The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
Exploiting heterogeneous sequence properties improves prediction of protein disorder
Abstract
During the past few years we have investigated methods to improve predictors of intrinsically disordered regions longer than 30 consecutive residues. Experimental evidence, however, showed that these predictors were less successful on short disordered regions, as observed two years ago during the fifth Critical Assessment of Techniques for Protein Structure Prediction (CASP5). To address this shortcoming, we developed a two-level model called VSL1 (CASP6 id: 193-1). At the first level, VSL1 consists of two specialized predictors, one of which was optimized for long disordered regions (>30 residues) and the other for short disordered regions (< or =30 residues). At the second level, a meta-predictor was built to assign weights for combining the two first-level predictors. As the results of the CASP6 experiment showed, this new predictor has achieved the highest accuracy yet and significantly improved performance on short disordered regions, while maintaining high performance on long disordered regions.
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Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302
Intrinsically unstructured proteins and their functions
Dyson, H. J., & Wright, P. E. (2005) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm1589 · Cited by 3,871
Intrinsic Disorder and Protein Function
Dunker, A. K., Brown, C. J., Lawson, J. D., Iakoucheva, L. M., & Obradović, Z. (2002) · Biochemistry · doi:10.1021/bi012159+ · Cited by 1,731
Self-citationImproved amino acid flexibility parameters
Smith, D. K., Radivojac, P., Obradovic, Z., Dunker, A. K., & Zhu, G. (2003) · Protein Science · doi:10.1110/ps.0236203 · Cited by 164
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Self-citationIntrinsic Disorder in Transcription Factors
Liu, J., Perumal, N. B., Oldfield, C. J., Su, E. W., Uversky, V. N., & Dunker, A. K. (2006) · Biochemistry · doi:10.1021/bi0602718 · Cited by 792
Self-citationRomero, P. R., Zaidi, S., Fang, Y. Y., Uversky, V. N., Radivojac, P., Oldfield, C. J., Cortese, M. S., Sickmeier, M., LeGall, T., Obradovic, Z., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0507916103 · Cited by 480
Self-citationIntrinsically disordered proteins play diverse roles in cell signaling
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Miller-Vedam, L. E., Bräuning, B., Popova, K. D., Schirle Oakdale, N. T., Bonnar, J. L., Prabu, J. R., Boydston, E. A., Sevillano, N., Shurtleff, M. J., Stroud, R. M., et al. (2020) · eLife · doi:10.7554/elife.62611 · Cited by 87
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Tacchi, J. L., Raymond, B. B. A., Haynes, P. A., Berry, I. J., Widjaja, M., Bogema, D. R., Woolley, L. K., Jenkins, C., Minion, F. C., Padula, M. P., et al. (2016) · Open Biology · doi:10.1098/rsob.150210 · Cited by 62
Kumar, N., Taneja, A., Ghosh, M., Rothweiler, U., Sundaresan, N. R., & Singh, M. (2024) · Nucleic Acids Research · doi:10.1093/nar/gkad1208 · Cited by 12
Molecular genomic insights into melanoma associated proteins PRAME and BAP1
Nawn, D., Hassan, S. S., Hromić-Jahjefendić, A., Bhattacharya, T., Basu, P., Redwan, E. M., Barh, D., Andrade, B. S., Aljabali, A. A., Serrano-Aroca, Á., et al. (2025) · Journal of Biomolecular Structure and Dynamics · doi:10.1080/07391102.2025.2475228 · Cited by 3
Metadata
- Authors
- Obradovic, Z., Peng, K., Vucetic, S., Radivojac, P., & Dunker, A. K.
- Venue
- Proteins: Structure, Function, and Bioinformatics
- Publisher
- Wiley
- Published
- 2005
- Volume
- 61
- Issue
- S7
- Pages
- 176-182
- ISSN
- 0887-3585 (ISSN-L)
- 1097-0134
- OpenAlex
- W2128413613
- Cited by
- 555
- References
- 4
- FWCI
- 7.49
- Type
- journal article
- Language
- en
- Open access
- closed
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