Iain MacCallum

Summary

Publications

  1. pmc ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads
    Iain MacCallum
    Broad Institute of MIT and Harvard, Charles Street, Cambridge, MA 02141, USA
    Genome Biol 10:R103. 2009
  2. pmc Finished bacterial genomes from shotgun sequence data
    Filipe J Ribeiro
    Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
    Genome Res 22:2270-7. 2012
  3. pmc High-quality draft assemblies of mammalian genomes from massively parallel sequence data
    Sante Gnerre
    Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 108:1513-8. 2011
  4. pmc Comprehensive variation discovery in single human genomes
    Neil I Weisenfeld
    The Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
    Nat Genet 46:1350-5. 2014
  5. pmc Paired-end sequencing of Fosmid libraries by Illumina
    Louise J S Williams
    Broad Institute of MIT and Harvard, Cambridge, MA 02141, USA
    Genome Res 22:2241-9. 2012
  6. ncbi request reprint Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
    Tarjei S Mikkelsen
    Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 447:167-77. 2007
  7. pmc ALLPATHS: de novo assembly of whole-genome shotgun microreads
    Jonathan Butler
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02141, USA
    Genome Res 18:810-20. 2008

Collaborators

Detail Information

Publications7

  1. pmc ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads
    Iain MacCallum
    Broad Institute of MIT and Harvard, Charles Street, Cambridge, MA 02141, USA
    Genome Biol 10:R103. 2009
    ..Velvet and EULER-SR were less accurate. For example, for Escherichia coli, the fraction of 10-kb stretches that were perfect was 99.8% (ALLPATHS2), 68.7% (Velvet), and 42.1% (EULER-SR)...
  2. pmc Finished bacterial genomes from shotgun sequence data
    Filipe J Ribeiro
    Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
    Genome Res 22:2270-7. 2012
    ..Cost and time requirements are thus dramatically reduced...
  3. pmc High-quality draft assemblies of mammalian genomes from massively parallel sequence data
    Sante Gnerre
    Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 108:1513-8. 2011
    ..The ALLPATHS-LG program is available at http://www.broadinstitute.org/science/programs/genome-biology/crd...
  4. pmc Comprehensive variation discovery in single human genomes
    Neil I Weisenfeld
    The Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
    Nat Genet 46:1350-5. 2014
    ..We show that the combination of new methods and improved data increases sensitivity by several fold, with the greatest impact in challenging regions of the human genome. ..
  5. pmc Paired-end sequencing of Fosmid libraries by Illumina
    Louise J S Williams
    Broad Institute of MIT and Harvard, Cambridge, MA 02141, USA
    Genome Res 22:2241-9. 2012
    ..Our Fosill-powered assembly of the mouse genome has an N50 scaffold length of 17.0 Mb, rivaling the connectivity (16.9 Mb) of the Sanger-sequencing based draft assembly...
  6. ncbi request reprint Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
    Tarjei 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...
  7. pmc ALLPATHS: de novo assembly of whole-genome shotgun microreads
    Jonathan Butler
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02141, USA
    Genome Res 18:810-20. 2008
    ..We describe a general method for genome assembly that can be applied to all types of DNA sequence data, not only short read data, but also conventional sequence reads...