相关实验视频

Updated: Jun 13, 2025

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq

Published on: October 5, 2018

使用染色体构造捕获和表观基因组数据使用STARE预测增强剂-基因相互作用

Dennis Hecker¹, Marcel H Schulz²

¹Institute for Computational Genomic Medicine and Institute of Cardiovascular Regeneration, Goethe University Frankfurt am Main, Frankfurt, Germany.

Methods in molecular biology (Clifton, N.J.)

|September 16, 2024

概括

STARE软件使用增强剂活性和染色质接触数据量化增强剂-基因相互作用. 这种工具可以预测增强剂的目标基因,并计算转录因子亲缘关系,帮助表观基因组研究.

科学领域:

表观基因组学是指表观基因组学.
计算生物学计算生物学
基因组学就是基因组学.

背景情况:

了解增强剂-基因关系在表观基因组学中至关重要.
现有的方法在跨越基因组距离时准确量化这些相互作用时面临挑战.

研究的目的:

推出STARE,一种用于量化增强剂-基因相互作用的新型软件工具.
通过增强剂活性和染色质接触数据,能够预测增强剂的基因.

主要方法:

实施通用的活动按接触 (gABC) 评分.
使用增强剂活性测量和染色质接触数据.
在单细胞人类心脏数据上的应用.

主要成果:

STARE成功量化了增强剂-基因相互作用的强度.
该软件预测任何基因组距离的增强剂的假定目标基因.
转录因子亲属性是在基因水平上计算的.

结论:

STARE提供了一种强大的方法来剖析增强剂基因调控网络.
该工具有助于与其他数据模式进行整合,以便进行全面分析.
STARE有助于构建转录因子亲和矩阵,以获得更深入的生物学见解.

关键词:

染色体接触数据染色体接触数据增强基因链接.基因调节基因调节监管地区是监管区域.转录因子转录因子

更多相关视频

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Published on: June 28, 2018

Identification of Enhancer-Promoter Contacts in Embryoid Bodies by Quantitative Chromosome Conformation Capture 4C

Identification of Enhancer-Promoter Contacts in Embryoid Bodies by Quantitative Chromosome Conformation Capture 4C

Published on: April 29, 2020

相关概念视频

Chromatin Immunoprecipitation- ChIP

Chromatin Immunoprecipitation- ChIP

Chromatin immunoprecipitation, or ChIP, is an antibody-based technique used to identify sites on DNA that bind to transcription factors of interest or histone proteins. It also helps determine the type of histone modifications such as acetylation, phosphorylation, or methylation.
Types of ChIP
ChIP can be divided into two types - X-ChIP and N-ChIP. X-ChIP involves in vivo cross-linking of histones and regulatory proteins to DNA, fragmenting the DNA by sonication, and isolating the protein-DNA...

Chromatin Position Affects Gene Expression

Chromatin Position Affects Gene Expression

Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area.
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the...