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BMC Bioinformatics

Open Access

Erratum to: Improving protein order-disorder classification using charge-hydropathy plots

  • Fei Huang1,
  • Christopher J. Oldfield1,
  • Bin Xue2,
  • Wei-Lun Hsu1,
  • Jingwei Meng1,
  • Xiaowen Liu1,
  • Li Shen1,
  • Pedro Romero3,
  • Vladimir N. Uversky4, 5, 6 and
  • A. Keith Dunker1Email author
BMC Bioinformatics201516:241

https://doi.org/10.1186/s12859-015-0646-5

Published: 31 July 2015

The original article was published in BMC Bioinformatics 2014 15:S4

During the production of our manuscript [1], an incorrect Figure 1 was put in place of the one we submitted, and we erred in not appropriately informing the production staff of this mistake. The corrected figure and the text describing this figure, as well as the figure legend, are present herein.
Figure 1.

Charge-Hydropathy plots. In (A) the IDP-Hydropathy scale was used, in (B) the Guy (1985) Hydropathy scale was used, and in (C) the Kyte-Doolittle (1981) hydropathy scale was used. Red circles indicate disordered proteins, blue circles indicate structured proteins. For these plots, each scale was normalized to be in the interval of 0 to 1. The Guy’s scale is multiplied by -1 prior to normalization to conform to the energy rule set by Kyte-Doolittle scale. In (A) the function describing the boundary is: <charge> = 3.31 <hydropathy> 0.97. In (B) the function describing the boundary is: <charge> = 2.32 <hydropathy> 0.93. In (C), the function describing the boundary is: <charge> = 1.35 <hydropathy> 0.49.

As stated in our manuscript [1], “The C-H plots generated using scale SVM parameters scale, Kyte-Doolittle hydropathy scale, and Guy hydropathy scale for whole protein prediction are shown in Figure 1. Figure 1A, which is derived by SVM parameters scale, shows many fewer misclassified disordered proteins on the ordered side, compared to Figure 1B and 1C.”

As further stated in reference [1]: “Figure 1. Charge-Hydropathy plots. In (A) the IDP-Hydropathy scale was used, in (B) the Guy (1985) Hydropathy scale was used, and in (C) the Kyte-Doolittle (1981) hydropathy scale was used. Red circles indicate disordered proteins, blue circles indicate structured proteins. For these plots, each scale was normalized to be in the interval of 0 to 1. The Guy’s scale is multiplied by -1 prior to normalization to conform to the energy rule set by Kyte-Doolittle scale. In (A) the function describing the boundary is: <charge> = 3.31 < hydropathy> -0.97. In (B) the function describing the boundary is: <charge> = 2.32 < hydropathy> -0.93. In (C), the function describing the boundary is <charge> = 1.35 < hydropathy> -0.49.”

For more details, the reader is referred to the published manuscript [1].

Notes

Authors’ Affiliations

(1)
Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biology, Indiana University School of Medicine
(2)
Department of Cell Biology, Microbiology, and Molecular Biology, University of South Florida
(3)
Chemical and Biological Engineering, University of Wisconsin-Madison
(4)
Department of Molecular Medicine, University of South Florida
(5)
USF Health Byrd Alzheimer’s Research Institute, Morsani College of Medicine, University of South Florida
(6)
Institute for Biological Instrumentation, Russian Academy of Sciences

Reference

  1. Huang F, Oldfield CJ, Xue B, Hsu WL, Meng J, Liu X, Shen L, Romero P, Uversky VN, Dunker AK. IDP hydropathy: A new hydropathy scale that improves disorder prediction. BMC Bioinformatics. 2014;15 Suppl 17:54.View ArticleGoogle Scholar

Copyright

© Huang et al. 2015

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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