A High-Resolution Anatomical Atlas of the Transcriptome in the Mouse Embryo

The manuscript describes the “digital transcriptome atlas” of the developing mouse embryo, a powerful resource to determine co-expression of genes, to identify cell populations and lineages and to identify functional associations between genes relevant to development and disease.

[1]  EMAGE: a spatial database of gene expression patterns during mouse embryo development , 2005, Nucleic Acids Res..

[2]  N. Danbolt.  Glutamate uptake , 2001, Progress in Neurobiology.

[3]  J T Eppig,et al.  A database for mouse development. , 1994, Science.

[4]  J. Rubenstein,et al.  The embryonic vertebrate forebrain: the prosomeric model. , 1994, Science.

[5]  Courtney M. Karner,et al.  Molecular regulation of kidney development: is the answer blowing in the Wnt? , 2007, Pediatric Nephrology.

[6]  S. Orkin,et al.  The journey of developing hematopoietic stem cells , 2006, Development.

[7]  G. Rubin,et al.  Global analysis of patterns of gene expression during Drosophila embryogenesis , 2007, Genome Biology.

[8]  K. Schmidt-Ott,et al.  WNT/beta-catenin signaling in nephron progenitors and their epithelial progeny. , 2008, Kidney international.

[9]  Seth Blackshaw,et al.  A genomic atlas of mouse hypothalamic development , 2010, Nature Neuroscience.

[10]  F. Lemaigre.  Mechanisms of liver development: concepts for understanding liver disorders and design of novel therapies. , 2009, Gastroenterology.

[11]  I. Weissman,et al.  Circulation and Chemotaxis of Fetal Hematopoietic Stem Cells , 2004, PLoS biology.

[12]  L. Puelles,et al.  Early mammillary pouch specification in the course of prechordal ventralization of the forebrain tegmentum. , 2008, Developmental biology.

[13]  Pascal Kahlem,et al.  A gene expression map of human chromosome 21 orthologues in the mouse , 2002, Nature.

[14]  Luis Puelles,et al.  Forebrain gene expression domains and the evolving prosomeric model , 2003, Trends in Neurosciences.

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

[16]  L. Puelles.  Contributions to Neuroembryology of Santiago Ramon y Cajal (1852-1934) and Jorge F. Tello (1880-1958). , 2009, The International journal of developmental biology.

[17]  Gregor Eichele,et al.  Human chromosome 21 gene expression atlas in the mouse , 2002, Nature.

[18]  G. Eichele,et al.  A transcriptome atlas of the mouse brain at cellular resolution , 2002, Current Opinion in Neurobiology.

[19]  Gregor Eichele,et al.  Comprehensive expression atlas of fibroblast growth factors and their receptors generated by a novel robotic in situ hybridization platform , 2005, Developmental dynamics : an official publication of the American Association of Anatomists.

[20]  A. I.,et al.  Neural Field Continuum Limits and the Structure–Function Partitioning of Cognitive–Emotional Brain Networks , 2023, Biology.

[21]  P. Tomançak,et al.  Global Analysis of mRNA Localization Reveals a Prominent Role in Organizing Cellular Architecture and Function , 2007, Cell.

[22]  William Stafford Noble,et al.  Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project , 2007, Nature.

[23]  S. Arber,et al.  Transcriptional mechanisms controlling motor neuron diversity and connectivity , 2008, Current Opinion in Neurobiology.

[24]  A. E. Wakil.  TOWARDS AN INTEGRATED VIEW OF Wnt SIGNALING IN MOUSE ADRENOCORTICAL FUNCTIONAL ZONATION , 2012 .

[25]  S. P. Fodor,et al.  Large-Scale Transcriptional Activity in Chromosomes 21 and 22 , 2002, Science.

[26]  R. Nusse,et al.  Towards an integrated view of Wnt signaling in development , 2009, Development.

[27]  S. Halford,et al.  VA Opsin-Based Photoreceptors in the Hypothalamus of Birds , 2009, Current Biology.

[28]  S. Martinez,et al.  Sonic hedgehog from the basal plate and the zona limitans intrathalamica exhibits differential activity on diencephalic molecular regionalization and nuclear structure , 2006, Neuroscience.

[29]  C. Stern,et al.  Segmental organization of embryonic diencephalon , 1993, Nature.

[30]  J. Graham,et al.  Architecture and function , 1993 .

[31]  Marcel H. Schulz,et al.  A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome , 2008, Science.

[32]  S. Martinez,et al.  The Development of the Thalamic Motor Learning Area Is Regulated by Fgf8 Expression , 2009, The Journal of Neuroscience.

[33]  A. McMahon,et al.  Atlas of gene expression in the developing kidney at microanatomic resolution. , 2008, Developmental cell.

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

[35]  B. Rexed.  The cytoarchitectonic organization of the spinal cord in the cat , 1952, The Journal of comparative neurology.

[36]  Gregor Eichele,et al.  GenePaint.org: an atlas of gene expression patterns in the mouse embryo , 2004, Nucleic Acids Res..

[37]  T. Curran,et al.  BGEM: An In Situ Hybridization Database of Gene Expression in the Embryonic and Adult Mouse Nervous System , 2006, PLoS biology.

[38]  Allan R. Jones,et al.  A robust and high-throughput Cre reporting and characterization system for the whole mouse brain , 2009, Nature Neuroscience.

[39]  B. Williams,et al.  Mapping and quantifying mammalian transcriptomes by RNA-Seq , 2008, Nature Methods.

[40]  Gregor Eichele,et al.  Regulatory Pathway Analysis by High-Throughput In Situ Hybridization , 2007, PLoS genetics.

[41]  Judith A. Blake,et al.  The mouse Gene Expression Database (GXD): updates and enhancements , 2004, Nucleic Acids Res..

[42]  L. Zon,et al.  Hematopoiesis: An Evolving Paradigm for Stem Cell Biology , 2008, Cell.

[43]  R Nieuwenhuys,et al.  The morphological pattern of the vertebrate brain. , 1999, European journal of morphology.