The DOI matches its Crossref record; 23 of the 23 references it cites were found in a registry or an index.
Systematic study of protein sumoylation: Development of a site‐specific predictor of SUMOsp 2.0
Abstract
Protein sumoylation is an important reversible post‐translational modification on proteins, and orchestrates a variety of cellular processes. Recently, computational prediction of sumoylation sites has attracted much attention for its cost‐efficiency and power in genomic data mining. In this work, we developed SUMOsp 2.0, an accurate computing program with an improved group‐based phosphorylation scoring algorithm. Our analysis demonstrated that SUMOsp 2.0 has greater prediction accuracy than SUMOsp 1.0 and other existing tools, with a sensitivity of 88.17% and a specificity of 92.69% under the medium threshold. Previously, several large‐scale experiments have identified a list of potential sumoylated substrates in Saccharomyces cerevisiae and Homo sapiens; however, the exact sumoylation sites in most of these proteins remain elusive. We have predicted potential sumoylation sites in these proteins using SUMOsp 2.0, which provides a great resource for researchers and an outline for further mechanistic studies of sumoylation in cellular plasticity and dynamics. The online service and local packages of SUMOsp 2.0 are freely available at: http://sumosp.biocuckoo.org/.
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Cites
Concepts in sumoylation: a decade on
Geiss-Friedlander, R., & Melchior, F. (2007) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2293 · Cited by 1,785
Johnson, E. S. (2004) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.73.011303.074118 · Cited by 1,675
Schwartz, D., & Gygi, S. P. (2005) · Nature Biotechnology · doi:10.1038/nbt1146 · Cited by 879
SUMO and ubiquitin in the nucleus: different functions, similar mechanisms?
Gill, G. (2004) · Genes & Development · doi:10.1101/gad.1214604 · Cited by 756
SUMO-1 Conjugation in Vivo Requires Both a Consensus Modification Motif and Nuclear Targeting
Rodriguez, M. S., Dargemont, C., & Hay, R. T. (2001) · Journal of Biological Chemistry · doi:10.1074/jbc.m009476200 · Cited by 744
Nuclear and unclear functions of SUMO
Seeler, J.-S., & Dejean, A. (2003) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm1200 · Cited by 667
GPS 2.0, a Tool to Predict Kinase-specific Phosphorylation Sites in Hierarchy
Xue, Y., Ren, J., Gao, X., Jin, C., Wen, L., & Yao, X. (2008) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m700574-mcp200 · Cited by 628
Self-citationDefining the SUMO-modified Proteome by Multiple Approaches in Saccharomyces cerevisiae*
Hannich, J. T., Lewis, A., Kroetz, M. B., Li, S.-J., Heide, H., Emili, A., & Hochstrasser, M. (2005) · Journal of Biological Chemistry · doi:10.1074/jbc.m413209200 · Cited by 386
Global Analysis of Protein Sumoylation in Saccharomyces cerevisiae
Wohlschlegel, J. A., Johnson, E. S., Reed, S. I., & Yates, J. R. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m409203200 · Cited by 317
Global Analyses of Sumoylated Proteins in Saccharomyces cerevisiae
Zhou, W., Ryan, J. J., & Zhou, H. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m404173200 · Cited by 300
Cited by
GPS-SUMO: a tool for the prediction of sumoylation sites and SUMO-interaction motifs
Zhao, Q., Xie, Y., Zheng, Y., Jiang, S., Liu, W., Mu, W., Liu, Z., Zhao, Y., Xue, Y., & Ren, J. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku383 · Cited by 522
Self-citationProtein SUMOylation modification and its associations with disease
Yang, Y., He, Y., Wang, X., liang, Z., He, G., Zhang, P., Zhu, H., Xu, N., & Liang, S. (2017) · Open Biology · doi:10.1098/rsob.170167 · Cited by 216
Self-citationDai, X.-Q., Plummer, G., Casimir, M., Kang, Y., Hajmrle, C., Gaisano, H. Y., Manning Fox, J. E., & MacDonald, P. E. (2011) · Diabetes · doi:10.2337/db10-0440 · Cited by 92
Multiple Post-translational Modifications Affect Heterologous Protein Synthesis
Tokmakov, A. A., Kurotani, A., Takagi, T., Toyama, M., Shirouzu, M., Fukami, Y., & Yokoyama, S. (2012) · Journal of Biological Chemistry · doi:10.1074/jbc.m112.366351 · Cited by 88
Metadata
- Authors
- Ren, J., Gao, X., Jin, C., Zhu, M., Wang, X., Shaw, A., Wen, L., Yao, X., & Xue, Y.
- Venue
- PROTEOMICS
- Publisher
- Wiley
- Published
- 2009-06
- Volume
- 9
- Issue
- 12
- Pages
- 3409-3412
- ISSN
- 1615-9853 (ISSN-L)
- 1615-9861
- OpenAlex
- W2052929547
- Cited by
- 262
- References
- 23
- FWCI
- 7.44
- Type
- journal article
- Language
- en
- Open access
- closed
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- Ren, J., Gao, X., Jin, C., Zhu, M., Wang, X., Shaw, A., Wen, L., Yao, X., & Xue, Y. (2009). Systematic study of protein sumoylation: Development of a site‐specific predictor of SUMOsp 2.0. PROTEOMICS. https://doi.org/10.1002/pmic.200800646
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