方法对比
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| 时间序列蛋白质组学分析× | RNA-seq差异表达× | |
|---|---|---|
| 领域 | 生物信息学 | 生物信息学 |
| 方法族 | Process / pipeline | Process / pipeline |
| 起源年份≠ | 2000s (quantitative framework: Gygi et al. 1999; time-series designs: 2004–2010) | 2008–2010 (RNA-seq DE methodology established) |
| 提出者≠ | Multiple groups; Gygi et al. (1999) established quantitative proteomics; time-series designs emerged in the 2000s with LC-MS/MS workflows | Multiple groups; foundational methods from Anders & Huber (DESeq, 2010), Robinson, McCarthy & Smyth (edgeR, 2010) |
| 类型≠ | Quantitative longitudinal omics pipeline | Quantitative genomics pipeline |
| 开创性文献≠ | Lemeer, S., & Heck, A. J. R. (2012). The phosphoproteomics data explosion. Current Opinion in Chemical Biology, 16(1–2), 1–8. link ↗ | Love, M. I., Huber, W., & Anders, S. (2014). Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biology, 15(12), 550. DOI ↗ |
| 别名 | longitudinal proteomics, temporal proteomics, dynamic proteomics, time-course proteomics | RNA-seq DE analysis, transcriptomic differential expression, bulk RNA-seq DE, DEA |
| 相关 | 6 | 6 |
| 摘要≠ | Time-series proteomics analysis quantifies protein abundance across two or more ordered time points to reveal how the proteome changes dynamically in response to stimuli, developmental stages, or disease progression. By combining mass spectrometry-based protein quantification with statistical models designed for temporal data, the method identifies proteins with significant expression trends, oscillatory patterns, or delayed responses that cannot be detected in single time-point studies. | RNA-seq differential expression (DE) analysis identifies genes whose transcript abundance differs significantly between two or more biological conditions — for example, treated versus control, or diseased versus healthy tissue. Starting from raw sequencing reads, the pipeline moves through alignment, count-based normalization, statistical modeling of count dispersion, hypothesis testing, and multiple-testing correction to produce a ranked list of differentially expressed genes accompanied by fold-change estimates and adjusted p-values. |
| ScholarGate数据集 ↗ |
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