Research Topics
Genomes and Genes | Leo GoodstadtSummaryAffiliation: University of Oxford Country: UK Publications
| Collaborators
|
Detail Information
Publications
Evolutionary conservation and selection of human disease gene orthologs in the rat and mouse genomesHui Huang
Department of Bioinformatics, Genome Therapeutics Corporation, Waltham, MA 02453, USA
Genome Biol 5:R47. 2004..Here, we investigate whether human disease genes differ significantly from their rodent orthologs with respect to their overall levels of conservation and their rates of evolutionary change...- Duplication and positive selection among hominin-specific PRAME genesZoë Birtle
Department of Human Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
BMC Genomics 6:120. 2005..PRAME-like genes are expressed in the testis and in a large number of tumours, and are thought to possess roles in spermatogenesis and oogenesis... - Phylogenetic reconstruction of orthology, paralogy, and conserved synteny for dog and humanLeo Goodstadt
Medical Research Council Functional Genetics Unit, University of Oxford, Department of Physiology, Anatomy, and Genetics, Oxford, United Kingdom
PLoS Comput Biol 2:e133. 2006..PhyOP will be particularly useful in predicting orthology for mammalian genomes that have been incompletely sequenced, and for large families of rapidly duplicating genes... - Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotesRebecca A Chodroff
Department of Physiology, Anatomy, and Genetics, Le Gros Clark Building South Parks Road, University of Oxford, Oxford OX1 3QX, UK
Genome Biol 11:R72. 2010..This dearth of information is partially attributable to a lack of established non-protein-coding RNA (ncRNA) orthologs among birds and mammals within sequence and expression databases... - Separating derived from ancestral features of mouse and human genomesChris P Ponting
Department of Physiology, MRC Functional Genomics Unit, University of Oxford, Oxford OX1 3QX, UK
Biochem Soc Trans 37:734-9. 2009..Nevertheless, many such genes may be under little or no selection... - An analysis of the gene complement of a marsupial, Monodelphis domestica: evolution of lineage-specific genes and giant chromosomesLeo Goodstadt
MRC Functional Genetics Unit, University of Oxford, Department of Physiology, Oxford, UK
Genome Res 17:969-81. 2007..In particular, we propose that the higher G+C content of the Monodelphis X chromosome is a direct consequence of its small size relative to the giant autosomes... - Accelerated evolution of the Prdm9 speciation gene across diverse metazoan taxaPeter L Oliver
Medical Research Council Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, United Kingdom
PLoS Genet 5:e1000753. 2009..We suggest that Prdm9 should be investigated as a candidate gene in other instances of hybrid sterility in metazoans... - Comparative evolutionary genomics of androgen-binding protein genesRichard D Emes
MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, United Kingdom
Genome Res 14:1516-29. 2004..We propose a role for ABPalpha/beta/gamma proteins as pheromones, or in modulating odorant detection. This would account for the extraordinary adaptive evolution of these genes, and surrounding genomic regions, in murid rodents... - Vitamin K epoxide reductase: homology, active site and catalytic mechanismLeo Goodstadt
MRC Functional Genetics Unit, University of Oxford, Department of Human Anatomy and Genetics, South Parks Road, Oxford, OX1 3QX, UK
Trends Biochem Sci 29:289-92. 2004..These might reduce disulfide bonds of VKORC1-like enzymes as a prerequisite for their catalytic activities... - Ruffus: a lightweight Python library for computational pipelinesLeo Goodstadt
Medical Research Council Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK
Bioinformatics 26:2778-9. 2010..Source code, a short tutorial, examples and a comprehensive user manual are freely available at http://www.ruffus.org.uk. The example program is available at http://www.ruffus.org.uk/examples/bioinformatics.. - Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequencesTarjei S Mikkelsen
Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
Nature 447:167-77. 2007..A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation... - Genome sequence, comparative analysis and haplotype structure of the domestic dogKerstin Lindblad-Toh
Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, Massachusetts 02141, USA
Nature 438:803-19. 2005..The current SNP map now makes it possible for genome-wide association studies to identify genes responsible for diseases and traits, with important consequences for human and companion animal health... - Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolutionLadeana W Hillier
Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA
Nature 432:695-716. 2004..The distinctive properties of avian microchromosomes, together with the inferred patterns of conserved synteny, provide additional insights into vertebrate chromosome architecture... - Evolution and comparative genomics of odorant- and pheromone-associated genes in rodentsRichard D Emes
MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
Genome Res 14:591-602. 2004..We predict that these contribute to physicochemical and functional diversity within pheromone-receptor interaction sites... - Genome sequence of the Brown Norway rat yields insights into mammalian evolutionRichard A Gibbs
Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA <http://www.hgsc.bcm.tmc.edu
Nature 428:493-521. 2004.... - Eukaryotic domain evolution inferred from genome comparisonsRichard R Copley
Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK
Curr Opin Genet Dev 13:623-8. 2003..If such families are evidence of past adaptation, then their functions must relate to the underlying mechanism of selection: competition among organisms... - Comparison of the genomes of human and mouse lays the foundation of genome zoologyRichard D Emes
MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, South Parks Road, Oxford OX1 3QX, UK
Hum Mol Genet 12:701-9. 2003..We predict that the availability of numerous animal genomes will give rise to a new field of genome zoology in which differences in animal physiology and ethology are illuminated by the study of genomic sequence variations... - Initial sequencing and comparative analysis of the mouse genomeRobert H Waterston
Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA
Nature 420:520-62. 2002.... - Elevated rates of protein secretion, evolution, and disease among tissue-specific genesEitan E Winter
MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
Genome Res 14:54-61. 2004..These findings illuminate major selective pressures that have shaped the gene repertoires expressed in different mammalian tissues... - Recent improvements to the SMART domain-based sequence annotation resourceIvica Letunic
EMBL, Meyerhofstrasse 1, 69012 Heidelberg, Germany
Nucleic Acids Res 30:242-4. 2002..SMART output can now be easily included in users' documents. A SMART mirror has been created at http://smart.ox.ac.uk...