Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features
文献类型：期刊论文
| 作者 | Li, Yuan1,2; Wang, Mingjun1,2; Wang, Huilin1,2; Tan, Hao3; Zhang, Ziding4; Webb, Geoffrey I.5; Song, Jiangning1,2,3,5 |
| 刊名 | SCIENTIFIC REPORTS
 |
| 出版日期 | 2014-07-21 |
| 卷号 | 4 |
| 英文摘要 | Lysine acetylation is a reversible post-translational modification, playing an important role in cytokine signaling, transcriptional regulation, and apoptosis. To fully understand acetylation mechanisms, identification of substrates and specific acetylation sites is crucial. Experimental identification is often time-consuming and expensive. Alternative bioinformatics methods are cost-effective and can be used in a high-throughput manner to generate relatively precise predictions. Here we develop a method termed as SSPKA for species-specific lysine acetylation prediction, using random forest classifiers that combine sequence-derived and functional features with two-step feature selection. Feature importance analysis indicates functional features, applied for lysine acetylation site prediction for the first time, significantly improve the predictive performance. We apply the SSPKA model to screen the entire human proteome and identify many high-confidence putative substrates that are not previously identified. The results along with the implemented Java tool, serve as useful resources to elucidate the mechanism of lysine acetylation and facilitate hypothesis-driven experimental design and validation. |
| WOS标题词 | Science & Technology |
| 类目[WOS] | Multidisciplinary Sciences |
| 研究领域[WOS] | Science & Technology - Other Topics |
| 关键词[WOS] | SUPPORT VECTOR MACHINES ; LYSINE ACETYLATION ; SOLVENT ACCESSIBILITY ; PSI-BLAST ; PREDICTION ; DATABASE ; DISORDER ; BINDING ; PHOSPHORYLATION ; INFORMATION |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000339157000008 |
| 源URL | [http://124.16.173.210/handle/834782/1349]  |
| 专题 | 天津工业生物技术研究所_结构生物信息学和整合系统生物学实验室 宋江宁_期刊论文 |
| 作者单位 | 1.Chinese Acad Sci, Tianjin Inst Ind Biotechnol, Natl Engn Lab Ind Enzymes, Tianjin 300308, Peoples R China 2.Chinese Acad Sci, Tianjin Inst Ind Biotechnol, Key Lab Syst Microbial Biotechnol, Tianjin 300308, Peoples R China 3.Monash Univ, Dept Biochem & Mol Biol, Fac Med, Melbourne, Vic 3800, Australia 4.China Agr Univ, Coll Biol Sci, State Key Lab Agrobiotechnol, Beijing 100193, Peoples R China 5.Monash Univ, Fac Informat Technol, Melbourne, Vic 3800, Australia |
| 推荐引用方式 GB/T 7714 | Li, Yuan,Wang, Mingjun,Wang, Huilin,et al. Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features[J]. SCIENTIFIC REPORTS,2014,4. |
| APA | Li, Yuan.,Wang, Mingjun.,Wang, Huilin.,Tan, Hao.,Zhang, Ziding.,...&Song, Jiangning.(2014).Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features.SCIENTIFIC REPORTS,4. |
| MLA | Li, Yuan,et al."Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features".SCIENTIFIC REPORTS 4(2014). |
入库方式： OAI收割
来源：天津工业生物技术研究所
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