白细胞介素9基因座中转录因子结合位点的预测与验证

Prediction and Validation of Transcription Factors Binding Sites in the Il9 Locus.

作者信息

Orent William, Elyaman Wassim

机构信息

Ann Romney Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, 60 Fenwood Road, Boston, MA, 02115, USA.

Program in Translational Neurogenomics and Neuroimmunology, Department of Neurology, Brigham and Women's Hospital, Harvard Medical School, Broad Institute at Harvard University and MIT, Boston, MA, 02115, USA.

出版信息

Methods Mol Biol. 2017;1585:111-125. doi: 10.1007/978-1-4939-6877-0_9.

DOI:10.1007/978-1-4939-6877-0_9

PMID:28477191

Abstract

Over the past decade, multiple effector T cell subsets have been identified with varying differentiation conditions in the milieu as well as a broad diversity of cytokine expression. Interleukin-9 (IL-9) secreting T helper 9 (Th9) cells are the newest member of this family. T helper cell differentiation including Th9 cells appears to be an epigenetic phenomenon requiring the coordination of a large variety of transcription factors to reshape the chromatin landscape and generate various T helper phenotypes. This chapter details methods for both predicting and validating potential transcription factor binding sites as well as their downstream epigenetic effect using a variety of in silico and in vitro methods in both primary Th9 cells and IL-9-producing T cell lines.

摘要

在过去十年中，已鉴定出多种效应T细胞亚群，它们在不同的分化条件下以及细胞因子表达具有广泛多样性的环境中存在。分泌白细胞介素-9（IL-9）的辅助性T细胞9（Th9）是该家族的最新成员。包括Th9细胞在内的辅助性T细胞分化似乎是一种表观遗传现象，需要多种转录因子协同作用来重塑染色质景观并产生各种辅助性T细胞表型。本章详细介绍了使用多种计算机模拟和体外方法，在原代Th9细胞和产生IL-9的T细胞系中预测和验证潜在转录因子结合位点及其下游表观遗传效应的方法。