PESSA:一种基于路径丰富得分的癌症生存分析网络工具
Hong Yang1,2, Ying Shi1,3, Anqi Lin1
1Department of Oncology, Zhujiang Hospital, Southern Medical University, Haizhu District, Guangzhou, Guangdong, China.
PLoS computational biology
|May 8, 2024
概括
一个新的网络工具,PESSA,可以使用基因组激活水平作为分子标记器进行瘤预后分析. 该工具为51种癌症类型提供生存分析和可视化,有助于瘤研究.
科学领域:
- 在瘤学瘤学.
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 基因组激活水平正在成为关键的瘤分子标记物.
- 使用基因组激活水平进行预后分析的现有网络工具是有限的.
- 这种差距阻碍了全面的瘤研究和生物标志物发现.
研究的目的:
- 开发PESSA,一个基于网络的生存分析工具,利用基因组激活水平.
- 为研究人员提供一个平台,用于跨不同癌症类型的预后分析.
- 促进基因组激活水平作为可靠的瘤分子标记物的使用.
主要方法:
- 在所有数据分析中使用R.
- 使用单样样本基因组丰富分析 (ssGSEA) 方法评估基因组激活水平.
- 来自基因表达总汇 (GEO),癌症基因组图谱 (TCGA) 和欧洲基因组现象档案 (EGA) 的综合数据.
- 雇佣了生存和survminer包,用于生存分析和可视化.
- 执行了ssGSEA分数的中位数和最佳截止二分法分组.
主要成果:
- PESSA提供了一个开放式访问平台,用于可视化瘤预后分析.
- 该工具包含238个数据集,涵盖51种癌症类型和13种生存结果.
- 它包括来自MSigDB的13,434个与瘤相关的基因组,用于预分组.
- 用户可以生成卡普兰-梅尔分析,可视化图形和考克斯回归分析.
结论:
- PESSA是一个大规模的,基于网络的工具,用于瘤生存分析.
- 它创新地使用预定义的基因组激活水平作为分子标记.
- 该工具支持对广泛的癌症数据集进行全面的预后分析.
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