S Beck

Summary

Affiliation: Wellcome Trust Genome Campus
Country: UK

Publications

  1. pmc Immunogenomics: molecular hide and seek
    Marcos M Miretti
    Immunogenomics Laboratory, The Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge, CB10 1SA, UK
    Hum Genomics 2:244-51. 2006
  2. pmc DNA methylation profiling of the human major histocompatibility complex: a pilot study for the human epigenome project
    Vardhman K Rakyan
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom
    PLoS Biol 2:e405. 2004
  3. pmc A genome-wide survey of Major Histocompatibility Complex (MHC) genes and their paralogues in zebrafish
    Jennifer G Sambrook
    Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 ISA, UK
    BMC Genomics 6:152. 2005
  4. pmc Evolution and comparative analysis of the MHC Class III inflammatory region
    Janine E Deakin
    ARC Centre for Kangaroo Genomics, Research School of Biological Sciences, The Australian National University, Canberra, ACT 0200, Australia
    BMC Genomics 7:281. 2006
  5. pmc Identification of the ancestral killer immunoglobulin-like receptor gene in primates
    Jennifer G Sambrook
    Immunogenomics Laboratory, Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 ISA, UK
    BMC Genomics 7:209. 2006
  6. pmc The human homologue of unc-93 maps to chromosome 6q27 - characterisation and analysis in sporadic epithelial ovarian cancer
    Ying Liu
    Cancer Research UK Molecular Oncology Laboratories, Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, Headington, Oxford, OX3 9DS, UK
    BMC Genet 3:20. 2002
  7. ncbi request reprint The human major histocompatability complex: lessons from the DNA sequence
    S Beck
    The Sanger Centre, Wellcome Trust Genome Campus, University of Cambridge, Cambridge CB10 1SA United Kindgom
    Annu Rev Genomics Hum Genet 1:117-37. 2000
  8. ncbi request reprint Sequence organisation of the class II region of the human MHC
    S Beck
    Sanger Centre, Cambridge, UK
    Immunol Rev 167:201-10. 1999
  9. ncbi request reprint The DNA sequence and comparative analysis of human chromosome 10
    P Deloukas
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Nature 429:375-81. 2004
  10. ncbi request reprint The cluster of BTN genes in the extended major histocompatibility complex
    D A Rhodes
    Department of Immunology, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QP, United Kingdom
    Genomics 71:351-62. 2001

Collaborators

Detail Information

Publications54

  1. pmc Immunogenomics: molecular hide and seek
    Marcos M Miretti
    Immunogenomics Laboratory, The Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge, CB10 1SA, UK
    Hum Genomics 2:244-51. 2006
    ..The discussion will focus on data available for the major histocompatibility complex and the leukocyte receptor complex, the two most polymorphic regions of the human immune sub-genome...
  2. pmc DNA methylation profiling of the human major histocompatibility complex: a pilot study for the human epigenome project
    Vardhman K Rakyan
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom
    PLoS Biol 2:e405. 2004
    ..e., the vast majority of the analysed regions were either hypo- or hypermethylated), tissue specificity, inter-individual variation, and correlation with independent gene expression data...
  3. pmc A genome-wide survey of Major Histocompatibility Complex (MHC) genes and their paralogues in zebrafish
    Jennifer G Sambrook
    Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 ISA, UK
    BMC Genomics 6:152. 2005
    ..Here we report a survey of MHC genes and their paralogues in the zebrafish genome...
  4. pmc Evolution and comparative analysis of the MHC Class III inflammatory region
    Janine E Deakin
    ARC Centre for Kangaroo Genomics, Research School of Biological Sciences, The Australian National University, Canberra, ACT 0200, Australia
    BMC Genomics 7:281. 2006
    ..We also discuss the extent of sequence conservation across the entire region and identify elements conserved in evolution...
  5. pmc Identification of the ancestral killer immunoglobulin-like receptor gene in primates
    Jennifer G Sambrook
    Immunogenomics Laboratory, Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 ISA, UK
    BMC Genomics 7:209. 2006
    ..Since few KIR remain orthologous between species, with only one of them, KIR2DL4, shown to be common to human, apes and monkeys, the evolution of the KIR gene family in primates remains unclear...
  6. pmc The human homologue of unc-93 maps to chromosome 6q27 - characterisation and analysis in sporadic epithelial ovarian cancer
    Ying Liu
    Cancer Research UK Molecular Oncology Laboratories, Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, Headington, Oxford, OX3 9DS, UK
    BMC Genet 3:20. 2002
    ..To accelerate the identification of genes, we sequenced the entire contig of approximately 1.1 Mb. Seven genes were identified within the region of allele loss between D6S264 and D6S149...
  7. ncbi request reprint The human major histocompatability complex: lessons from the DNA sequence
    S Beck
    The Sanger Centre, Wellcome Trust Genome Campus, University of Cambridge, Cambridge CB10 1SA United Kindgom
    Annu Rev Genomics Hum Genet 1:117-37. 2000
    ..We suggest some ways in which the sequence may be exploited in the future to explore the relationship between the extraordinary polymorphism of the region and its association with both autoimmune and infectious diseases...
  8. ncbi request reprint Sequence organisation of the class II region of the human MHC
    S Beck
    Sanger Centre, Cambridge, UK
    Immunol Rev 167:201-10. 1999
    ....
  9. ncbi request reprint The DNA sequence and comparative analysis of human chromosome 10
    P Deloukas
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Nature 429:375-81. 2004
    ..Assessment of single base changes between the human chromosome 10 and chimpanzee sequence revealed nonsense mutations in only 21 coding genes with respect to the human sequence...
  10. ncbi request reprint The cluster of BTN genes in the extended major histocompatibility complex
    D A Rhodes
    Department of Immunology, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QP, United Kingdom
    Genomics 71:351-62. 2001
    ..Most transcripts of BTN2 subfamily genes contained this domain, whereas BTN3 genes did not. Using immunofluorescence, we showed surface expression of BTN-green fluorescent protein fusions in mammalian cell transfectants...
  11. ncbi request reprint BTL-II: a polymorphic locus with homology to the butyrophilin gene family, located at the border of the major histocompatibility complex class II and class III regions in human and mouse
    M Stammers
    Sanger Centre, Wellcome Trust Genome Campus, Cambridge, UK
    Immunogenetics 51:373-82. 2000
    ..In the light of the newly discovered locus, we revisit and discuss the possible origin of the butyrophilin gene family...
  12. pmc DNA sequence and analysis of human chromosome 9
    S J Humphray
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nature 429:369-74. 2004
    ..We have also detected recently duplicated genes that exhibit different rates of sequence divergence, presumably reflecting natural selection...
  13. ncbi request reprint The DNA sequence and biological annotation of human chromosome 1
    S G Gregory
    The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Nature 441:315-21. 2006
    ....
  14. ncbi request reprint The DNA sequence and comparative analysis of human chromosome 20
    P Deloukas
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    Nature 414:865-71. 2001
    ....
  15. pmc Characterization of clustered MHC-linked olfactory receptor genes in human and mouse
    R M Younger
    The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK
    Genome Res 11:519-30. 2001
    ..Taken together with our previous finding that ORs are also polymorphic, the presented data indicate that the expression, function, and evolution of these interesting genes might be more complex than previously thought...
  16. ncbi request reprint The genomic context of natural killer receptor extended gene families
    J Trowsdale
    Department of Pathology, University of Cambridge, UK
    Immunol Rev 181:20-38. 2001
    ..The picture that emerges from both complexes is of eternal evolutionary restlessness, presumably in response to resistance to disease...
  17. pmc The DNA sequence and analysis of human chromosome 13
    A Dunham
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK
    Nature 428:522-8. 2004
    ..Chromosome 13 has one of the lowest gene densities (6.5 genes per Mb) among human chromosomes, and contains a central region of 38 Mb where the gene density drops to only 3.1 genes per Mb...
  18. ncbi request reprint The MHC haplotype project: a resource for HLA-linked association studies
    R J N Allcock
    University of Cambridge, UK
    Tissue Antigens 59:520-1. 2002
  19. ncbi request reprint Gene organisation, sequence variation and isochore structure at the centromeric boundary of the human MHC
    R Stephens
    Immunology, Department of Pathology, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QP, UK
    J Mol Biol 291:789-99. 1999
    ..By comparative analysis, we have precisely identified the mouse/human synteny breakpoint at the centromeric end of the extended MHC class II region between the genes HSET and PHF1...
  20. pmc The LRC haplotype project: a resource for killer immunoglobulin-like receptor-linked association studies
    R Horton
    Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Tissue Antigens 68:450-2. 2006
    ..The LRC haplotype project aims to provide this knowledge by sequencing common LRC haplotypes...
  21. ncbi request reprint The DNA sequence and analysis of human chromosome 6
    A J Mungall
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nature 425:805-11. 2003
    ..Within the essential immune loci of the major histocompatibility complex, we find HLA-B to be the most polymorphic gene on chromosome 6 and in the human genome...
  22. ncbi request reprint Epigenomics: genome-wide study of methylation phenomena
    K L Novik
    Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK
    Curr Issues Mol Biol 4:111-28. 2002
    ..Here, we review the current and future potential of this field and introduce the pilot study towards the Human Epigenome Project (HEP)...
  23. ncbi request reprint Chromosomal localization, gene structure and transcription pattern of the ORFX gene, a homologue of the MHC-linked RING3 gene
    K L Thorpe
    The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Gene 200:177-83. 1997
    ..RING3 and ORFX are found to be ubiquitously expressed in human adult and foetal tissues. Evidence suggests that the two genes may have arisen from an ancient duplication in a common ancestral chromosome...
  24. ncbi request reprint DNA sequence and structure of the mouse RING3 gene: identification of variant RING3 transcripts
    K L Thorpe
    The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, England
    Immunogenetics 48:82-6. 1998
  25. ncbi request reprint The genomic structure and promoter region of the human parkin gene
    S Asakawa
    Department of Molecular Biology, Keio University School of Medicine, 35 Shinanomachi, Shinjuku ku, Tokyo, 160 8582, Japan
    Biochem Biophys Res Commun 286:863-8. 2001
    ..Furthermore, we located a neighboring novel gene in a head-to-head direction with Parkin with only a 198-bp interval...
  26. pmc Applying whole-genome studies of epigenetic regulation to study human disease
    J D Lieb
    Department of Biology, Carolina Center for Genome Sciences, The University of North Carolina, Chapel Hill, NC, USA
    Cytogenet Genome Res 114:1-15. 2006
  27. ncbi request reprint Small GTPase Rac1: structure, localization, and expression of the human gene
    P Matos
    Centre for Human Genetics, National Institute of Health Dr Ricardo Jorge, Lisbon, 1649 016, Portugal
    Biochem Biophys Res Commun 277:741-51. 2000
    ..These data indicate that the RAC1 gene encodes two signaling GTPases. The gene structure reported here will enable studies on the regulation of RAC1 expression during tumorigenesis and development...
  28. ncbi request reprint Evolutionary dynamics of non-coding sequences within the class II region of the human MHC
    S Beck
    DNA Sequencing Laboratory, Imperial Cancer Research Fund, London, England
    J Mol Biol 255:1-13. 1996
    ..We also report the finding of a class I-related pseudogene (HLA-ZI) in the middle of the class II region, which provides the first direct evidence for DNA exchange between these two related regions in man...
  29. ncbi request reprint Cloning and characterization of human phosphatase inhibitor-2 (IPP-2) sequences
    P Sanseau
    ICRF, Human Immunogenetics, London, UK
    Mamm Genome 5:490-6. 1994
    ..We sequenced one gene located in the major histocompatibility complex (MHC) on Chromosome (Chr) 6 that contained the entire coding region of IPP-2...
  30. ncbi request reprint The major and a minor class II beta-chain (B-LB ) gene flank the Tapasin gene in the B-F /B-L region of the chicken major histocompatibility complex
    J P Jacob
    Institute of Animal Health, Compton, Berkshire, RG20 7NN, UK
    Immunogenetics 51:138-47. 2000
    ....
  31. ncbi request reprint Human trefoil peptides: genomic structure in 21q22.3 and coordinated expression
    P Gott
    Department of Anthropology and Human Genetics, University of Tubingen, Germany
    Eur J Hum Genet 4:308-15. 1996
    ..Using RT-PCR, a change in the pattern of trefoil gene expression is detected in tissue samples from normal gastric mucosa, hyperplastic polyps, gastric cancer, and gastric cancer cell lines, respectively...
  32. ncbi request reprint Genomic structure and domain organisation of the human Bak gene
    J A Herberg
    Imperial Cancer Research Fund Laboratories, 44 Lincoln s Inn Fields, London, UK
    Gene 211:87-94. 1998
    ..The position of a single intron was conserved in comparison to other members of the Bcl-2 family, namely Bax, CED-9, Bcl-X and Bcl-2, but all other introns were displaced, consistent with a divergent phylogeny...
  33. pmc Polymorphism in a second ABC transporter gene located within the class II region of the human major histocompatibility complex
    S H Powis
    Imperial Cancer Research Fund Laboratories, Lincoln s Inn Fields, London, United Kingdom
    Proc Natl Acad Sci U S A 89:1463-7. 1992
    ..We have identified two RING11 alleles, which differ in the length of their derived protein sequence by 17 amino acids. The more common of these alleles is present in a Caucasoid population at a frequency of 79%...
  34. ncbi request reprint Sequences encoded in the class II region of the MHC related to the 'ABC' superfamily of transporters
    J Trowsdale
    Imperial Cancer Research Fund, Lincolns Inn Fields, London, UK
    Nature 348:741-4. 1990
    ..This superfamily includes the human multidrug-resistance protein, and a series of transporters from bacteria and eukaryotic cells capable of transporting a range of substrates, including peptides...
  35. ncbi request reprint The genomic sequence and analysis of the swine major histocompatibility complex
    C Renard
    LREG INRA CEA, Jouy en Josas, France
    Genomics 88:96-110. 2006
    ..We show that the centromere insertion has occurred within a cluster of BTNL genes located at the boundary of the class II and III regions, which might have resulted in the loss of an orthologue to human C6orf10 from this region...
  36. ncbi request reprint A proteasome-related gene between the two ABC transporter loci in the class II region of the human MHC
    R Glynne
    Human Immunogenetics Laboratory, Imperial Cancer Research Fund, Lincoln s Inn Fields, London, UK
    Nature 353:357-60. 1991
    ..We have now identified a human gene with sequence homology to proteasome components. Remarkably, this gene maps between the two putative peptide transporter genes...
  37. ncbi request reprint Genomic organization of HLA-DMA and HLA-DMB. Comparison of the gene organization of all six class II families in the human major histocompatibility complex
    E Radley
    Imperial Cancer Research Fund, London, United Kingdom
    J Biol Chem 269:18834-8. 1994
    ..One of these events seems to have partially replaced exon 1 in DPA2. The possibility of this event causing DPA2 to become a pseudogene is discussed...
  38. ncbi request reprint RPS6KA2, a putative tumour suppressor gene at 6q27 in sporadic epithelial ovarian cancer
    P A Bignone
    Cancer Research UK, Molecular Oncology Laboratories, Ovarian Cancer Group, Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, Headington, Oxford, UK
    Oncogene 26:683-700. 2007
    ..In contrast, small interfering RNA against RPS6KA2 showed the opposite effect in 41M cells. The above results suggest that RPS6KA2 is a putative tumour suppressor gene to explain allele loss at 6q27...
  39. pmc Amino acid sequence of mouse tenascin and differential expression of two tenascin isoforms during embryogenesis
    A Weller
    Friedrich Miescher Laboratorium der Max Planck Gesellschaft, Tubingen, Germany
    J Cell Biol 112:355-62. 1991
    ..and P. Ekblom. 1988. J. Cell Biol. 107:2341-2349)...
  40. ncbi request reprint New autoantibodies in pediatric opsoclonus myoclonus syndrome
    A Kirsten
    Institute of Biochemistry, Faculty of Medicine, Friedrichstrasse 24, Justus Liebig University, D 35392 Giessen, Germany
    Ann N Y Acad Sci 1110:256-60. 2007
    ..Antiproliferative and proapoptotic effects of these autoantibodies on neuroblastoma cell lines were noted as well. These results support the concept of a humoral autoimmune process in the pathogenesis of OMS...
  41. ncbi request reprint Analysis of the genomic region containing the tammar wallaby (Macropus eugenii) orthologues of MHC class III genes
    J G R Cross
    Comparative Genomics Unit, ARC Centre for Kangaroo Genomics, Research School of Biological Sciences, Australian National University, Canberra, Australia
    Cytogenet Genome Res 111:110-7. 2005
    ..Full length sequencing of BACs containing the three genes has been partially completed, and reveals the presence of a number of other tammar MHC III orthologues in this region...
  42. ncbi request reprint The major histocompatibility complex-encoded proteasome component LMP7: alternative first exons and post-translational processing
    R Glynne
    Human Immunogenetics Laboratory, Imperial Cancer Research Fund, London
    Eur J Immunol 23:860-6. 1993
    ..To our knowledge, LMP7 provides the first biochemical evidence for such processing of proteasome components...
  43. pmc Plasticity in the organization and sequences of human KIR/ILT gene families
    M J Wilson
    Immunology Division, Department of Pathology, Tennis Court Road, Cambridge CB2 1QP, United Kingdom
    Proc Natl Acad Sci U S A 97:4778-83. 2000
    ..KIR genesis was followed by extensive duplication/deletion as well as intergenic sequence exchange, reminiscent of MHC class I genes, which provide KIR ligands...
  44. ncbi request reprint Large-scale chromatin organization of the major histocompatibility complex and other regions of human chromosome 6 and its response to interferon in interphase nuclei
    E V Volpi
    Human Cytogenetics Laboratory, Imperial Cancer Research Fund, London WC2A 3PX, UK
    J Cell Sci 113:1565-76. 2000
    ..Our data are consistent with an association between large-scale chromatin organization of specific genomic regions and their transcriptional status...
  45. ncbi request reprint Genomic organization of the HSET locus and the possible association of HLA-linked genes with immotile cilia syndrome (ICS)
    K Janitz
    Institut für Immungenetik, Universitatsklinikum Charite, Humboldt Universitat zu Berlin, Spandauer Damm 130, 14050 Berlin, Germany
    Immunogenetics 49:644-52. 1999
    ..Four single base substitutions were detected in the HSET gene, and none in the TUBB gene. On the basis of these data, a role of the HSET and TUBB products in the pathogenesis of ICS in the two families is unlikely...
  46. ncbi request reprint 5'-flanking motifs control cell-specific expression of trefoil factor genes (TFF)
    S Beck
    Division of Molecular Genetics, Institute of Anthropology and Human Genetics, University of Tubingen, Germany
    Int J Mol Med 2:353-61. 1998
    ..Thus such specific DNA-protein interaction may explain the TFF peptides' cell specific expression pattern and altered levels in pathological conditions...
  47. ncbi request reprint The chicken B locus is a minimal essential major histocompatibility complex
    J Kaufman
    Institute for Animal Health, Compton, UK
    Nature 401:923-5. 1999
    ....
  48. ncbi request reprint Genomic analysis of the Tapasin gene, located close to the TAP loci in the MHC
    J A Herberg
    Imperial Cancer Research Fund Laboratories, London, GB
    Eur J Immunol 28:459-67. 1998
    ..The IgC domain was encoded by a separate exon. However, the positions of the other introns were not characteristic of other Ig superfamily genes, indicating that Tapasin has a distinct phylogeny...
  49. ncbi request reprint A homologue of the Drosophila female sterile homeotic (fsh) gene in the class II region of the human MHC
    S Beck
    Imperial Cancer Research Fund, London, England
    DNA Seq 2:203-10. 1992
    ..This highly conserved gene may play an important role in human development. In addition, its location in the MHC class II region may be related to some HLA-associated diseases...
  50. pmc Transcript analysis of the cystic fibrosis splicing mutation 1525-1G>A shows use of multiple alternative splicing sites and suggests a putative role of exonic splicing enhancers
    A S Ramalho
    Department of Chemistry and Biochemistry, Faculty of Sciences, University of Lisboa, Portugal
    J Med Genet 40:e88. 2003
  51. ncbi request reprint Phylogeny and structure of the RING3 gene
    K L Thorpe
    DNA Sequencing Laboratory, Imperial Cancer Research Fund, PO Box 123, London WC2A 3PX, UK
    Immunogenetics 44:391-6. 1996
  52. ncbi request reprint Divergent intron arrangement in the MB1/LMP7 proteasome gene pair
    S Abdulla
    Imperial Cancer Research Fund, 44 Lincolns Inn Fields, Holborn, London WC2A 3PX, UK
    Immunogenetics 44:254-8. 1996
    ..The unique structure of MB1 implies a separate origin or different selection pressures acting at this particular locus. DNA repeat analysis provides information on the minimum time of separation of the MB1/LMP7 pair of genes...
  53. ncbi request reprint A third P-domain peptide gene (TFF3), human intestinal trefoil factor, maps to 21q22.3
    H Schmitt
    Department of Anthropology and Human Genetics, University of Tubingen, Germany
    Cytogenet Cell Genet 72:299-302. 1996
    ..3 suggesting a physical linkage of all three trefoil peptide genes...
  54. doi request reprint The history of Seasonally Dry Tropical Forests in eastern South America: inferences from the genetic structure of the tree Astronium urundeuva (Anacardiaceae)
    S Caetano
    Laboratoire de Systématique et de Biodiversité, Unité de Phylogénie et Génétique Moléculaires, Conservatoire et Jardin Botaniques, 1 Chemin de l Impératrice, CP 60, CH 1292 Chambésy, Geneve, Switzerland
    Mol Ecol 17:3147-59. 2008
    ..This study provides arguments that favour the existence of a previously more continuous formation of SDTF in eastern South America...