推断酶-酸调节从蛋白酶丰富的癌症多组数据集
Haoyang Cheng1,2, Zhuoran Liang1, Yijin Wu1
1State Key Laboratory of Oncology in South China, Guangdong Provincial Clinical Research Center for Cancer, Sun Yat-sen University Cancer Center, 651 Dongfeng East Road, Guangzhou 510060, China.
Briefings in bioinformatics
|April 7, 2025
概括
识别酶-酸 (KPS) 配对对于理解细胞信号和疾病至关重要. 这项研究量化了瘤和正常组织之间的KPS相关性,开发了一种新的SMOTE-XGBoost方法来预测酶特异性酸化位.
科学领域:
- 分子生物学分子生物学
- 癌症研究 癌症研究
- 生物信息学是一种生物信息学.
背景情况:
- 酸化对真核细胞信号传递和疾病至关重要,但对检测到的酸盐负责的激酶的识别仍然是一个挑战.
- 高通量技术检测到众多的酸盐,但调节它们的特定激酶在很大程度上是未知的,阻碍了对细胞调节的全面理解.
研究的目的:
- 通过分析多个瘤和正常组织数据集的定量数据来识别和描述酶-酸 (KPS) 对.
- 开发和验证使用KPS相关性预测酶特异酸化位点的计算方法.
主要方法:
- 从10,159个瘤和15个相邻的正常组织样本中收集和分析了定量数据 (转录,蛋白质,酸化水平).
- 使用实验证据和预测工具调查KPS对链接,评估酶和酸盐水平之间的相关性.
- 使用过量采样方法与XGBoost算法 (SMOTE-XGBoost) 预测潜在的酶特定化位点.
主要成果:
- 在激酶表达/酸化和酸盐水平之间发现了显著的相关性,验证了KPS的相互联系.
- 与正常组织相比,在瘤样本中观察到KPS对的Spearman相关系数显著更高.
- 成功开发并应用了SMOTE-XGBoost方法来预测酶特异性酸化位,并将研究结果集成到eKPI数据库中.
结论:
- 定量相关性分析对于推断酶-酸相互连接是有效的.
- 激酶和酸盐之间的瘤特异性调节相互作用比正常组织更明显.
- 开发的SMOTE-XGBoost方法和eKPI数据库为推进对酶-酸调控关系的研究提供了宝贵的资源.
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