Tissue differences revealed by gene expression profiles of various cell lines
文献类型：期刊论文
| 作者 | Chen, Lei2,3,4; Cai, Yu-Dong2; Pan, Xiaoyong5; Zhang, Yu-Hang1; Kong, Xiangyin1; Huang, Tao1; , |
| 刊名 | JOURNAL OF CELLULAR BIOCHEMISTRY
 |
| 出版日期 | 2019 |
| 卷号 | 120期号:5页码:7068-7081 |
| 关键词 | cell line gene expression incremental feature selection Monte Carlo feature selection support vector machine |
| ISSN号 | 0730-2312 |
| DOI | 10.1002/jcb.27977 |
| 文献子类 | Article |
| 英文摘要 | Mechanisms through which tissues are formed and maintained remain unknown but are fundamental aspects in biology. Tissue-specific gene expression is a valuable tool to study such mechanisms. But in many biomedical studies, cell lines, rather than human body tissues, are used to investigate biological mechanisms Whether or not cell lines maintain their tissue-specific characteristics after they are isolated and cultured outside the human body remains to be explored. In this study, we applied a novel computational method to identify core genes that contribute to the differentiation of cell lines from various tissues. Several advanced computational techniques, such as Monte Carlo feature selection method, incremental feature selection method, and support vector machine (SVM) algorithm, were incorporated in the proposed method, which extensively analyzed the gene expression profiles of cell lines from different tissues. As a result, we extracted a group of functional genes that can indicate the differences of cell lines in different tissues and built an optimal SVM classifier for identifying cell lines in different tissues. In addition, a set of rules for classifying cell lines were also reported, which can give a clearer picture of cell lines in different issues although its performance was not better than the optimal SVM classifier. Finally, we compared such genes with the tissue-specific genes identified by the Genotype-tissue Expression project. Results showed that most expression patterns between tissues remained in the derived cell lines despite some uniqueness that some genes show tissue specificity. |
| 学科主题 | Biochemistry & Molecular Biology ; Cell Biology |
| WOS关键词 | CARLO FEATURE-SELECTION ; IDENTIFICATION ; PROTEIN ; LUNG ; TRANSLOCATION ; PREDICTION ; CANCER |
| 语种 | 英语 |
| WOS记录号 | WOS:000461070700026 |
| 出版者 | WILEY |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.144/handle/331004/1298]  |
| 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.Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Hlth Sci, Shanghai 200031, Peoples R China, 2.Shanghai Univ, Sch Life Sci, Shanghai 200444, Peoples R China; 3.East China Normal Univ, Shanghai Key Lab PMMP, Shanghai, Peoples R China; 4.Shanghai Maritime Univ, Coll Informat Engn, Shanghai, Peoples R China; 5.Erasmus MC, Dept Med Informat, Rotterdam, Netherlands; |
| 推荐引用方式 GB/T 7714 | Chen, Lei,Cai, Yu-Dong,Pan, Xiaoyong,et al. Tissue differences revealed by gene expression profiles of various cell lines[J]. JOURNAL OF CELLULAR BIOCHEMISTRY,2019,120(5):7068-7081. |
| APA | Chen, Lei.,Cai, Yu-Dong.,Pan, Xiaoyong.,Zhang, Yu-Hang.,Kong, Xiangyin.,...&,.(2019).Tissue differences revealed by gene expression profiles of various cell lines.JOURNAL OF CELLULAR BIOCHEMISTRY,120(5),7068-7081. |
| MLA | Chen, Lei,et al."Tissue differences revealed by gene expression profiles of various cell lines".JOURNAL OF CELLULAR BIOCHEMISTRY 120.5(2019):7068-7081. |
入库方式： OAI收割
来源：上海营养与健康研究所
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