J A Eisen

Summary

Affiliation: Stanford University
Country: USA

Publications

  1. pmc A phylogenomic study of the MutS family of proteins
    J A Eisen
    Department of Biological Sciences, Stanford University, Stanford, CA 94305 5020, USA
    Nucleic Acids Res 26:4291-300. 1998
  2. pmc A phylogenomic study of DNA repair genes, proteins, and processes
    J A Eisen
    Department of Biological Sciences, Stanford University, Stanford, CA 94305 5020, USA
    Mutat Res 435:171-213. 1999
  3. pmc Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions
    J A Eisen
    Department of Biological Sciences, Stanford University, CA 94305 5020, USA
    Nucleic Acids Res 23:2715-23. 1995
  4. pmc Sequence and drug susceptibility of subtype C reverse transcriptase from human immunodeficiency virus type 1 seroconverters in Zimbabwe
    R W Shafer
    Department of Medicine, Stanford University, California 94305, USA
    J Virol 71:5441-8. 1997
  5. pmc Second gene for gonadotropin-releasing hormone in humans
    R B White
    Neuroscience Program, Stanford University, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 95:305-9. 1998
  6. pmc The phylogenetic relationships of Chlorobium tepidum and Chloroflexus aurantiacus based upon their RecA sequences
    T M Gruber
    Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park 16802, USA
    FEMS Microbiol Lett 162:53-60. 1998
  7. ncbi request reprint In silico-initiated cloning and molecular characterization of a novel human member of the L1 gene family of neural cell adhesion molecules
    M H Wei
    Intramural Research Support Program, SAIC Frederick, National Cancer Institute Frederick Cancer Research and Development Center, MD 21702 1201, USA
    Hum Genet 103:355-64. 1998
  8. ncbi request reprint Cloning and characterization of HARP/SMARCAL1: a prokaryotic HepA-related SNF2 helicase protein from human and mouse
    M A Coleman
    Biology and Biotechnology Research Program, Lawrence Livermore National Laboratory, California 94551, USA
    Genomics 65:274-82. 2000
  9. ncbi request reprint The genome of the natural genetic engineer Agrobacterium tumefaciens C58
    D W Wood
    Department of Microbiology, University of Washington, 1959 NE Pacific Street, Box 357242, Seattle, WA 98195, USA
    Science 294:2317-23. 2001
  10. pmc Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains
    R D Fleischmann
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    J Bacteriol 184:5479-90. 2002

Collaborators

  • P C Hanawalt
  • R W Shafer
  • R D Fernald
  • R B White
  • Kevin S Sweder
  • Barbara A Methe
  • M A Coleman
  • Zhiliang Wu
  • O White
  • C M Fraser
  • J Peterson
  • K E Nelson
  • T Utterback
  • H Khouri
  • R D Fleischmann
  • I T Paulsen
  • D W Wood
  • M H Wei
  • T M Gruber
  • M Rizzo
  • S L Salzberg
  • S Heim
  • M Pop
  • M Ermolaeva
  • D Alland
  • L A Umayam
  • W C Nelson
  • L Brinkac
  • R T DeBoy
  • A Delcher
  • J Kolonay
  • V A P Martins dos Santos
  • D Moestl
  • E Holtzapple
  • R J Dodson
  • S Daugherty
  • K N Timmis
  • P Chris Lee
  • R Dodson
  • R Madupu
  • S R Gill
  • D Scanlan
  • M Straetz
  • H Hilbert
  • K Tran
  • J Lauber
  • M Holmes
  • H Wedler
  • L Carpenter
  • W Nelson
  • K Lee
  • W R Jacobs Jr
  • J Weidman
  • B Tummler
  • C Kiewitz
  • D Kosack
  • A Mikula
  • A Düsterhöft
  • R DeBoy
  • J F Kolonay
  • J C Venter
  • D Stjepandic
  • I Hance
  • C Weinel
  • W Bishai
  • M Gwinn
  • A Moazzez
  • M Beanan
  • D Haft
  • D E Fouts
  • J Hoheisel
  • J Gill
  • E Hickey
  • E W Nester
  • P Chapman
  • V K Okura
  • D Gordon
  • J Clendenning
  • L Woo
  • C Grant
  • M Perry
  • H Yoo
  • L Liao
  • W Gillet
  • C Raymond
  • S V Tingey
  • R Levy
  • J C Setubal
  • M Dolan
  • C Hendrick

Detail Information

Publications12

  1. pmc A phylogenomic study of the MutS family of proteins
    J A Eisen
    Department of Biological Sciences, Stanford University, Stanford, CA 94305 5020, USA
    Nucleic Acids Res 26:4291-300. 1998
    ..The uses of phylogenomic approaches to the study of genes and genomes are discussed...
  2. pmc A phylogenomic study of DNA repair genes, proteins, and processes
    J A Eisen
    Department of Biological Sciences, Stanford University, Stanford, CA 94305 5020, USA
    Mutat Res 435:171-213. 1999
    ..We use this phylogenomic analysis to study the evolution of repair proteins and processes and to predict the repair phenotypes of those species for which we now know the complete genome sequence...
  3. pmc Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions
    J A Eisen
    Department of Biological Sciences, Stanford University, CA 94305 5020, USA
    Nucleic Acids Res 23:2715-23. 1995
    ..We discuss possible implications of this evolutionary analysis on the general properties and evolution of the SNF2 family...
  4. pmc Sequence and drug susceptibility of subtype C reverse transcriptase from human immunodeficiency virus type 1 seroconverters in Zimbabwe
    R W Shafer
    Department of Medicine, Stanford University, California 94305, USA
    J Virol 71:5441-8. 1997
    ..Although substitutions in the HIV-1 RT gene are limited by functional constraints, variation between RT sequences demonstrates phylogenetic relationships that parallel env and gag gene variation...
  5. pmc Second gene for gonadotropin-releasing hormone in humans
    R B White
    Neuroscience Program, Stanford University, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 95:305-9. 1998
    ..Molecular phylogenetic analysis shows that this second gene is likely the result of a duplication before the appearance of vertebrates, and predicts the existence of a third GnRH form in humans and other vertebrates...
  6. pmc The phylogenetic relationships of Chlorobium tepidum and Chloroflexus aurantiacus based upon their RecA sequences
    T M Gruber
    Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park 16802, USA
    FEMS Microbiol Lett 162:53-60. 1998
    ..Cf. aurantiacus was placed near Chlamydia trachomatis and the high-GC Gram-positives; however, this branching pattern was not strongly supported statistically by bootstrap analyses. Possible reasons for this ambiguity are discussed...
  7. ncbi request reprint In silico-initiated cloning and molecular characterization of a novel human member of the L1 gene family of neural cell adhesion molecules
    M H Wei
    Intramural Research Support Program, SAIC Frederick, National Cancer Institute Frederick Cancer Research and Development Center, MD 21702 1201, USA
    Hum Genet 103:355-64. 1998
    ..The cytoplasmic domain of CALL is conserved among other members of the L1 subfamily and features sequence motifs that may involve CALL in signal transduction pathways...
  8. ncbi request reprint Cloning and characterization of HARP/SMARCAL1: a prokaryotic HepA-related SNF2 helicase protein from human and mouse
    M A Coleman
    Biology and Biotechnology Research Program, Lawrence Livermore National Laboratory, California 94551, USA
    Genomics 65:274-82. 2000
    ..HARP/SMARCAL1 transcripts are ubiquitously expressed in human and mouse tissues, with testis presenting the highest levels of mRNA expression in humans...
  9. ncbi request reprint The genome of the natural genetic engineer Agrobacterium tumefaciens C58
    D W Wood
    Department of Microbiology, University of Washington, 1959 NE Pacific Street, Box 357242, Seattle, WA 98195, USA
    Science 294:2317-23. 2001
    ..Availability of the A. tumefaciens sequence will facilitate investigations into the molecular basis of pathogenesis and the evolutionary divergence of pathogenic and symbiotic lifestyles...
  10. pmc Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains
    R D Fleischmann
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    J Bacteriol 184:5479-90. 2002
    ..Together, these results demonstrate that polymorphisms among M. tuberculosis strains are more extensive than initially anticipated, and genetic variation may have an important role in disease pathogenesis and immunity...
  11. ncbi request reprint Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440
    K E Nelson
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Environ Microbiol 4:799-808. 2002
    ..Analysis of the genome gives insight into the non-pathogenic nature of P. putida and points to potential new applications in agriculture, biocatalysis, bioremediation and bioplastic production...
  12. ncbi request reprint Genome of Geobacter sulfurreducens: metal reduction in subsurface environments
    B A Methé
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 302:1967-9. 2003
    ..As well as playing roles in the global cycling of metals and carbon, this organism clearly has the potential for use in bioremediation of radioactive metals and in the generation of electricity...