从 RNA 测序数据中识别转移形成的生物标志物的生物信息学管道。

A Bioinformatic Pipeline to Identify Biomarkers for Metastasis Formation from RNA Sequencing Data.

机构信息

Experimental and Clinical Research Center of the Charité - University Medicine Berlin and the Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association, Berlin, Germany.

German Cancer Consortium (DKTK), Heidelberg, Germany.

出版信息

Methods Mol Biol. 2021;2294:221-238. doi: 10.1007/978-1-0716-1350-4_16.

DOI:10.1007/978-1-0716-1350-4_16

PMID:33742405

Abstract

Deep molecular characterization of tumors is a prerequisite for precision oncology and personalized anticancer treatment. Analyzing the tumor transcriptome by RNA sequencing (RNAseq) allows the quantification of individual isoforms and also the detection of sequence alteration in the expressed genes. This chapter describes an analysis pipeline that focuses both on accurate quantification of transcripts and on the occurrence of cancer-associated mutations. Another section introduces the analysis of differentially expressed genes for biomarker evaluation on the example of comparing metastasized versus non-metastasized colorectal tumors.

摘要

肿瘤的深度分子特征是精准肿瘤学和个体化抗癌治疗的前提。通过 RNA 测序（RNAseq）分析肿瘤转录组可定量检测个体异构体，并检测表达基因中的序列改变。本章描述了一个分析流程，既关注转录本的精确定量，又关注癌症相关突变的发生。另一部分介绍了差异表达基因分析，以比较转移性和非转移性结直肠肿瘤为例，用于评估生物标志物。