CSS-Palm 2.0: an updated software for palmitoylation sites prediction Export

@article{citeulike:3467208, abstract = {Protein palmitoylation is an essential post-translational lipid modification of proteins, and reversibly orchestrates a variety of cellular processes. Identification of palmitoylated proteins with their sites is the foundation for understanding molecular mechanisms and regulatory roles of palmitoylation. Contrasting to the labor-intensive and time-consuming experimental approaches, in silico prediction of palmitoylation sites has attracted much attention as a popular strategy. In this work, we updated our previous CSS-Palm into version 2.0. An updated clustering and scoring strategy (CSS) algorithm was employed with great improvement. The leave-one-out validation and 4-, 6-, 8- and 10-fold cross-validations were adopted to evaluate the prediction performance of CSS-Palm 2.0. Also, an additional new data set not included in training was used to test the robustness of CSS-Palm 2.0. By comparison, the performance of CSS-Palm was much better than previous tools. As an application, we performed a small-scale annotation of palmitoylated proteins in budding yeast. The online service and local packages of CSS-Palm 2.0 were freely available at: http://bioinformatics.lcd-ustc.org/css\_palm. 10.1093/protein/gzn039}, author = {Ren, Jian and Wen, Longping and Gao, Xinjiao and Jin, Changjiang and Xue, Yu and Yao, Xuebiao}, citeulike-article-id = {3467208}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/protein/gzn039}, citeulike-linkout-1 = {http://peds.oxfordjournals.org/cgi/content/abstract/21/11/639}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/18753194}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=18753194}, day = {1}, doi = {10.1093/protein/gzn039}, journal = {Protein Engineering, Design and Selection}, keywords = {css, palm, palmitoylation}, month = {November}, number = {11}, pages = {639--644}, posted-at = {2008-10-31 02:28:47}, priority = {2}, title = {CSS-Palm 2.0: an updated software for palmitoylation sites prediction}, url = {http://dx.doi.org/10.1093/protein/gzn039}, volume = {21}, year = {2008} }

TY - JOUR ID - citeulike:3467208 L3 - citeulike-article-id:3467208 N2 - Protein palmitoylation is an essential post-translational lipid modification of proteins, and reversibly orchestrates a variety of cellular processes. Identification of palmitoylated proteins with their sites is the foundation for understanding molecular mechanisms and regulatory roles of palmitoylation. Contrasting to the labor-intensive and time-consuming experimental approaches, in silico prediction of palmitoylation sites has attracted much attention as a popular strategy. In this work, we updated our previous CSS-Palm into version 2.0. An updated clustering and scoring strategy (CSS) algorithm was employed with great improvement. The leave-one-out validation and 4-, 6-, 8- and 10-fold cross-validations were adopted to evaluate the prediction performance of CSS-Palm 2.0. Also, an additional new data set not included in training was used to test the robustness of CSS-Palm 2.0. By comparison, the performance of CSS-Palm was much better than previous tools. As an application, we performed a small-scale annotation of palmitoylated proteins in budding yeast. The online service and local packages of CSS-Palm 2.0 were freely available at: http://bioinformatics.lcd-ustc.org/css_palm. 10.1093/protein/gzn039 IS - 11 JF - Protein Engineering, Design and Selection EP - 644 TI - CSS-Palm 2.0: an updated software for palmitoylation sites prediction VL - 21 SP - 639 KW - css KW - palm KW - palmitoylation AU - Ren, Jian AU - Wen, Longping AU - Gao, Xinjiao AU - Jin, Changjiang AU - Xue, Yu AU - Yao, Xuebiao PY - 2008/11/01/ UR - http://dx.doi.org/10.1093/protein/gzn039 ER -