A Normalization-Free and Nonparametric Method Sharpens Large-Scale Transcriptome Analysis and Reveals Common Gene Alteration Patterns in Cancers
文献类型：期刊论文
| 作者 | Li, Qi-Gang5,7; He, Yong-Han5,7; Wu, Huan5,7; Pu, Shao-Yan5,7; Wang, Xiao-Xiong3,5,7; Chen, Xiao-Qiong5,7; Yu, Qin3,5,7; Kong, Qing-Peng5,7; Yang, Cui-Ping6; Jiang, Li-Ping3,6 |
| 刊名 | THERANOSTICS
 |
| 出版日期 | 2017 |
| 卷号 | 7期号:11页码:2888-2899 |
| 关键词 | Cross-Value Association Analysis normalization-free pan-cancer transcriptome heterogeneity |
| ISSN号 | 1838-7640 |
| DOI | 10.7150/thno.19425 |
| 文献子类 | Article |
| 英文摘要 | Heterogeneity in transcriptional data hampers the identification of differentially expressed genes (DEGs) and understanding of cancer, essentially because current methods rely on cross-sample normalization and/or distribution assumption-both sensitive to heterogeneous values. Here, we developed a new method, Cross-Value Association Analysis (CVAA), which overcomes the limitation and is more robust to heterogeneous data than the other methods. Applying CVAA to a more complex pan-cancer dataset containing 5,540 transcriptomes discovered numerous new DEGs and many previously rarely explored pathways/processes; some of them were validated, both in vitro and in vivo, to be crucial in tumorigenesis, e.g., alcohol metabolism (ADH1B), chromosome remodeling (NCAPH) and complement system (Adipsin). Together, we present a sharper tool to navigate large-scale expression data and gain new mechanistic insights into tumorigenesis. |
| 学科主题 | Research & Experimental Medicine |
| WOS关键词 | DIFFERENTIAL EXPRESSION ANALYSIS ; RNA-SEQ DATA ; SEQUENCE COUNT DATA ; GENOME ; METASTASIS ; SIGNATURE ; PROFILES ; MODEL |
| 语种 | 英语 |
| WOS记录号 | WOS:000405108400010 |
| 出版者 | IVYSPRING INT PUBL |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.144/handle/331004/605]  |
| 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.Yunnan Univ, Lab Conservat & Utilizat Bioresources, Kunming 650091, Peoples R China; 2.Chinese Acad Sci, Shanghai Inst Biol Sci, CAS MPG Partner Inst Computat Biol, Key Lab Computat Biol, Shanghai 200031, Peoples R China; 3.Univ Chinese Acad Sci, Kunming Coll Life Sci, Beijing 100049, Peoples R China, 4.Univ Sci & Technol China, Sch Life Sci, Hefei 230027, Peoples R China; 5.Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China; 6.Chinese Acad Sci, Kunming Inst Zool, Key Lab Anim Models & Human Dis Mech, Kunming 650223, Peoples R China; 7.KIZ CUHK Joint Lab Bioresources & Mol Res Common, Kunming 650223, Peoples R China; 8.Cent S Univ, Xiangya Hosp 2, Dept Pathol, Changsha 410013, Hunan, Peoples R China; 9.Sichuan Agr Univ, Farm Anim Genet Resources Explorat & Innovat Key, Chengdu 611130, Peoples R China; |
| 推荐引用方式 GB/T 7714 | Li, Qi-Gang,He, Yong-Han,Wu, Huan,et al. A Normalization-Free and Nonparametric Method Sharpens Large-Scale Transcriptome Analysis and Reveals Common Gene Alteration Patterns in Cancers[J]. THERANOSTICS,2017,7(11):2888-2899. |
| APA | Li, Qi-Gang.,He, Yong-Han.,Wu, Huan.,Pu, Shao-Yan.,Wang, Xiao-Xiong.,...&,.(2017).A Normalization-Free and Nonparametric Method Sharpens Large-Scale Transcriptome Analysis and Reveals Common Gene Alteration Patterns in Cancers.THERANOSTICS,7(11),2888-2899. |
| MLA | Li, Qi-Gang,et al."A Normalization-Free and Nonparametric Method Sharpens Large-Scale Transcriptome Analysis and Reveals Common Gene Alteration Patterns in Cancers".THERANOSTICS 7.11(2017):2888-2899. |
入库方式： OAI收割
来源：上海营养与健康研究所
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