A Transcriptomic Atlas of Mouse Neocortical Layers
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Chris P. Ponting | Elliott H. Margulies | T. Grant Belgard | Zoltán Molnár | Peter L. Oliver | C. Ponting | H. Abaan | E. H. Margulies | Z. Molnár | A. Hoerder-Suabedissen | T. G. Belgard | P. Oliver | A. C. Marques | T. Sirey | Fernando García-Moreno | Ana C. Marques | Hatice Ozel Abaan | Tamara M. Sirey | Anna Hoerder-Suabedissen | F. García-Moreno | E. Margulies | Chris P. Ponting | T. G. Belgard | Peter L. Oliver | C. P. Ponting | Ana C. Marques | Elliott H. Margulies
[1] P. Emson,et al. Localization of LRRK2 to membranous and vesicular structures in mammalian brain , 2006, Annals of neurology.
[2] Cole Trapnell,et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. , 2010, Nature biotechnology.
[3] Steve Horvath,et al. Molecular Systems Biology 5; Article number 291; doi:10.1038/msb.2009.46 Citation: Molecular Systems Biology 5:291 , 2022 .
[4] T. Takumi,et al. Fez1 is layer‐specifically expressed in the adult mouse neocortex , 2004, The European journal of neuroscience.
[5] V. Tarabykin,et al. Molecular mechanisms of cortical differentiation , 2006, The European journal of neuroscience.
[6] Paola Arlotta,et al. Neuronal Subtype-Specific Genes that Control Corticospinal Motor Neuron Development In Vivo , 2005, Neuron.
[7] Lydia Ng,et al. Areal and laminar differentiation in the mouse neocortex using large scale gene expression data. , 2010, Methods.
[8] Mary Goldman,et al. The UCSC Genome Browser database: update 2011 , 2010, Nucleic Acids Res..
[9] Lincoln Stein,et al. Reactome: a database of reactions, pathways and biological processes , 2010, Nucleic Acids Res..
[10] Zhuohua Zhang,et al. Differential distribution of KChIPs mRNAs in adult mouse brain. , 2004, Brain research. Molecular brain research.
[11] T. Hashikawa,et al. Binding and complementary expression patterns of semaphorin 3E and plexin D1 in the mature neocortices of mice and monkeys , 2006, The Journal of comparative neurology.
[12] M. Ashburner,et al. Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.
[13] Pasko Rakic,et al. Radial Columns in Cortical Architecture: It Is the Composition That Counts , 2010, Cerebral cortex.
[14] I. Fujita,et al. Er81 is expressed in a subpopulation of layer 5 neurons in rodent and primate neocortices , 2006, Neuroscience.
[15] S. Mayer,et al. Hematoma growth is a determinant of mortality and poor outcome after intracerebral hemorrhage , 2006, Neurology.
[16] J. Bolz,et al. Connecting thalamus and cortex: the role of ephrins. , 2006, The anatomical record. Part A, Discoveries in molecular, cellular, and evolutionary biology.
[17] T. Mikkelsen,et al. Genome-scale DNA methylation maps of pluripotent and differentiated cells , 2008, Nature.
[18] Coronary artery disease is associated with Alzheimer disease neuropathology in APOE4 carriers. , 2006, Neurology.
[19] P. Arlotta,et al. Neuronal subtype specification in the cerebral cortex , 2007, Nature Reviews Neuroscience.
[20] H. Markram,et al. Interneurons of the neocortical inhibitory system , 2004, Nature Reviews Neuroscience.
[21] Danica Stanimirovic,et al. Engaging neuroscience to advance translational research in brain barrier biology , 2011, Nature Reviews Neuroscience.
[22] Allan R. Jones,et al. Surface-based mapping of gene expression and probabilistic expression maps in the mouse cortex. , 2010, Methods.
[23] David Haussler,et al. The UCSC Genome Browser database: update 2010 , 2009, Nucleic Acids Res..
[24] P. Rakic. Evolution of the neocortex: Perspective from developmental biology , 2010 .
[25] Z. Molnár,et al. Gene expression analysis of the embryonic subplate. , 2012, Cerebral cortex.
[26] Susumu Goto,et al. The KEGG resource for deciphering the genome , 2004, Nucleic Acids Res..
[27] Heiko J Luhmann,et al. The subplate and early cortical circuits. , 2010, Annual review of neuroscience.
[28] K. Brodmann. Vergleichende Lokalisationslehre der Großhirnrinde : in ihren Prinzipien dargestellt auf Grund des Zellenbaues , 1985 .
[29] K. Amunts,et al. Centenary of Brodmann's Map — Conception and Fate , 2022 .
[30] D. Haussler,et al. Human-mouse alignments with BLASTZ. , 2003, Genome research.
[31] Daniel Rios,et al. Ensembl 2011 , 2010, Nucleic Acids Res..
[32] Allan R. Jones,et al. Genome-wide atlas of gene expression in the adult mouse brain , 2007, Nature.
[33] Blaz Zupan,et al. Orange: From Experimental Machine Learning to Interactive Data Mining , 2004, PKDD.
[34] David Haussler,et al. Identification and Classification of Conserved RNA Secondary Structures in the Human Genome , 2006, PLoS Comput. Biol..
[35] Isabelle M. Mansuy,et al. Dendritic Spine Loss and Synaptic Alterations in Alzheimer’s Disease , 2008, Molecular Neurobiology.
[36] Z. Molnár,et al. Towards the classification of subpopulations of layer V pyramidal projection neurons , 2006, Neuroscience Research.
[37] Peter Stoilov,et al. Homologues of the Caenorhabditis elegans Fox-1 Protein Are Neuronal Splicing Regulators in Mammals , 2005, Molecular and Cellular Biology.
[38] L. Dauphinot,et al. Characterization of a new brain-specific isoform of the EWS oncoprotein. , 2001, European journal of biochemistry.
[39] Lior Pachter,et al. Sequence Analysis , 2020, Definitions.
[40] William Stafford Noble,et al. Non-parametric estimation of posterior error probabilities associated with peptides identified by tandem mass spectrometry , 2008, ECCB.
[41] J. Olson,et al. Conservation of Regional Gene Expression in Mouse and Human Brain , 2007, PLoS genetics.
[42] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[43] R. Krüger,et al. Balance is the challenge – The impact of mitochondrial dynamics in Parkinson’s disease , 2010, European journal of clinical investigation.
[44] T. Wiesel,et al. Morphology and intracortical projections of functionally characterised neurones in the cat visual cortex , 1979, Nature.
[45] E. Terwilliger,et al. Selective gene expression in brain microglia mediated via adeno-associated virus type 2 and type 5 vectors , 2003, Gene Therapy.
[46] P. Greengard,et al. DARPP-32, a dopamine- and adenosine 3':5'-monophosphate-regulated phosphoprotein enriched in dopamine-innervated brain regions. III. Immunocytochemical localization , 1984, The Journal of neuroscience : the official journal of the Society for Neuroscience.
[47] C. Ponting,et al. Evolution and Functions of Long Noncoding RNAs , 2009, Cell.
[48] P. Hof,et al. The impact of vascular burden on late-life depression , 2009, Brain Research Reviews.
[49] X. F. Wang,et al. NMDA receptors in layers II and III of rat cerebral cortex , 1994, Brain Research.
[50] Jelliffe. Vergleichende Lokalisationslehre der Grosshirnrinde , 1910 .
[51] T. Derrien,et al. Long Noncoding RNAs with Enhancer-like Function in Human Cells , 2010, Cell.
[52] C. Ponting,et al. Transcribed dark matter: meaning or myth? , 2010, Human molecular genetics.
[53] M. Hasan,et al. Differences in the regulation of microtubule stability by the pro‐rich region variants of microtubule‐associated protein 4 , 2006, FEBS letters.
[54] Weixiong Zhang,et al. Variations in the transcriptome of Alzheimer's disease reveal molecular networks involved in cardiovascular diseases , 2008, Genome Biology.
[55] Henry Markram,et al. Interneuron Diversity series: Molecular and genetic tools to study GABAergic interneuron diversity and function , 2004, Trends in Neurosciences.
[56] C. W. Ragsdale,et al. Molecular analysis of neocortical layer structure in the ferret , 2010, The Journal of comparative neurology.
[57] A. Thomson,et al. Interlaminar connections in the neocortex. , 2003, Cerebral cortex.
[58] N. Yamamoto,et al. Cooperative activity of multiple upper layer proteins for thalamocortical axon growth , 2008, Developmental neurobiology.
[59] T. Mikkelsen,et al. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells , 2007, Nature.
[60] Laurent Gil,et al. Ensembl variation resources , 2010, BMC Genomics.
[61] A. Peters,et al. Neuronal organization in area 17 of cat visual cortex. , 1993, Cerebral cortex.
[62] 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.
[63] N. Heintz. Gene Expression Nervous System Atlas (GENSAT) , 2004, Nature Neuroscience.
[64] Robert F. Hevner,et al. Transcription factors in glutamatergic neurogenesis: Conserved programs in neocortex, cerebellum, and adult hippocampus , 2006, Neuroscience Research.
[65] B. Williams,et al. Mapping and quantifying mammalian transcriptomes by RNA-Seq , 2008, Nature Methods.
[66] Yong Zhang,et al. CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine , 2007, Nucleic Acids Res..
[67] E. G. Jones,et al. Cortical and subcortical contributions to activity-dependent plasticity in primate somatosensory cortex. , 2000, Annual review of neuroscience.
[68] N. Wood,et al. Expanding insights of mitochondrial dysfunction in Parkinson's disease , 2006, Nature Reviews Neuroscience.
[69] G. Kreiman,et al. Widespread transcription at neuronal activity-regulated enhancers , 2010, Nature.
[70] R. Douglas,et al. Neuronal circuits of the neocortex. , 2004, Annual review of neuroscience.
[71] Jon H. Kaas,et al. The evolution of the complex sensory and motor systems of the human brain , 2008, Brain Research Bulletin.
[72] C Rosendorff,et al. Coronary artery disease is associated with Alzheimer disease neuropathology in APOE4 carriers , 2006, Neurology.
[73] Steve D. M. Brown,et al. A Mutation in Af4 Is Predicted to Cause Cerebellar Ataxia and Cataracts in the Robotic Mouse , 2003, The Journal of Neuroscience.
[74] C. Ponting,et al. Genomic and Transcriptional Co-Localization of Protein-Coding and Long Non-Coding RNA Pairs in the Developing Brain , 2009, PLoS genetics.
[75] Damian Smedley,et al. BioMart – biological queries made easy , 2009, BMC Genomics.
[76] Ziheng Yang,et al. PAML: a program package for phylogenetic analysis by maximum likelihood , 1997, Comput. Appl. Biosci..
[77] C. Walsh,et al. Expression of Cux‐1 and Cux‐2 in the subventricular zone and upper layers II–IV of the cerebral cortex , 2004, The Journal of comparative neurology.
[78] Galt P. Barber,et al. BigWig and BigBed: enabling browsing of large distributed datasets , 2010, Bioinform..
[79] C. Ponting,et al. Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness , 2009, Genome Biology.
[80] T. Maeda,et al. Detailed noradrenaline pathways of locus coeruleus neuron to the cerebral cortex with use of 6-hydroxydopa. , 1974, Brain research.
[81] S. Horvath,et al. Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways , 2010, Proceedings of the National Academy of Sciences.
[82] S. Luo,et al. High-Resolution Analysis of Parent-of-Origin Allelic Expression in the Mouse Brain , 2010, Science.
[83] M. Kalloniatis,et al. Oligodendrocyte positioning in cerebral cortex is independent of projection neuron layering , 2009, Glia.
[84] Judith A. Blake,et al. The Mouse Genome Database (MGD): premier model organism resource for mammalian genomics and genetics , 2010, Nucleic Acids Res..
[85] Crispin J. Miller,et al. A comparison of massively parallel nucleotide sequencing with oligonucleotide microarrays for global transcription profiling , 2010, BMC Genomics.
[86] T. Noguchi,et al. An isoform of microtubule-associated protein 4 inhibits kinesin-driven microtubule gliding. , 2007, Journal of biochemistry.
[87] S. Nelson,et al. The problem of neuronal cell types: a physiological genomics approach , 2006, Trends in Neurosciences.
[88] William Stafford Noble,et al. Matrix2png: a utility for visualizing matrix data , 2003, Bioinform..
[89] O. Paulsen,et al. Novel markers reveal subpopulations of subplate neurons in the murine cerebral cortex. , 2009, Cerebral cortex.
[90] J. Rubenstein,et al. T-Brain-1: A homolog of Brachyury whose expression defines molecularly distinct domains within the cerebral cortex , 1995, Neuron.
[91] Cole Trapnell,et al. Improving RNA-Seq expression estimates by correcting for fragment bias , 2011, Genome Biology.
[92] F. Conti,et al. Neuronal and glial localization of NMDA receptors in the cerebral cortex , 1997, Molecular Neurobiology.
[93] V. Perry,et al. Immunohistochemical localization of macrophages and microglia in the adult and developing mouse brain , 1985, Neuroscience.
[94] W. Cleveland,et al. Locally Weighted Regression: An Approach to Regression Analysis by Local Fitting , 1988 .
[95] J F Fulton,et al. Physiology of the Nervous System , 1939, Science.