title: WALTZ-DB: a benchmark database of amyloidogenic hexapeptides.
abstract: Accurate prediction of amyloid-forming amino acid sequences remains an important challenge. We here present an online database that provides open access to the largest set of experimentally characterized amyloid forming hexapeptides. To this end, we expanded our previous set of 280 hexapeptides used to develop the Waltz algorithm with 89 peptides from literature review and by systematic experimental characterisation of the aggregation of 720 hexapeptides by transmission electron microscopy, dye binding and Fourier transform infrared spectroscopy. This brings the total number of experimentally characterized hexapeptides in the WALTZ-DB database to 1089, of which 244 are annotated as positive for amyloid formation.
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Jacinte
authors.initials: J
authors.lastname: Beerten
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Joost
authors.initials: J
authors.lastname: Van Durme
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Rodrigo
authors.initials: R
authors.lastname: Gallardo
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Emidio
authors.initials: E
authors.lastname: Capriotti
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Louise
authors.initials: L
authors.lastname: Serpell
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Frederic
authors.initials: F
authors.lastname: Rousseau
authors.affiliation: VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK VIB Switch Laboratory, Leuven, Belgium, Department of Cellular and Molecular Medicine, KU Leuven, Herestraat 49 Box 802, Leuven, Belgium, Division of Informatics, Department of Pathology, University of Alabama at Birmingham, Birmingham, AL 35249, USA and School of Life Sciences, University of Sussex, Falmer, East Sussex BN1 9QG, UK.
authors.forename: Joost
authors.initials: J
authors.lastname: Schymkowitz
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D000682:Amyloid / Q000737:chemistry* / Q000648:ultrastructure; D030562:Databases, Protein; D009842:Oligopeptides / Q000737:chemistry*
chemical_list: D000682:Amyloid; D009842:Oligopeptides