HMMER Cut-off Threshold Tool (HMMERCTTER): Supervised classification of superfamily protein sequences with a reliable cut-off threshold.

Journal: PloS one
Published Date: Mar 26, 2018

Abstract

BACKGROUND: Protein superfamilies can be divided into subfamilies of proteins with different functional characteristics. Their sequences can be classified hierarchically, which is part of sequence function assignation. Typically, there are no clear subfamily hallmarks that would allow pattern-based function assignation by which this task is mostly achieved based on the similarity principle. This is hampered by the lack of a score cut-off that is both sensitive and specific.

Authors

  • Inti Anabela Pagnuco
    Laboratorio de Procesamiento Digital de Imágenes, Instituto de Investigaciones Científicas y Tecnológicas en Electrónica (ICyTE), Facultad de Ingeniería, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina.
  • María Victoria Revuelta
    Instituto de Investigaciones Biológicas (IIB-CONICET-UNMdP), Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina.
  • Hernán Gabriel Bondino
    Instituto de Investigaciones Biológicas (IIB-CONICET-UNMdP), Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina.
  • Marcel Brun
    Laboratorio de Procesamiento Digital de Imágenes, Instituto de Investigaciones Científicas y Tecnológicas en Electrónica (ICyTE), Facultad de Ingeniería, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina.
  • Arjen Ten Have
    Instituto de Investigaciones Biológicas (IIB-CONICET-UNMdP), Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Mar del Plata, Mar del Plata, Argentina.

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