Thomas Brody

Summary

Affiliation: National Institutes of Health
Country: USA

Publications

  1. ncbi Use of a Drosophila genome-wide conserved sequence database to identify functionally related cis-regulatory enhancers
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, Maryland 20892, USA
    Dev Dyn 241:169-89. 2012
  2. ncbi Horizontal gene transfers link a human MRSA pathogen to contagious bovine mastitis bacteria
    Thomas Brody
    The Neural Cell Fate Determinants Section, National Institutes of Health NIH, Bethesda, Maryland, USA
    PLoS ONE 3:e3074. 2008
  3. ncbi Sequence conservation and combinatorial complexity of Drosophila neural precursor cell enhancers
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, Maryland, USA
    BMC Genomics 9:371. 2008
  4. ncbi Regulation of temporal identities during Drosophila neuroblast lineage development
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, Maryland, USA
    Curr Opin Cell Biol 17:672-5. 2005
  5. ncbi cis-Decoder discovers constellations of conserved DNA sequences shared among tissue-specific enhancers
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, MD 20892, USA
    Genome Biol 8:R75. 2007
  6. ncbi Rapid detection and curation of conserved DNA via enhanced-BLAT and EvoPrinterHD analysis
    Amarendra S Yavatkar
    1Division of Intramural Research, Information Technology Program, NINDS, NIH, Bethesda, Maryland, USA
    BMC Genomics 9:106. 2008
  7. ncbi Conserved sequence block clustering and flanking inter-cluster flexibility delineate enhancers that regulate nerfin-1 expression during Drosophila CNS development
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, MD, USA
    Gene Expr Patterns 9:65-72. 2009
  8. ncbi Functional analysis of conserved sequences within a temporally restricted neural precursor cell enhancer
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH Bethesda, MD, USA
    Mech Dev 128:165-77. 2011
  9. ncbi EVOPRINTER, a multigenomic comparative tool for rapid identification of functionally important DNA
    Ward F Odenwald
    Neural Cell Fate Determinants Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD 20892, USA
    Proc Natl Acad Sci U S A 102:14700-5. 2005
  10. ncbi The cis-regulatory dynamics of the Drosophila CNS determinant castor are controlled by multiple sub-pattern enhancers
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH 9000 Rockville Pike, Bethesda, MD 20892, USA
    Gene Expr Patterns 12:261-72. 2012

Detail Information

Publications15

  1. ncbi Use of a Drosophila genome-wide conserved sequence database to identify functionally related cis-regulatory enhancers
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, Maryland 20892, USA
    Dev Dyn 241:169-89. 2012
    ..Currently, there is no systematic approach for enhancer discovery and analysis that takes full-advantage of the sequence information within enhancer CSCs...
  2. ncbi Horizontal gene transfers link a human MRSA pathogen to contagious bovine mastitis bacteria
    Thomas Brody
    The Neural Cell Fate Determinants Section, National Institutes of Health NIH, Bethesda, Maryland, USA
    PLoS ONE 3:e3074. 2008
    ..We have adapted the multi-genome alignment tool EvoPrinter to facilitate discovery of HGT DNA sequences within bacterial genomes and within their mobile genetic elements...
  3. ncbi Sequence conservation and combinatorial complexity of Drosophila neural precursor cell enhancers
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, Maryland, USA
    BMC Genomics 9:371. 2008
    ..We describe the use of EvoPrinter and cis-Decoder, a suite of interrelated phylogenetic footprinting and alignment programs, to characterize highly conserved sequences that are shared among co-regulating enhancers...
  4. ncbi Regulation of temporal identities during Drosophila neuroblast lineage development
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, Maryland, USA
    Curr Opin Cell Biol 17:672-5. 2005
    ..Recent studies shed light on regulatory inputs and timing mechanisms that generate temporally defined cell identities, and new contributions are beginning to establish a link between the temporal network and cell function...
  5. ncbi cis-Decoder discovers constellations of conserved DNA sequences shared among tissue-specific enhancers
    Thomas Brody
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, MD 20892, USA
    Genome Biol 8:R75. 2007
    ..Our findings suggest that enhancers employ overlapping repertoires of highly conserved core elements...
  6. ncbi Rapid detection and curation of conserved DNA via enhanced-BLAT and EvoPrinterHD analysis
    Amarendra S Yavatkar
    1Division of Intramural Research, Information Technology Program, NINDS, NIH, Bethesda, Maryland, USA
    BMC Genomics 9:106. 2008
    ..An EvoPrint reveals with near base-pair resolution those sequences that are essential for gene function...
  7. ncbi Conserved sequence block clustering and flanking inter-cluster flexibility delineate enhancers that regulate nerfin-1 expression during Drosophila CNS development
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, MD, USA
    Gene Expr Patterns 9:65-72. 2009
    ..In summary, EvoPrinter facilitates the discovery and analysis of enhancers that control crucial aspects of nerfin-1 expression...
  8. ncbi Functional analysis of conserved sequences within a temporally restricted neural precursor cell enhancer
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH Bethesda, MD, USA
    Mech Dev 128:165-77. 2011
    ..Our work also points to an unexpectedly large number of TFs required for optimal enhancer function - mutant TF analysis has identified at least four that are required for full enhancer regulation...
  9. ncbi EVOPRINTER, a multigenomic comparative tool for rapid identification of functionally important DNA
    Ward F Odenwald
    Neural Cell Fate Determinants Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD 20892, USA
    Proc Natl Acad Sci U S A 102:14700-5. 2005
    ..Also, evoprinter allows one to assess the degree of evolutionary divergence between orthologous DNAs by highlighting differences between a selected species and the other test species...
  10. ncbi The cis-regulatory dynamics of the Drosophila CNS determinant castor are controlled by multiple sub-pattern enhancers
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH 9000 Rockville Pike, Bethesda, MD 20892, USA
    Gene Expr Patterns 12:261-72. 2012
    ..Cas limits the expression of one enhancer while two others require cas function for full expression. These studies represent a starting point for the further analysis of cas gene expression and the TFs that regulate it...
  11. ncbi Nerfin-1 is required for early axon guidance decisions in the developing Drosophila CNS
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda MD 20892 4160, USA
    Dev Biol 277:347-65. 2005
    ..Our studies also show that Nerfin-1 is essential for the proper expression of robo2, wnt5, derailed, G-oalpha47A, Lar, and futsch, genes whose encoded proteins participate in these early navigational events...
  12. ncbi The Drosophila nerfin-1 mRNA requires multiple microRNAs to regulate its spatial and temporal translation dynamics in the developing nervous system
    Alexander Kuzin
    Neural Cell Fate Determinants Section, NINDS, NIH, Bethesda, MD, USA
    Dev Biol 310:35-43. 2007
    ....
  13. ncbi Cellular diversity in the developing nervous system: a temporal view from Drosophila
    Thomas Brody
    The Neurogenetics Unit, Laboratory of Neurochemistry, NINDS, NIH, Bethesda, MD, USA
    Development 129:3763-70. 2002
    ..Further investigation of the genetic programs that guide both invertebrate and vertebrate neural precursor cell lineage development will ultimately lead to an understanding of the molecular events that control neuronal diversity...
  14. ncbi cis-Regulatory Complexity within a Large Non-Coding Region in the Drosophila Genome
    Mukta Kundu
    Neural Cell Fate Determinants Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS ONE 8:e60137. 2013
    ..By extending these results to the rest of the Drosophila genome, which contains over 70,000 non-coding CSB clusters, we suggest that most function as enhancers...
  15. ncbi Identification of novel Drosophila neural precursor genes using a differential embryonic head cDNA screen
    Thomas Brody
    The Neurogenetics Unit, Laboratory of Neurochemistry, NINDS, NIH, Building 36, Room 4D02, 9000 Rockville Pike, Bethesda, MD 20892, USA
    Mech Dev 113:41-59. 2002
    ..bio.purdue.edu/fly/brain/ahome.htm)...