The discovery of novel protein-coding features in mouse genome based on mass spectrometry data
文献类型：期刊论文
| 作者 | Xing, XB; Li, QR; Sun, H; Fu, X; Zhan, F; Huang, X; Li, J; Chen, CL; Shyr, Y; Zeng, R |
| 刊名 | GENOMICS
 |
| 出版日期 | 2011 |
| 卷号 | 98期号:5页码:343-351 |
| 关键词 | Proteogenomics Genome annotation Mouse |
| 通讯作者 | Zeng, R (reprint author), Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Biochem & Cell Biol, Key Lab Syst Biol, Shanghai 200031, Peoples R China.,zr@sibs.ac.cn ; yxli@sibs.ac.cn ; xielu@scbit.org |
| 英文摘要 | Identifying protein-coding genes in eukaryotic genomes remains a challenge in post-genome era due to the complex gene models. We applied a proteogenomics strategy to detect un-annotated protein-coding regions in mouse genome. High-accuracy tandem mass spectrometry (MS/MS) data from diverse mouse samples were generated by LTQ-Orbitrap mass spectrometer in house. Two searchable diagnostic proteomic datasets were constructed, one with all possible encoding exon junctions, and the other with all putative encoding exons, for the discovery of novel exon splicing events and novel uninterrupted protein-coding regions. Altogether 29,586 unique peptides were identified. Aligning backwards to the mouse genome, the translation of 4471 annotated genes was validated by the known peptides; and 172 genic events were defined in mouse genome by the novel peptides. The approach in the current work can provide substantial evidences for eukaryote genome annotation in encoding genes. (C) 2011 Elsevier Inc. All rights reserved. |
| 学科主题 | Biotechnology & Applied Microbiology; Genetics & Heredity |
| 类目[WOS] | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| 关键词[WOS] | SHOTGUN PROTEOMICS ; GENE ANNOTATION ; IDENTIFICATION ; TANDEM ; PHOSPHORYLATION ; PROTEOGENOMICS ; EXPRESSION ; PLATFORM ; SPECTRA |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000297138200004 |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.143/handle/331003/794]  |
| 专题 | 上海生化细胞研究所_上海生科院生化细胞研究所 |
| 推荐引用方式 GB/T 7714 | Xing, XB,Li, QR,Sun, H,et al. The discovery of novel protein-coding features in mouse genome based on mass spectrometry data[J]. GENOMICS,2011,98(5):343-351. |
| APA | Xing, XB.,Li, QR.,Sun, H.,Fu, X.,Zhan, F.,...&Xie, L.(2011).The discovery of novel protein-coding features in mouse genome based on mass spectrometry data.GENOMICS,98(5),343-351. |
| MLA | Xing, XB,et al."The discovery of novel protein-coding features in mouse genome based on mass spectrometry data".GENOMICS 98.5(2011):343-351. |
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