zMAP toolset: model-based analysis of large-scale proteomic data via a variance stabilizing z-transformation
文献类型：期刊论文
| 作者 | Gui, Xiuqi5; Huang, Jing5; Ruan, Linjie4; Wu, Yanjun3; Guo, Xuan5; Cao, Ruifang5; Zhou, Shuhan5; Tan, Fengxiang5; Zhu, Hongwen2; Li, Mushan1 |
| 刊名 | GENOME BIOLOGY
 |
| 出版日期 | 2024-10-14 |
| 卷号 | 25期号:1页码:30 |
| ISSN号 | 1474-760X |
| DOI | 10.1186/s13059-024-03382-9 |
| 通讯作者 | Zhan, Lixing(lxzhan@sinh.ac.cn) ; Liu, Xin(xin.liu@sibcb.ac.cn) ; Tu, Shiqi(tushiqi@sinh.ac.cn) ; Shao, Zhen(shaozhen@sinh.ac.cn) |
| 英文摘要 | Isobaric labeling-based mass spectrometry (ILMS) has been widely used to quantify, on a proteome-wide scale, the relative protein abundance in different biological conditions. However, large-scale ILMS data sets typically involve multiple runs of mass spectrometry, bringing great computational difficulty to the integration of ILMS samples. We present zMAP, a toolset that makes ILMS intensities comparable across mass spectrometry runs by modeling the associated mean-variance dependence and accordingly applying a variance stabilizing z-transformation. The practical utility of zMAP is demonstrated in several case studies involving the dynamics of cell differentiation and the heterogeneity across cancer patients. |
| WOS关键词 | INTEGRATED PROTEOGENOMIC CHARACTERIZATION ; MOLECULAR SIGNATURES ; RATIO COMPRESSION ; METABOLISM ; CANCER ; QUANTIFICATION ; QUANTITATION ; INSIGHTS ; REVEALS ; COMPLEX |
| 资助项目 | National Basic Research Program of China[2018YFA0800203] ; Strategic Priority Research Program of Chinese Academy of Sciences[XDB38040100] ; National Natural Science Foundation of China[32370705] ; National Natural Science Foundation of China[32200519] |
| WOS研究方向 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| 语种 | 英语 |
| WOS记录号 | WOS:001335883100005 |
| 出版者 | BMC |
| 源URL | [http://119.78.100.183/handle/2S10ELR8/314008]  |
| 专题 | 新药研究国家重点实验室 |
| 通讯作者 | Zhan, Lixing; Liu, Xin; Tu, Shiqi; Shao, Zhen |
| 作者单位 | 1.Penn State Univ, Dept Stat, University Pk, PA 16802 USA 2.Chinese Acad Sci, Shanghai Inst Mat Med, Analyt Res Ctr Organ & Biol Mol, State Key Lab Drug Res, Shanghai 201203, Peoples R China 3.Chinese Acad Sci, Univ Chinese Acad Sci, Shanghai Inst Nutr & Hlth, CAS Key Lab Nutr Metab & Food Safety, Shanghai 200031, Peoples R China 4.Chinese Acad Sci, Univ Chinese Acad Sci, Key Lab Epigenet Regulat & Intervent, Shanghai Inst Biochem Cell & Biol,CAS Ctr Excellen, Shanghai 200031, Peoples R China 5.Chinese Acad Sci, Univ Chinese Acad Sci, Shanghai Inst Nutr & Hlth, CAS Key Lab Computat Biol, Shanghai 200031, Peoples R China |
| 推荐引用方式 GB/T 7714 | Gui, Xiuqi,Huang, Jing,Ruan, Linjie,et al. zMAP toolset: model-based analysis of large-scale proteomic data via a variance stabilizing z-transformation[J]. GENOME BIOLOGY,2024,25(1):30. |
| APA | Gui, Xiuqi.,Huang, Jing.,Ruan, Linjie.,Wu, Yanjun.,Guo, Xuan.,...&Shao, Zhen.(2024).zMAP toolset: model-based analysis of large-scale proteomic data via a variance stabilizing z-transformation.GENOME BIOLOGY,25(1),30. |
| MLA | Gui, Xiuqi,et al."zMAP toolset: model-based analysis of large-scale proteomic data via a variance stabilizing z-transformation".GENOME BIOLOGY 25.1(2024):30. |
入库方式： OAI收割
来源：上海药物研究所
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