Determination of Genes Related to Uveitis by Utilization of the Random Walk with Restart Algorithm on a Protein-Protein Interaction Network
文献类型：期刊论文
| 作者 | Lu, Shiheng1; Yan, Yan1; Li, Zhen1; Liu, Lin1; Chen, Lei2; Yang, Jing3; Wang, Shaopeng3; Zhang, Yuhang4; , |
| 刊名 | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
 |
| 出版日期 | 2017 |
| 卷号 | 18期号:5页码:1045 |
| 关键词 | uveitis protein-protein interaction random walk with restart algorithm |
| ISSN号 | 1422-0067 |
| DOI | 10.3390/ijms18051045 |
| 文献子类 | Article |
| 英文摘要 | Uveitis, defined as inflammation of the uveal tract, may cause blindness in both young and middle-aged people. Approximately 10-15% of blindness in the West is caused by uveitis. Therefore, a comprehensive investigation to determine the disease pathogenesis is urgent, as it will thus be possible to design effective treatments. Identification of the disease genes that cause uveitis is an important requirement to achieve this goal. To begin to answer this question, in this study, a computational method was proposed to identify novel uveitis-related genes. This method was executed on a large protein-protein interaction network and employed a popular ranking algorithm, the RandomWalk with Restart (RWR) algorithm. To improve the utility of the method, a permutation test and a procedure for selecting core genes were added, which helped to exclude false discoveries and select the most important candidate genes. The five-fold cross-validation was adopted to evaluate the method, yielding the average F1-measure of 0.189. In addition, we compared our method with a classic GBA-based method to further indicate its utility. Based on our method, 56 putative genes were chosen for further assessment. We have determined that several of these genes (e.g., CCL4, Jun, and MMP9) are likely to be important for the pathogenesis of uveitis. |
| 学科主题 | Biochemistry & Molecular Biology ; Chemistry |
| WOS关键词 | ENDOTOXIN-INDUCED UVEITIS ; COLONY-STIMULATING FACTOR ; GENOME-WIDE ASSOCIATION ; CHINESE HAN POPULATION ; OCULAR BEHCETS-DISEASE ; ACUTE ANTERIOR UVEITIS ; MESSENGER-RNA EXPRESSION ; KOYANAGI-HARADA SYNDROME ; SHORTEST-PATH APPROACH ; T-CELLS |
| 语种 | 英语 |
| WOS记录号 | WOS:000404113900151 |
| 出版者 | MDPI AG |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.144/handle/331004/522]  |
| 专题 | 中国科学院上海生命科学研究院营养科学研究所 |
| 作者单位 | 1.Shanghai Jiao Tong Univ, Sch Med, Ren Ji Hosp, Dept Ophthalmol, Shanghai 200127, Peoples R China; 2.Shanghai Maritime Univ, Coll Informat Engn, Shanghai 201306, Peoples R China; 3.Shanghai Univ, Sch Life Sci, Shanghai 200444, Peoples R China; 4.Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Hlth Sci, Shanghai 200031, Peoples R China, |
| 推荐引用方式 GB/T 7714 | Lu, Shiheng,Yan, Yan,Li, Zhen,et al. Determination of Genes Related to Uveitis by Utilization of the Random Walk with Restart Algorithm on a Protein-Protein Interaction Network[J]. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,2017,18(5):1045. |
| APA | Lu, Shiheng.,Yan, Yan.,Li, Zhen.,Liu, Lin.,Chen, Lei.,...&,.(2017).Determination of Genes Related to Uveitis by Utilization of the Random Walk with Restart Algorithm on a Protein-Protein Interaction Network.INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,18(5),1045. |
| MLA | Lu, Shiheng,et al."Determination of Genes Related to Uveitis by Utilization of the Random Walk with Restart Algorithm on a Protein-Protein Interaction Network".INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 18.5(2017):1045. |
入库方式： OAI收割
来源：上海营养与健康研究所
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