NGP：一种从转录组数据中检测非编码RNA-基因调控对的工具。

NGP: A Tool to Detect Noncoding RNA-Gene Regulatory Pairs from Transcriptomic Data.

作者信息

Ke Hongjie, Ma Tianzhou

机构信息

Department of Epidemiology and Biostatistics, School of Public Health, University of Maryland, College Park, MD, USA.

出版信息

Methods Mol Biol. 2025;2932:231-246. doi: 10.1007/978-1-0716-4566-6_12.

DOI:10.1007/978-1-0716-4566-6_12

PMID:40779113

Abstract

Noncoding RNAs (ncRNAs) play key roles in cancer initiation, promotion, and progression via regulating the expression of critical genes. Existing methods performed simple bivariate analysis on each pair of ncRNA and gene separately without considering the complex interactions among ncRNAs and genes. We developed a statistically rigorous and computationally efficient software tool to identify essential ncRNA-gene regulatory pairs from transcriptome-wide ncRNA and gene expression data. Here we provide a practical guidance with real data examples on the use of the tool implemented in the R package "NGP."

摘要

非编码RNA（ncRNAs）通过调节关键基因的表达在癌症的起始、发展和进展中发挥关键作用。现有方法对每对ncRNA和基因分别进行简单的双变量分析，而没有考虑ncRNAs和基因之间的复杂相互作用。我们开发了一种统计严谨且计算高效的软件工具，用于从全转录组范围的ncRNA和基因表达数据中识别必需的ncRNA-基因调控对。在此，我们通过实际数据示例提供关于使用R包“NGP”中实现的该工具的实用指南。