Greg Elgar

Summary

Affiliation: National Institute for Medical Research
Country: UK

Publications

  1. pmc Highly conserved non-coding sequences are associated with vertebrate development
    Adam Woolfe
    Medical Research Council Rosalind Franklin Centre for Genomics Research Hinxton, Cambridge, United Kingdom
    PLoS Biol 3:e7. 2005
  2. ncbi request reprint Identification and analysis of cis-regulatory elements in development using comparative genomics with the pufferfish, Fugu rubripes
    Greg Elgar
    MRC Rosalind Franklin Centre for Genomics Research, Genome Campus, Hinxton, Cambridgeshire CB10 1SB, UK
    Semin Cell Dev Biol 15:715-9. 2004
  3. pmc Functional analysis of conserved non-coding regions around the short stature hox gene (shox) in whole zebrafish embryos
    Emma J Kenyon
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, Cambridgeshire, United Kingdom
    PLoS ONE 6:e21498. 2011
  4. pmc Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans
    Tanya Vavouri
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Genome Biol 8:R15. 2007
  5. ncbi request reprint Comparative analysis of vertebrate Shh genes identifies novel conserved non-coding sequence
    Debbie K Goode
    Comparative Genomics Group, HGMP Resource Centre, Hinxton, Cambridge, CB10 1SB, UK
    Mamm Genome 14:192-201. 2003
  6. ncbi request reprint Molecular characterisation of the SAND protein family: a study based on comparative genomics, structural bioinformatics and phylogeny
    Amanda Cottage
    MRC Rosalind Franklin Centre for Genomic Research, Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Cell Mol Biol Lett 9:739-53. 2004
  7. ncbi request reprint Prediction of cis-regulatory elements using binding site matrices--the successes, the failures and the reasons for both
    Tanya Vavouri
    Comparative Genomics Group, MRC Rosalind Franklin Centre for Genomics Research, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Curr Opin Genet Dev 15:395-402. 2005
  8. pmc Fugu ESTs: new resources for transcription analysis and genome annotation
    Melody S Clark
    MRC Rosalind Franklin Centre for Genomics Research, formerly known as the MRC UK HGMP Resource Centre, Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Genome Res 13:2747-53. 2003
  9. ncbi request reprint Isolation and characterisation of the corticotropin releasing factor receptor 1 (CRFR1) gene in a teleost fish, Fugu rubripes
    João C Cardoso
    Comparative Genomics Group, MRC HGMP Resource Centre, Genome Campus, Hinxton, Cambridge CB10 1SB, UK
    DNA Seq 14:215-8. 2003
  10. ncbi request reprint AP1 genes in Fugu indicate a divergent transcriptional control to that of mammals
    Amanda J Cottage
    Medical Research Council, UK Human Genome Mapping Project Resource Centre, Hinxton, Cambridge, CB 10 1SB, UK
    Mamm Genome 14:514-25. 2003

Collaborators

Detail Information

Publications42

  1. pmc Highly conserved non-coding sequences are associated with vertebrate development
    Adam Woolfe
    Medical Research Council Rosalind Franklin Centre for Genomics Research Hinxton, Cambridge, United Kingdom
    PLoS Biol 3:e7. 2005
    ..These highly conserved non-coding sequences are likely to form part of the genomic circuitry that uniquely defines vertebrate development...
  2. ncbi request reprint Identification and analysis of cis-regulatory elements in development using comparative genomics with the pufferfish, Fugu rubripes
    Greg Elgar
    MRC Rosalind Franklin Centre for Genomics Research, Genome Campus, Hinxton, Cambridgeshire CB10 1SB, UK
    Semin Cell Dev Biol 15:715-9. 2004
    ..This review describes progress made in this kind of comparison, from small regions of individual genes, to whole genome alignments...
  3. pmc Functional analysis of conserved non-coding regions around the short stature hox gene (shox) in whole zebrafish embryos
    Emma J Kenyon
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, Cambridgeshire, United Kingdom
    PLoS ONE 6:e21498. 2011
    ..As this gene is not found in rodents, we used zebrafish as a model to characterise the expression pattern of the shox gene across the whole embryo and characterise the enhancer domains of different CNEs associated with this gene...
  4. pmc Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans
    Tanya Vavouri
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Genome Biol 8:R15. 2007
    ..Despite their extreme sequence conservation in vertebrates, sequences homologous to CNEs have not been identified in invertebrates...
  5. ncbi request reprint Comparative analysis of vertebrate Shh genes identifies novel conserved non-coding sequence
    Debbie K Goode
    Comparative Genomics Group, HGMP Resource Centre, Hinxton, Cambridge, CB10 1SB, UK
    Mamm Genome 14:192-201. 2003
    ..This work demonstrates the value of using Fugu in comparative genomics, which has allowed identification of new putative regulatory elements, as well as corroborating enhancers identified by the more traditional deletion mapping method...
  6. ncbi request reprint Molecular characterisation of the SAND protein family: a study based on comparative genomics, structural bioinformatics and phylogeny
    Amanda Cottage
    MRC Rosalind Franklin Centre for Genomic Research, Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Cell Mol Biol Lett 9:739-53. 2004
    ..A comprehensive evaluation of yeast and human functional studies in conjunction with our in silico analysis has identified potential roles for some of these motifs...
  7. ncbi request reprint Prediction of cis-regulatory elements using binding site matrices--the successes, the failures and the reasons for both
    Tanya Vavouri
    Comparative Genomics Group, MRC Rosalind Franklin Centre for Genomics Research, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Curr Opin Genet Dev 15:395-402. 2005
    ..Nonetheless, a combination of experimental, computational and comparative data is likely to reveal aspects of complex regulatory networks in vertebrates, just as it has already done for simple eukaryotic genomes...
  8. pmc Fugu ESTs: new resources for transcription analysis and genome annotation
    Melody S Clark
    MRC Rosalind Franklin Centre for Genomics Research, formerly known as the MRC UK HGMP Resource Centre, Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Genome Res 13:2747-53. 2003
    ..This is particularly timely with the increasing availability of draft genome sequence from different organisms and the mounting emphasis on gene function and regulation...
  9. ncbi request reprint Isolation and characterisation of the corticotropin releasing factor receptor 1 (CRFR1) gene in a teleost fish, Fugu rubripes
    João C Cardoso
    Comparative Genomics Group, MRC HGMP Resource Centre, Genome Campus, Hinxton, Cambridge CB10 1SB, UK
    DNA Seq 14:215-8. 2003
    ..In vertebrates this receptor appears to have a different tissue distribution and its presence in the gills may indicate a new role in osmoregulatory processes...
  10. ncbi request reprint AP1 genes in Fugu indicate a divergent transcriptional control to that of mammals
    Amanda J Cottage
    Medical Research Council, UK Human Genome Mapping Project Resource Centre, Hinxton, Cambridge, CB 10 1SB, UK
    Mamm Genome 14:514-25. 2003
    ..We have determined that Fugu has more Jun and Fos genes than mammals, and if each proves to have a separate function, then addressing the roles of the individual AP1 proteins in Fugu may be simpler than in human...
  11. ncbi request reprint Defining a genomic radius for long-range enhancer action: duplicated conserved non-coding elements hold the key
    Tanya Vavouri
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK, CB10 1SA
    Trends Genet 22:5-10. 2006
    ..This enables us to provide the first systematic estimate of the genomic range for distal cis-regulatory interactions in the human genome: half of CNEs are >250 kb away from their associated gene...
  12. pmc Minor change, major difference: divergent functions of highly conserved cis-regulatory elements subsequent to whole genome duplication events
    Debbie K Goode
    Department of Physiology Development and Neuroscience, Anatomy Building, Downing Street, Cambridge, UK
    Development 138:879-84. 2011
    ..Therefore, if CNEs are to be used as candidate enhancers for transgenic studies or for multi-species comparative analyses, it is paramount that the CNEs are accurately delineated...
  13. ncbi request reprint Fugu orthologues of human major histocompatibility complex genes: a genome survey
    Jennifer G Sambrook
    Fugu Genomics, HGMP Resource Centre, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Immunogenetics 54:367-80. 2002
    ..Comparison with zebrafish substantiates previously observed linkages between class III region orthologues and hints at an ancient conserved class III region...
  14. ncbi request reprint Plenty more fish in the sea: comparative and functional genomics using teleost models
    Greg Elgar
    MRC Rosalind Franklin Centre for Genomics Research, Genome Campus, Hinxton Hinxton, Cambridge, CB10 1SB, UK
    Brief Funct Genomic Proteomic 3:15-25. 2004
    ..In this review, the relationship between fish species is examined along with the role of different fish models in a wide range of biological disciplines...
  15. ncbi request reprint Genomic characterisation of putative growth hormone releasing hormone (GHRH) receptor genes in the teleost fish Fugu rubripes
    João C Cardoso
    Fugu Genomics Group, MRC HGMP Resource Centre, Genome Campus, Hinxton, Cambridge, UK
    DNA Seq 14:129-33. 2003
    ..This is the first time that the genomic organisation of a GHRH receptor gene has been characterised from a nonmammalian vertebrate...
  16. ncbi request reprint Characterization of a novel gene adjacent to PAX6, revealing synteny conservation with functional significance
    Dirk A Kleinjan
    MRC Human Genetics Unit, Western General Hospital, Crewe Road, Edinburgh EH4 2XU, UK
    Mamm Genome 13:102-7. 2002
    ..The possible role of PAXNEB in aniridia was assessed. Using a transgenic mouse model, we show that the aniridia phenotype of the chromosomal rearrangement cases is not due to the heterozygous loss of PAXNEB function...
  17. pmc Analyses of the extent of shared synteny and conserved gene orders between the genome of Fugu rubripes and human 20q
    Sarah F Smith
    Fugu Genomics, United Kingdom Human Genome Mapping Project Resource Centre, Wellcome Genome Campus, Hinxton Hall, Hinxton, Cambridgeshire, CB10 1SB, United Kingdom
    Genome Res 12:776-84. 2002
    ....
  18. ncbi request reprint Highly conserved regulatory elements around the SHH gene may contribute to the maintenance of conserved synteny across human chromosome 7q36.3
    Debbie K Goode
    Comparative Genomics Group, MRC Rosalind Franklin Centre for Genomics Research, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SB, UK
    Genomics 86:172-81. 2005
    ....
  19. ncbi request reprint Characterisation of a gene cluster in Fugu rubripes containing the complement component C4 gene
    Jennifer G Sambrook
    Comparative Genomics, MRC UK HGMP Resource Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
    Gene 312:73-83. 2003
    ..All of the six identified Fugu MHC-related genes have been characterised at the genomic level...
  20. ncbi request reprint Striking nucleotide frequency pattern at the borders of highly conserved vertebrate non-coding sequences
    Klaudia Walter
    MRC Rosalind Franklin Centre for Genomics Research, Hinxton, Cambridge CB10 1SB, UK
    Trends Genet 21:436-40. 2005
    ..The analysis reveals a novel, sharp and distinct signal of nucleotide frequency bias precisely at the border between CNEs and flanking regions...
  21. pmc Theatre: A software tool for detailed comparative analysis and visualization of genomic sequence
    Yvonne J K Edwards
    Comparative Genomics Group, Research Division, MRC UK Human Genome Mapping Project Resource Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SB, UK
    Nucleic Acids Res 31:3510-7. 2003
    ..Theatre can be accessed at http://www.hgmp.mrc.ac.uk/Registered/Webapp/theatre/...
  22. doi request reprint Capturing the regulatory interactions of eukaryote genomes
    Debbie K Goode
    Cambridge Institute for Medical Research, Deptartment of Haematology, Addenbrooke s Hospital, Hills Road, Cambridge, UK
    Brief Funct Genomics 12:142-60. 2013
    ..While we are only at the advent of making these discoveries, the next decade promises to be a very exciting and rewarding time for genome researchers...
  23. pmc Persistence of duplicated PAC1 receptors in the teleost, Sparus auratus
    João C R Cardoso
    CCMAR, Molecular and Comparative Endocrinology, University of Algarve, 8005 139 Faro, Portugal
    BMC Evol Biol 7:221. 2007
    ..These receptors belong to family 2 GPCRs and most of their members are duplicated in teleosts although the reason why both persist in the genome is unknown...
  24. ncbi request reprint Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes
    Samuel Aparicio
    Institute of Molecular and Cell Biology, 30 Medical Drive, Singapore 117609
    Science 297:1301-10. 2002
    ..Conserved linkages between Fugu and human genes indicate the preservation of chromosomal segments from the common vertebrate ancestor, but with considerable scrambling of gene order...
  25. pmc Comparative analysis of vertebrate dystrophin loci indicate intron gigantism as a common feature
    Uberto Pozzoli
    IRCCS E Medea, Associazione La Nostra Famiglia, 23842 Bosisio Parini LC, Italy
    Genome Res 13:764-72. 2003
    ..The hypothesis that intron length might be functionally relevant to the DMD gene regulation is proposed and substantiated by the finding that dystrophin intron gigantism is common to the three vertebrate genes...
  26. doi request reprint Organization of conserved elements near key developmental regulators in vertebrate genomes
    Adam Woolfe
    School of Biological and Chemical Sciences, Queen Mary, University of London, London E1 4NS, United Kingdom
    Adv Genet 61:307-38. 2008
    ..This chapter describes the identification and characterization of these elements, with particular reference to their composition and organization...
  27. ncbi request reprint Molecular evolution of the vertebrate blood coagulation network
    Colin J Davidson
    Haemostasis Group, MRC Clinical Sciences Centre, The Faculty of Medicine, Imperial College, Hammersmith Hospital Campus, London, UK
    Thromb Haemost 89:420-8. 2003
    ..Comparative sequence analyses of amino acid residues in the active site region suggest these additional sequences have evolved new and as yet unknown functions...
  28. ncbi request reprint Divergent evolution of the myosin heavy chain gene family in fish and tetrapods: evidence from comparative genomic analysis
    Daisuke Ikeda
    Laboratory of Aquatic Molecular Biology and Biotechnology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo, Japan
    Physiol Genomics 32:1-15. 2007
    ..Phylogenetic analysis suggests that fast skeletal MYHs evolved independently in teleosts and tetrapods after fast skeletal MYHs had diverged from four ancestral MYHs...
  29. pmc CONDOR: a database resource of developmentally associated conserved non-coding elements
    Adam Woolfe
    School of Biological Sciences, Queen Mary, University of London, Mile End Road, London E1 4NS, UK
    BMC Dev Biol 7:100. 2007
    ..Despite this, there remains little in the way of user-friendly access to a large dataset of such elements in conjunction with the analysis and the visualization tools needed to study them...
  30. ncbi request reprint Ultraconserved non-coding sequence element controls a subset of spatiotemporal GLI3 expression
    Zissis Paparidis
    Institute of Human Genetics, Philipps University, Bahnhofstrasse 7, D35037 Marburg, Germany
    Dev Growth Differ 49:543-53. 2007
    ..Time, location, and quantity of reporter gene expression are congruent with part of the pattern previously reported for endogenous GLI3 transcription...
  31. pmc Comparative genomics using Fugu reveals insights into regulatory subfunctionalization
    Adam Woolfe
    School of Biological Sciences, Queen Mary, University of London, London, UK
    Genome Biol 8:R53. 2007
    ..We have exploited fish-mammal genomic alignments to identify and compare more than 800 conserved non-coding elements (CNEs) that associate with genes that have undergone fish-specific duplication and retention...
  32. pmc Faithful expression of a tagged Fugu WT1 protein from a genomic transgene in zebrafish: efficient splicing of pufferfish genes in zebrafish but not mice
    Colin G Miles
    Medical Research Council Human Genetics Unit, Western General Hospital, Creve Road, Edinburgh EH4 2XU, UK
    Nucleic Acids Res 31:2795-802. 2003
    ..These data demonstrate that the zebrafish:Fugu system is a powerful and convenient tool for dissecting both vertebrate gene regulation and gene function in vivo...
  33. ncbi request reprint Different words, same meaning: understanding the languages of the genome
    Greg Elgar
    School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, UK
    Trends Genet 22:639-41. 2006
    ..It is as yet unclear whether these sequences are 'below the radar' of current sequence alignment tools or whether their functional homology is not sequence based...
  34. ncbi request reprint A genomic approach to reveal novel genes associated with myotube formation in the model teleost, Takifugu rubripes
    Jorge M O Fernandes
    Gatty Marine Laboratory, School of Biology, University of St Andrews, St Andrews, Fife, United Kingdom
    Physiol Genomics 22:327-38. 2005
    ..The novel genes identified, which are also present in other vertebrate genomes, may play a role in inhibiting myotube formation in vertebrate muscle...
  35. pmc A Fugu-Human Genome Synteny Viewer: web software for graphical display and annotation reports of synteny between Fugu genomic sequence and human genes
    Mark Halling-Brown
    School of Crystallography, Birkbeck College, University of London, Malet Street, London WC1E 7HX, UK
    Nucleic Acids Res 32:2618-22. 2004
    ..The Fugu-human genome synteny views are available for each Fugu scaffold through the clonesearch web page located at the Fugu Genomics website (http://fugu.rfcgr.mrc.ac.uk/)...
  36. ncbi request reprint The nicotinic acetylcholine receptor gene family of the pufferfish, Fugu rubripes
    Andrew K Jones
    MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, South Parks Road, Oxford OX1 3QX, UK
    Genomics 82:441-51. 2003
    ..We show, using RT-PCR, that the Fugu nAChR subunits are expressed in a variety of tissues...
  37. ncbi request reprint Xena, a full-length basal retroelement from tetraodontid fish
    Damian E Dalle Nogare
    Department of Biochemistry, University of Otago, Dunedin, New Zealand
    Mol Biol Evol 19:247-55. 2002
    ..The Penelope-Xena lineage is apparently a basal group within the retrotransposons and therefore represents an evolutionarily important class of retroelement...
  38. pmc Ancient duplicated conserved noncoding elements in vertebrates: a genomic and functional analysis
    Gayle K McEwen
    School of Biological and Chemical Sciences, Queen Mary, University of London, London E1 4NS, United Kingdom
    Genome Res 16:451-65. 2006
    ..We propose a model whereby gene duplication and the evolution of cis-regulatory elements can be considered in the context of increased morphological diversity and the emergence of the modern vertebrate body plan...
  39. ncbi request reprint A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly
    Laura A Lettice
    MRC Human Genetics Unit, Western General Hospital, Crewe Rd, Edinburgh EH4 2XU, Scotland, UK
    Hum Mol Genet 12:1725-35. 2003
    ..Thus point mutations residing in long-range regulatory elements are capable of causing congenital abnormalities, and possess the capacity to modify gene activity such that a novel gamut of abnormalities is detected...
  40. ncbi request reprint What is systems biology?
    Greg Elgar
    Brief Funct Genomic Proteomic 7:237-8. 2008
  41. ncbi request reprint Effect of cryopreservation on mitochondrial DNA of zebrafish (Danio rerio) blastomere cells
    Julia Kopeika
    Luton Institute of Research in the Applied Natural Sciences, University of Luton, The Spires, 2 Adelaide Street, Luton LU1 5DU, UK
    Mutat Res 570:49-61. 2005
    ..Meanwhile, it is important to be cautious in making judgements of the effect of cryopreservation technique in assisted reproduction. This is the first report on the effect of cryopreservation on mtDNA...
  42. ncbi request reprint Data handling and dissemination in proteomics and genomics
    Greg Elgar
    Brief Funct Genomic Proteomic 1:324-5. 2003