Neil Hall

Summary

Affiliation: The Institute for Genomic Research
Country: USA

Publications

  1. ncbi request reprint Comparative genomics of malaria parasites
    Neil Hall
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20851, USA
    Curr Opin Genet Dev 15:609-13. 2005
  2. ncbi request reprint A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses
    Neil Hall
    Pathogen Sequencing Unit, Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Science 307:82-6. 2005
  3. ncbi request reprint Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes
    Malcolm J Gardner
    Institute for Genomic Research TIGR, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 309:134-7. 2005
  4. ncbi request reprint Comparative genomics of trypanosomatid parasitic protozoa
    Najib M El-Sayed
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 309:404-9. 2005
  5. ncbi request reprint Genome of the host-cell transforming parasite Theileria annulata compared with T. parva
    Arnab Pain
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Science 309:131-3. 2005
  6. ncbi request reprint The genome of the African trypanosome Trypanosoma brucei
    Matthew Berriman
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Science 309:416-22. 2005
  7. ncbi request reprint Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
    William C Nierman
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Nature 438:1151-6. 2005
  8. pmc Genome wide survey, discovery and evolution of repetitive elements in three Entamoeba species
    Hernan Lorenzi
    J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 9:595. 2008
  9. pmc Genome sequence of the human malaria parasite Plasmodium falciparum
    Malcolm J Gardner
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Nature 419:498-511. 2002
  10. ncbi request reprint The genome of model malaria parasites, and comparative genomics
    Jane Carlton
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Curr Issues Mol Biol 7:23-37. 2005

Detail Information

Publications44

  1. ncbi request reprint Comparative genomics of malaria parasites
    Neil Hall
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20851, USA
    Curr Opin Genet Dev 15:609-13. 2005
    ..Recent research has led to the description of a motif that is conserved across Plasmodium species and which plays a central role in protein export into the host cell...
  2. ncbi request reprint A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses
    Neil Hall
    Pathogen Sequencing Unit, Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Science 307:82-6. 2005
    ..We observed posttranscriptional gene silencing through translational repression of messenger RNA during sexual development, and a 47-base 3' untranslated region motif is implicated in this process...
  3. ncbi request reprint Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes
    Malcolm J Gardner
    Institute for Genomic Research TIGR, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 309:134-7. 2005
    ..Several biosynthetic pathways are incomplete or absent, suggesting substantial metabolic dependence on the host cell. One protein family that may generate parasite antigenic diversity is not telomere-associated...
  4. ncbi request reprint Comparative genomics of trypanosomatid parasitic protozoa
    Najib M El-Sayed
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 309:404-9. 2005
    ..Contrary to recent reports, our analyses reveal no evidence that these species are descended from an ancestor that contained a photosynthetic endosymbiont...
  5. ncbi request reprint Genome of the host-cell transforming parasite Theileria annulata compared with T. parva
    Arnab Pain
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Science 309:131-3. 2005
    ....
  6. ncbi request reprint The genome of the African trypanosome Trypanosoma brucei
    Matthew Berriman
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Science 309:416-22. 2005
    ..brucei and the greatest in L. major. Horizontal transfer of genes of bacterial origin has contributed to some of the metabolic differences in these parasites, and a number of novel potential drug targets have been identified...
  7. ncbi request reprint Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
    William C Nierman
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Nature 438:1151-6. 2005
    ..The Af293 genome sequence provides an unparalleled resource for the future understanding of this remarkable fungus...
  8. pmc Genome wide survey, discovery and evolution of repetitive elements in three Entamoeba species
    Hernan Lorenzi
    J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 9:595. 2008
    ....
  9. pmc Genome sequence of the human malaria parasite Plasmodium falciparum
    Malcolm J Gardner
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Nature 419:498-511. 2002
    ..The genome sequence provides the foundation for future studies of this organism, and is being exploited in the search for new drugs and vaccines to fight malaria...
  10. ncbi request reprint The genome of model malaria parasites, and comparative genomics
    Jane Carlton
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Curr Issues Mol Biol 7:23-37. 2005
    ..This is a stimulating time for comparative genomics of model and human malaria parasites, which promises to produce useful results for the development of antimalarial drugs and vaccines...
  11. ncbi request reprint Parasite genome databases and web-based resources
    Christiane Hertz-Fowler
    Pathogen Sequencing Unit, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK
    Methods Mol Biol 270:45-74. 2004
    ..Particular attention is given to three databases, GeneDB (http://www.genedb.org/), PlasmoDB (http://plasmodb. org/), and tigr db, detailing the scope of each database and the tools available for data querying and retrieval...
  12. pmc GeneDB: a resource for prokaryotic and eukaryotic organisms
    Christiane Hertz-Fowler
    The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nucleic Acids Res 32:D339-43. 2004
    ..The current release stores 11 datasets of which six are curated and maintained by biologists, who review and incorporate information from the scientific literature, public databases and the respective research communities...
  13. ncbi request reprint Insight into the genome of Aspergillus fumigatus: analysis of a 922 kb region encompassing the nitrate assimilation gene cluster
    Arnab Pain
    The Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Fungal Genet Biol 41:443-53. 2004
    ..We observed large scale synteny between A. fumigatus and Aspergillus nidulans by comparing this sequence to the A. nidulans genetic map of linkage group VIII...
  14. ncbi request reprint The genome of the protist parasite Entamoeba histolytica
    Brendan Loftus
    TIGR, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Nature 433:865-8. 2005
    ..Analysis of the genome provides new insights into the workings and genome evolution of a major human pathogen...
  15. pmc Plasmodium falciparum variant surface antigen expression patterns during malaria
    Peter C Bull
    Nuffield Department of Clinical Medicine, John Radcliffe Hospital, University of Oxford, Oxford, United Kingdom
    PLoS Pathog 1:e26. 2005
    ....
  16. pmc Patterns of evolution in the unique tRNA gene arrays of the genus Entamoeba
    Blessing Tawari
    Department of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, London, United Kingdom
    Mol Biol Evol 25:187-98. 2008
    ..The origin of this unique gene organization in the genus Entamoeba clearly predates the common ancestor of the species investigated to date and their function remains unclear...
  17. pmc Gene arrays at Pneumocystis carinii telomeres
    Scott P Keely
    Department of Molecular Genetics, Biochemistry and Microbiology, University of Cincinnati, Cincinnati, Ohio 45267, USA
    Genetics 170:1589-600. 2005
    ..Long mononucleotide tracts were present in some MSR genes. These unstable sequences can be expected to suffer frequent frameshift mutations, providing P. carinii with another mechanism to generate antigen variation...
  18. pmc Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii
    Asis Khan
    Department of Molecular Microbiology, Washington University School of Medicine, St Louis, Missouri 63110, USA
    Genome Res 16:1119-25. 2006
    ..Taken together, our observations implicate a specific combination of alleles on chromosome Ia in the recent origin and widespread success of the clonal lineages of T. gondii...
  19. pmc Regulation of sexual development of Plasmodium by translational repression
    Gunnar R Mair
    Department of Parasitology, Leiden University Medical Centre, 2333 ZA Leiden, Netherlands
    Science 313:667-9. 2006
    ..Genetic disruption of pbdozi inhibits the formation of the ribonucleoprotein complexes, and instead, at least 370 transcripts are diverted to a degradation pathway...
  20. pmc A Plasmodium whole-genome synteny map: indels and synteny breakpoints as foci for species-specific genes
    Taco W A Kooij
    Department of Parasitology, Leiden University Medical Centre, Leiden, The Netherlands
    PLoS Pathog 1:e44. 2005
    ..A majority of these genes are expressed in blood stages, suggesting that the vertebrate host exerts a greater selective pressure than the mosquito vector, resulting in the acquisition of diversity...
  21. pmc The genetic map and comparative analysis with the physical map of Trypanosoma brucei
    Annette MacLeod
    Wellcome Centre for Molecular Parasitology, Anderson College Complex, University of Glasgow, 56 Dumbarton Road, Glasgow G11 6NU, UK
    Nucleic Acids Res 33:6688-93. 2005
    ....
  22. ncbi request reprint Unique organisation of tRNA genes in Entamoeba histolytica
    C Graham Clark
    Department of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London WC1E 7HT, UK
    Mol Biochem Parasitol 146:24-9. 2006
    ..The number and organisation of tRNA genes in E. histolytica is unprecedented. In addition to encoding the tRNAs of the organism we propose that the arrays may fulfil a structural role in the genome...
  23. ncbi request reprint Insights into the P. y. yoelii hepatic stage transcriptome reveal complex transcriptional patterns
    Anne Charlotte Gruner
    Unité de Parasitologie Bio Médicale, Institut Pasteur, 25 rue du Dr Roux, 75731 Paris Cedex 15, France
    Mol Biochem Parasitol 142:184-92. 2005
    ..The results demonstrate the efficacy of the approach that can now be applied to further detailed analysis of the hepatic stage transcriptome of Plasmodium...
  24. pmc An ancestral oomycete locus contains late blight avirulence gene Avr3a, encoding a protein that is recognized in the host cytoplasm
    Miles R Armstrong
    Plant Pathogen Interactions Programme, Scottish Crop Research Institute, Invergowrie, DD2 5DA Dundee, UK
    Proc Natl Acad Sci U S A 102:7766-71. 2005
    ..We suggest that Avr3a has undergone gene duplication and that an allele evading recognition by R3a arose under positive selection...
  25. ncbi request reprint A genome sequence survey of the filarial nematode Brugia malayi: repeats, gene discovery, and comparative genomics
    Claire Whitton
    Ashworth Laboratories, Institution of Cell, Animal and Polulation Biology, School of Biological Sciences, University of Edinburgh, King s Buildings, Edinburgh EH9 3JT, UK
    Mol Biochem Parasitol 137:215-27. 2004
    ..B. malayi is estimated to have over 18,500 protein-coding genes...
  26. pmc A new, expressed multigene family containing a hot spot for insertion of retroelements is associated with polymorphic subtelomeric regions of Trypanosoma brucei
    Frederic Bringaud
    Laboratoire de Parasitologie Moleculaire, Université Victor Segalen Bordeaux II, UMR 5016 CNRS, 33076 Bordeaux, France
    Eukaryot Cell 1:137-51. 2002
    ..brucei strain TREU927/4 GUTat10.1. RHS genes comprise the remaining sequence of the size-polymorphic "repetitive region" described for T. brucei chromosome I, and a homologous gene family is present in the Trypanosoma cruzi genome...
  27. pmc The intestinal protozoan parasite Entamoeba histolytica contains 20 cysteine protease genes, of which only a small subset is expressed during in vitro cultivation
    Iris Bruchhaus
    Bernhard Nocht Institute for Tropical Medicine, 20359 Hamburg, Germany
    Eukaryot Cell 2:501-9. 2003
    ..histolytica or E. dispar trophozoites during in vitro cultivation. Therefore, it is likely that at least some of these enzymes are required for infection of the human host and/or for completion of the parasite life cycle...
  28. ncbi request reprint Gene discovery in the Entamoeba invadens genome
    Zheng Wang
    Center for Bio Molecular Science Naval Research Laboratory, Washington, DC 20375, USA
    Mol Biochem Parasitol 129:23-31. 2003
    ..invadens. Finally, multiple copies of a number of E. invadens genes coding for predicted enzymes involved in core metabolism and the targets of anti-amoebic drugs were identified...
  29. pmc The DNA sequence of chromosome I of an African trypanosome: gene content, chromosome organisation, recombination and polymorphism
    Neil Hall
    The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Nucleic Acids Res 31:4864-73. 2003
    ..Genetic polymorphisms are exceptionally rare in sequences located within and around the strand-switches between several gene clusters...
  30. pmc Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients
    Emilio F Merino
    Departamento de Parasitologia, ICB, Universidade de Sao Paulo, Sao Paulo, Brazil
    Malar J 2:21. 2003
    ..Unfortunately, due to the impossibility of growing this parasite in continuous in vitro culture, research on P. vivax remains largely neglected...
  31. ncbi request reprint The architecture of variant surface glycoprotein gene expression sites in Trypanosoma brucei
    Matthew Berriman
    The Wellcome Trust Sanger Institute, Hinxton CB10 1SA, UK
    Mol Biochem Parasitol 122:131-40. 2002
    ..Unexpected conservation of sequences, including pseudogenes, indicates that the multiple ESs could have arisen through a relatively recent amplification of a single ES...
  32. ncbi request reprint The ingi and RIME non-LTR retrotransposons are not randomly distributed in the genome of Trypanosoma brucei
    Frederic Bringaud
    Laboratoire de Genomique Fonctionnelle des Trypanosomatides, UMR 5162 CNRS, Université Victor Segalen Bordeaux II, Bordeaux, France
    Mol Biol Evol 21:520-8. 2004
    ..In conclusion, the ingi and RIME retroelements are not randomly distributed in the genome of T. brucei and are preceded by a conserved sequence, which may be the recognition site of the ingi-encoded endonuclease...
  33. ncbi request reprint Analysis of the Plasmodium falciparum proteome by high-accuracy mass spectrometry
    Edwin Lasonder
    Center for Experimental Bioinformatics, Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, DK 5230 Odense M, Denmark
    Nature 419:537-42. 2002
    ..We also report a set of peptides with significant matches in the parasite genome but not in the protein set predicted by computational methods...
  34. ncbi request reprint A transcriptomic analysis of the phylum Nematoda
    John Parkinson
    Hospital for Sick Children, 555 University Avenue, Departments of Biochemistry and Medical Genetics and Microbiology, University of Toronto, Toronto, Ontario M5G 1X8, Canada
    Nat Genet 36:1259-67. 2004
    ..Nematode-specific families are particularly interesting as drug and vaccine targets...
  35. ncbi request reprint Evolutionary pressures on apicoplast transit peptides
    Stuart A Ralph
    Plant Cell Biology Research Centre, School of Botany, University of Melbourne, Parkville, Victoria, Australia
    Mol Biol Evol 21:2183-94. 2004
    ..These unusual features are explained in the context of secondary plastid trafficking via the endomembrane system...
  36. pmc Comparative genomics of transcriptional control in the human malaria parasite Plasmodium falciparum
    Richard M R Coulson
    Computational Genomics Group, The European Bioinformatics Institute, European Molecular Biology Laboratory Cambridge Outstation, Cambridge CB10 1SD, United Kingdom
    Genome Res 14:1548-54. 2004
    ..falciparum genome. This observation, together with the paucity of malarial transcriptional regulators identified, suggests Plasmodium protein levels are primarily determined by posttranscriptional mechanisms...
  37. ncbi request reprint Gene synteny and evolution of genome architecture in trypanosomatids
    Elodie Ghedin
    Parasity Genomics, The Institute for Genomics Research, 9712 Medical Center Dr Rockville, MD 20850, USA
    Mol Biochem Parasitol 134:183-91. 2004
    ..major by examining the regions near breakage points of the synteny. This is the first such element found in L. major suggesting that retroelements were found in the common ancestor of all three species...
  38. ncbi request reprint 400000 nematode ESTs on the Net
    John Parkinson
    Institute of Cell, Animal and Population Biology, Ashworth Laboratories, King s Buildings, West Mains Rd, University of Edinburgh, EH9 3JT, Edinburgh, UK
    Trends Parasitol 19:283-6. 2003
    ..Over 400000 nematode ESTs are now available and at least another 130000 are planned. Here, an update is provided on the status of the project and describes the database tools being developed to disseminate these data...
  39. ncbi request reprint A case for a Glossina genome project
    Serap Aksoy
    Yale University School of Medicine, 60 College Street, 606 LEPH, New Haven, CT 06520, USA
    Trends Parasitol 21:107-11. 2005
    ..An international consortium is now in place to further efforts to lead to a full genome project...
  40. ncbi request reprint Abundant larval transcript-1 and -2 genes from Brugia malayi: diversity of genomic environments but conservation of 5' promoter sequences functional in Caenorhabditis elegans
    Natalia Gomez-Escobar
    Institute of Cell, Animal and Population Biology, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, UK
    Mol Biochem Parasitol 125:59-71. 2002
    ..We conclude that the high level of alt transcription in filarial L3s is not due to expression from a multi-copy gene family but to a set of strong promoter elements shared between the two alt genes...
  41. ncbi request reprint Advanced sequencing technologies and their wider impact in microbiology
    Neil Hall
    School of Biological Sciences, Biosciences Building, Crown Street, University of Liverpool, Liverpool L69 7ZB, UK
    J Exp Biol 210:1518-25. 2007
    ..While this review will concentrate on microorganisms, many of the important arguments about the need to measure and understand variation at the species, population and ecosystem level will hold true for many other biological systems...
  42. ncbi request reprint The diversity of Rab GTPases in Entamoeba histolytica
    Yumiko Saito-Nakano
    Department of Parasitology, National Institute of Infectious Diseases, Shinjuku ku, Tokyo 162 8640, Japan
    Exp Parasitol 110:244-52. 2005
    ..We propose annotation of amebic Rab genes and discuss biological significance of this extraordinary diversity of EhRab proteins in this organism...
  43. ncbi request reprint Meeting report: the fourth Genomic Standards Consortium (GSC) workshop
    Dawn Field
    NERC Centre for Ecology and Hydrology, Mansfield Road, Oxford, OX1 3SR United Kingdom
    OMICS 12:101-8. 2008
    ..g., compliant with MIGS/MIMS), but also be extended to include a variety of data processing and calculations. Further information about the Genomic Standards Consortium and its range of activities can be found at http://gensc.org...
  44. ncbi request reprint Entamoeba: still more to be learned from the genome
    Brendan J Loftus
    Trends Parasitol 21:453. 2005