Peter Kharchenko

Summary

Affiliation: Harvard University
Country: USA

Publications

  1. pmc Estimating enrichment of repetitive elements from high-throughput sequence data
    Daniel S Day
    Harvard MIT Health Sciences and Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Genome Biol 11:R69. 2010
  2. pmc ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis
    Joshua W K Ho
    Department of Medicine, Brigham and Women s Hospital, and Harvard Medical School, Boston, MA, USA
    BMC Genomics 12:134. 2011
  3. pmc Identifying metabolic enzymes with multiple types of association evidence
    Peter Kharchenko
    Department of Genetics, New Research Building NRB Room 238, 77 Ave, Louis Pasteur, Harvard Medical School, Boston, MA 02115, USA
    BMC Bioinformatics 7:177. 2006
  4. pmc Long-range spreading of dosage compensation in Drosophila captures transcribed autosomal genes inserted on X
    Andrey A Gorchakov
    Division of Genetics, Department of Medicine, Brigham and Women s Hospital, Boston, Massachusetts 02115, USA
    Genes Dev 23:2266-71. 2009
  5. doi request reprint Differential H3K4 methylation identifies developmentally poised hematopoietic genes
    Keith Orford
    Center for Regenerative Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA
    Dev Cell 14:798-809. 2008
  6. pmc Expression dynamics of a cellular metabolic network
    Peter Kharchenko
    Department of Genetics, Harvard Medical School, Boston, MA, USA
    Mol Syst Biol 1:2005.0016. 2005
  7. pmc Chromosomal periodicity of evolutionarily conserved gene pairs
    Matthew A Wright
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Proc Natl Acad Sci U S A 104:10559-64. 2007
  8. ncbi request reprint Filling gaps in a metabolic network using expression information
    Peter Kharchenko
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Bioinformatics 20:i178-85. 2004
  9. pmc A sequence motif within chromatin entry sites directs MSL establishment on the Drosophila X chromosome
    Artyom A Alekseyenko
    Harvard Partners Center for Genetics and Genomics, Division of Genetics, Department of Medicine, Brigham and Women s Hospital, Boston, MA 02115, USA
    Cell 134:599-609. 2008

Collaborators

Detail Information

Publications9

  1. pmc Estimating enrichment of repetitive elements from high-throughput sequence data
    Daniel S Day
    Harvard MIT Health Sciences and Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Genome Biol 11:R69. 2010
    ....
  2. pmc ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis
    Joshua W K Ho
    Department of Medicine, Brigham and Women s Hospital, and Harvard Medical School, Boston, MA, USA
    BMC Genomics 12:134. 2011
    ....
  3. pmc Identifying metabolic enzymes with multiple types of association evidence
    Peter Kharchenko
    Department of Genetics, New Research Building NRB Room 238, 77 Ave, Louis Pasteur, Harvard Medical School, Boston, MA 02115, USA
    BMC Bioinformatics 7:177. 2006
    ..Existing computational strategies for identifying such missing genes rely primarily on sequence homology to known enzyme-encoding genes...
  4. pmc Long-range spreading of dosage compensation in Drosophila captures transcribed autosomal genes inserted on X
    Andrey A Gorchakov
    Division of Genetics, Department of Medicine, Brigham and Women s Hospital, Boston, Massachusetts 02115, USA
    Genes Dev 23:2266-71. 2009
    ..We conclude that a long-sought specific DNA sequence within X-linked genes is not obligatory for MSL binding. Instead, linkage and transcription play the pivotal roles in MSL targeting irrespective of gene origin and DNA sequence...
  5. doi request reprint Differential H3K4 methylation identifies developmentally poised hematopoietic genes
    Keith Orford
    Center for Regenerative Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA
    Dev Cell 14:798-809. 2008
    ..These data reveal distinct epigenetic regulation of CGI and non-CGI genes during development and indicate an interactive relationship between DNA sequence and differential H3K4 methylation in lineage-specific differentiation...
  6. pmc Expression dynamics of a cellular metabolic network
    Peter Kharchenko
    Department of Genetics, Harvard Medical School, Boston, MA, USA
    Mol Syst Biol 1:2005.0016. 2005
    ..We show that basic topological motifs of the metabolic network exhibit statistically significant differences in coexpression behavior...
  7. pmc Chromosomal periodicity of evolutionarily conserved gene pairs
    Matthew A Wright
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Proc Natl Acad Sci U S A 104:10559-64. 2007
    ..Our approach indicates an evolutionarily maintained preference in the spacing of genes along the chromosome and offers a general comparative genomics framework for studying chromosome structure, broadly applicable to other organisms...
  8. ncbi request reprint Filling gaps in a metabolic network using expression information
    Peter Kharchenko
    Department of Genetics, Harvard Medical School, Boston, MA 02115, USA
    Bioinformatics 20:i178-85. 2004
    ..We present a computational approach for identifying genes encoding such missing metabolic enzymes in a partially reconstructed metabolic network...
  9. pmc A sequence motif within chromatin entry sites directs MSL establishment on the Drosophila X chromosome
    Artyom A Alekseyenko
    Harvard Partners Center for Genetics and Genomics, Division of Genetics, Department of Medicine, Brigham and Women s Hospital, Boston, MA 02115, USA
    Cell 134:599-609. 2008
    ..These results provide strong evidence for both sequence-dependent and -independent steps in MSL targeting of dosage compensation to the male X chromosome...