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Updated: Jul 2, 2026
12:42
Photoactivated Localization Microscopy with Bimolecular Fluorescence Complementation (BiFC-PALM)
Published on: December 22, 2015
CSS-Palm 2.0: an updated software for palmitoylation sites prediction
Jian Ren1, Longping Wen, Xinjiao Gao
1Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, University of Science & Technology of China, Hefei, Anhui 230027, China.
Protein Engineering, Design & Selection : PEDS
|August 30, 2008
Summary
CSS-Palm 2.0 improves in silico prediction of protein palmitoylation sites. This updated tool enhances understanding of this key post-translational modification and its cellular roles.
Area of Science:
- Biochemistry
- Molecular Biology
- Bioinformatics
Background:
- Protein palmitoylation is a crucial, reversible post-translational lipid modification regulating diverse cellular functions.
- Identifying palmitoylated proteins and their specific sites is fundamental for elucidating molecular mechanisms and regulatory roles.
- Experimental methods for identifying palmitoylated sites are often laborious and time-consuming, driving the need for efficient computational approaches.
Purpose of the Study:
- To update and enhance the CSS-Palm tool for improved in silico prediction of protein palmitoylation sites.
- To rigorously evaluate the performance and robustness of the updated CSS-Palm 2.0 algorithm.
- To provide a valuable resource for researchers studying protein palmitoylation.
Main Methods:
- Development of CSS-Palm 2.0 utilizing an updated clustering and scoring strategy (CSS) algorithm.
- Performance evaluation through leave-one-out and k-fold cross-validations (4-, 6-, 8-, and 10-fold).
- Testing the tool's robustness on an independent dataset not used during training.
Main Results:
- CSS-Palm 2.0 demonstrated significantly improved prediction performance compared to previous tools.
- Cross-validation analyses confirmed the high accuracy and reliability of the updated algorithm.
- The tool was successfully applied to annotate palmitoylated proteins in budding yeast.
Conclusions:
- CSS-Palm 2.0 offers a substantial advancement in the computational prediction of protein palmitoylation sites.
- The enhanced accuracy and robustness of CSS-Palm 2.0 facilitate more efficient research into palmitoylation.
- The freely available online service and local packages of CSS-Palm 2.0 provide a valuable resource for the scientific community.
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