expression of specific isoforms. , 2007, Human molecular genetics.

[47]  D. Posthuma,et al.  Exploring the functional role of the CHRM2 gene in human cognition: results from a dense genotyping and brain expression study , 2007, BMC Medical Genetics.

[48]  J. A. Dani,et al.  Regulation of synaptic transmission and plasticity by neuronal nicotinic acetylcholine receptors. , 2007, Biochemical pharmacology.

[49]  R. Ramos,et al.  Novel in silico Method for Teaching Cytoarchitecture, Cellular Diversity, and Gene Expression in the Mammalian Brain , 2007, Journal of undergraduate neuroscience education : JUNE : a publication of FUN, Faculty for Undergraduate Neuroscience.

[50]  J. Hohmann,et al.  Insights from spatially mapped gene expression in the mouse brain. , 2007, Human molecular genetics.

[51]  Michael E Phelps,et al.  A phenotypic small-molecule screen identifies an orphan ligand-receptor pair that regulates neural stem cell differentiation. , 2007, Chemistry & biology.

[52]  O. A. Cabello,et al.  Cilia Proteins Control Cerebellar Morphogenesis by Promoting Expansion of the Granule Progenitor Pool , 2007, The Journal of Neuroscience.

[53]  J. Chapman,et al.  Identification of Histidine‐Rich Glycoprotein, a Potential Autoantigen, in Human and Rat Brain Preparations , 2007, Annals of the New York Academy of Sciences.

[54]  Oscar A. Negrete,et al.  Single Amino Acid Changes in the Nipah and Hendra Virus Attachment Glycoproteins Distinguish EphrinB2 from EphrinB3 Usage , 2007, Journal of Virology.

[55]  Stephen E Von Stetina,et al.  Cell-specific microarray profiling experiments reveal a comprehensive picture of gene expression in the C. elegans nervous system , 2007, Genome Biology.

[56]  Michael Hawrylycz,et al.  NeuroBlast: a 3D spatial homology search tool for gene expression , 2007, BMC Neuroscience.

[57]  Brian B. Avants,et al.  Neuroinformatics for Genome-Wide 3-D Gene Expression Mapping in the Mouse Brain , 2007, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[58]  Winnie S. Liang,et al.  GAB2 Alleles Modify Alzheimer's Risk in APOE ɛ4 Carriers , 2007, Neuron.

[59]  Vukoslav Komnenovic,et al.  ApoER2/VLDL receptor and Dab1 in the rostral migratory stream function in postnatal neuronal migration independently of Reelin , 2007, Proceedings of the National Academy of Sciences.

[60]  Neil A. Ernst,et al.  Confirmation of region-specific patterns of gene expression in the human brain , 2007, Neurogenetics.

[61]  K. Mecklenburg Drosophila retinophilin contains MORN repeats and is conserved in humans , 2007, Molecular Genetics and Genomics.

[62]  Allan R. Jones,et al.  Genome-wide atlas of gene expression in the adult mouse brain , 2007, Nature.

[63]  Nan Guo,et al.  PANTHER version 6: protein sequence and function evolution data with expanded representation of biological pathways , 2006, Nucleic Acids Res..

[64]  Winnie S. Liang,et al.  GAB2 alleles modify Alzheimer's risk in APOE epsilon4 carriers. , 2007, Neuron.

[65]  Jason J. Corneveaux,et al.  Common Kibra Alleles Are Associated with Human Memory Performance , 2006, Science.

[66]  Ioannis A. Kakadiaris,et al.  Hybrid Segmentation Framework for Tissue Images Containing Gene Expression Data , 2005, MICCAI.

[67]  S. Salzberg,et al.  The Transcriptional Landscape of the Mammalian Genome , 2005, Science.

[68]  Tao Ju,et al.  A Digital Atlas to Characterize the Mouse Brain Transcriptome , 2005, PLoS Comput. Biol..

[69]  N. Heintz Gene Expression Nervous System Atlas (GENSAT) , 2004, Nature Neuroscience.

[70]  D. Geschwind GENSAT: a genomic resource for neuroscience research , 2004, Lancet Neurology.

[71]  Ryan D. Morin,et al.  The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). , 2004, Genome research.

[72]  Shiaoching Gong,et al.  A gene expression atlas of the central nervous system based on bacterial artificial chromosomes , 2003, Nature.

[73]  F. Collins,et al.  The Human Genome Project: Lessons from Large-Scale Biology , 2003, Science.

[74]  Tecan. The GenePaint System. , 2003, Molecular biotechnology.

[75]  L. Wodicka,et al.  Regional and strain-specific gene expression mapping in the adult mouse brain. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[76]  K Matsuda,et al.  Quantitative non-radioactive in situ hybridization study of GAP-43 and SCG10 mRNAs in the cerebral cortex of adult and infant macaque monkeys. , 1999, Cerebral cortex.

[77]  B. Alberts,et al.  The Human Genome Project after a decade: policy issues , 1998, Nature Genetics.

[78]  D. Hougaard,et al.  Non-radioactive in situ hybridization for mRNA with emphasis on the use of oligodeoxynucleotide probes , 1997, Histochemistry and Cell Biology.

[79]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.