转移性结直肠癌microRNA测序数据分析的综合框架。

NAR Cancer Pub Date : 2022-01-14 eCollection Date: 2022-03-01 DOI:10.1093/narcan/zcab051
Eirik Høye, Bastian Fromm, Paul H M Böttger, Diana Domanska, Annette Torgunrud, Christin Lund-Andersen, Torveig Weum Abrahamsen, Åsmund Avdem Fretland, Vegar J Dagenborg, Susanne Lorenz, Bjørn Edwin, Eivind Hovig, Kjersti Flatmark
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引用次数: 4

摘要

尽管microrna (miRNA)参与了癌症的所有特征,但miRNA在转移中的失调仍然知之甚少。这项工作的目的是使用新的和先前发表的下一代测序(NGS)数据集,可靠地鉴定与结直肠癌(CRC)转移进展相关的mirna,这些数据集来自268个原发性(pCRC)和转移性CRC (mCRC;肝、肺和腹膜转移)和肿瘤邻近组织。差异表达分析使用细致的生物信息学管道进行,仅包括真正的mirna,并利用mirna定制的质量控制和处理。5种mirna在多个转移位点Mir-210_3p、Mir-191_5p、Mir-8-P1b_3p [mir-141-3p]、Mir-1307_5p和Mir-155_5p上调。一些先前通过参与上皮到间质转化和缺氧与转移有关,而其他已鉴定的mirna则代表了新的发现。使用公开可用的管道有助于再现性,并允许在可用时添加新数据集。这里鉴定的一组mirna为进一步研究mirna在转移进展中的作用提供了一个可靠的起点。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer.

A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer.

A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer.

A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer.

Although microRNAs (miRNAs) contribute to all hallmarks of cancer, miRNA dysregulation in metastasis remains poorly understood. The aim of this work was to reliably identify miRNAs associated with metastatic progression of colorectal cancer (CRC) using novel and previously published next-generation sequencing (NGS) datasets generated from 268 samples of primary (pCRC) and metastatic CRC (mCRC; liver, lung and peritoneal metastases) and tumor adjacent tissues. Differential expression analysis was performed using a meticulous bioinformatics pipeline, including only bona fide miRNAs, and utilizing miRNA-tailored quality control and processing. Five miRNAs were identified as up-regulated at multiple metastatic sites Mir-210_3p, Mir-191_5p, Mir-8-P1b_3p [mir-141-3p], Mir-1307_5p and Mir-155_5p. Several have previously been implicated in metastasis through involvement in epithelial-to-mesenchymal transition and hypoxia, while other identified miRNAs represent novel findings. The use of a publicly available pipeline facilitates reproducibility and allows new datasets to be added as they become available. The set of miRNAs identified here provides a reliable starting-point for further research into the role of miRNAs in metastatic progression.

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