Niina Haiminen

Summary

Affiliation: IBM Research
Country: USA

Publications

  1. pmc Sequencing of a QTL-rich region of the Theobroma cacao genome using pooled BACs and the identification of trait specific candidate genes
    Frank A Feltus
    Clemson University Genomics Institute, Clemson University, 51 New Cherry Street, Clemson, SC 29634, USA
    BMC Genomics 12:379. 2011
  2. pmc Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomes
    Niina Haiminen
    IBM T J Watson Research Center, Yorktown Heights, NY 10598, USA
    BMC Genomics 12:194. 2011
  3. pmc Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results
    Niina Haiminen
    IBM Thomas J Watson Research Center, Yorktown Heights, New York, United States of America
    PLoS ONE 6:e24182. 2011
  4. pmc iXora: exact haplotype inferencing and trait association
    Filippo Utro
    Computational Biology Center, IBM T J Watson Research, Yorktown Heights, NY, USA
    BMC Genet 14:48. 2013

Collaborators

  • Laxmi Parida
  • Filippo Utro
  • Juan Carlos Motamayor
  • Raymond J Schnell
  • David N Kuhn
  • Frank A Feltus
  • Donald Livingstone
  • Omar E Cornejo
  • Stefan Royaert
  • James Ford
  • Christopher A Saski
  • Zachary Smith
  • Chun Huai Cheng
  • Keithanne Mockaitis
  • Margaret E Staton
  • Stephen P Ficklin
  • Barbara P Blackmon

Detail Information

Publications4

  1. pmc Sequencing of a QTL-rich region of the Theobroma cacao genome using pooled BACs and the identification of trait specific candidate genes
    Frank A Feltus
    Clemson University Genomics Institute, Clemson University, 51 New Cherry Street, Clemson, SC 29634, USA
    BMC Genomics 12:379. 2011
    ..Using the minimum tiling path as a guide, specific BAC clones representing the prioritized genomic interval are selected, pooled, and used to prepare a sequencing library...
  2. pmc Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomes
    Niina Haiminen
    IBM T J Watson Research Center, Yorktown Heights, NY 10598, USA
    BMC Genomics 12:194. 2011
    ..We propose additional measures enabling easy and visual comparison of assembly quality, such as rearrangements and redundant sequence content, relative to the known target sequence...
  3. pmc Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results
    Niina Haiminen
    IBM Thomas J Watson Research Center, Yorktown Heights, New York, United States of America
    PLoS ONE 6:e24182. 2011
    ....
  4. pmc iXora: exact haplotype inferencing and trait association
    Filippo Utro
    Computational Biology Center, IBM T J Watson Research, Yorktown Heights, NY, USA
    BMC Genet 14:48. 2013
    ..While methods for inferring parental haplotype assignments on large F1 populations exist in theory, these approaches do not work in practice at high levels of accuracy...