The DOI matches its Crossref record; 7 of the 7 references it cites were found in a registry or an index.
PONDR-FIT: A meta-predictor of intrinsically disordered amino acids
Open accessAbstract
Protein intrinsic disorder is becoming increasingly recognized in proteomics research. While lacking structure, many regions of disorder have been associated with biological function. There are many different experimental methods for characterizing intrinsically disordered proteins and regions; nevertheless, the prediction of intrinsic disorder from amino acid sequence remains a useful strategy especially for many large-scale proteomics investigations. Here we introduced a consensus artificial neural network (ANN) prediction method, which was developed by combining the outputs of several individual disorder predictors. By eight-fold cross-validation, this meta-predictor, called PONDR-FIT, was found to improve the prediction accuracy over a range of 3 to 20% with an average of 11% compared to the single predictors, depending on the datasets being used. Analysis of the errors shows that the worst accuracy still occurs for short disordered regions with less than ten residues, as well as for the residues close to order/disorder boundaries. Increased understanding of the underlying mechanism by which such meta-predictors give improved predictions will likely promote the further development of protein disorder predictors. The access to PONDR-FIT is available at www.disprot.org.
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Cites
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Cited by
Elbaum-Garfinkle, S., Kim, Y., Szczepaniak, K., Chen, C. C.-H., Eckmann, C. R., Myong, S., & Brangwynne, C. P. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1504822112 · Cited by 1,278
D2P2: database of disordered protein predictions
Oates, M. E., Romero, P., Ishida, T., Ghalwash, M., Mizianty, M. J., Xue, B., Dosztányi, Z., Uversky, V. N., Obradovic, Z., Kurgan, L., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1226 · Cited by 705
Self-citationIntrinsically disordered proteins: a 10-year recap
Tompa, P. (2012) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2012.08.004 · Cited by 631
Omicron and Delta variant of SARS‐CoV‐2: A comparative computational study of spike protein
Kumar, S., Thambiraja, T. S., Karuppanan, K., & Subramaniam, G. (2022) · Journal of Medical Virology · doi:10.1002/jmv.27526 · Cited by 579
Xue, B., Dunker, A. K., & Uversky, V. N. (2012) · Journal of Biomolecular Structure and Dynamics · doi:10.1080/07391102.2012.675145 · Cited by 561
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Metadata
- Authors
- Xue, B., Dunbrack, R. L., Williams, R. W., Dunker, A. K., & Uversky, V. N.
- Venue
- Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics
- Publisher
- Elsevier BV
- Published
- 2010-04
- Volume
- 1804
- Issue
- 4
- Pages
- 996-1010
- ISSN
- 1570-9639 (ISSN-L)
- OpenAlex
- W2053820259
- Cited by
- 1,223
- References
- 7
- FWCI
- 18.43
- Type
- journal article
- Language
- en
- Open access
- green
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- Xue, B., Dunbrack, R. L., Williams, R. W., Dunker, A. K., & Uversky, V. N. (2010). PONDR-FIT: A meta-predictor of intrinsically disordered amino acids. Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics. https://doi.org/10.1016/j.bbapap.2010.01.011
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