使用Segway对234种人类ENCODE4细胞类型的整合染色质状态进行注释

IF 5.5 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Genome research Pub Date : 2025-10-06 DOI:10.1101/gr.280633.125

Marjan Farahbod, Aboud Diab, Paul Sud, Meenakshi S. Kagda, Ian Whaling, Mehdi Foroozandeh, Ishan Goel, Habib Daneshpajouh, Benjamin Hitz, J. Michael Cherry, Maxwell W. Libbrecht

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引用次数: 0

摘要

ENCODE联盟的第四阶段，也是最后阶段，对数百种人体组织的表观遗传活动进行了新的分析。由分割和基因组注释（SAGA）方法（如Segway）创建的染色质状态注释已成为此类数据集的主要综合摘要。在这里，我们提出了ENCODE4 Segway注释目录，这是一组从1,794个基因组学实验中推断出的234个人类生物样本的样本特异性全基因组染色质状态注释。该目录确定基因组元件，准确捕获细胞类型特异性调节模式，并促进发现与表型和疾病有关的元件。

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Integrative chromatin state annotation of 234 human ENCODE4 cell types using Segway

The fourth and final phase of the ENCODE consortium has newly profiled epigenetic activity in hundreds of human tissues. Chromatin state annotations created by segmentation and genome annotation (SAGA) methods such as Segway have emerged as the predominant integrative summary of such data sets. Here, we present the ENCODE4 Catalog of Segway Annotations, a set of sample-specific genome-wide chromatin state annotations of 234 human biosamples inferred from 1,794 genomics experiments. This catalog identifies genomic elements, accurately captures cell type-specific regulatory patterns, and facilitates discovery of elements involved in phenotype and disease.

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来源期刊

Genome research 生物-生化与分子生物学

CiteScore

12.40

自引率

1.40%

发文量

140

审稿时长

6 months

期刊介绍： Launched in 1995, Genome Research is an international, continuously published, peer-reviewed journal that focuses on research that provides novel insights into the genome biology of all organisms, including advances in genomic medicine. Among the topics considered by the journal are genome structure and function, comparative genomics, molecular evolution, genome-scale quantitative and population genetics, proteomics, epigenomics, and systems biology. The journal also features exciting gene discoveries and reports of cutting-edge computational biology and high-throughput methodologies. New data in these areas are published as research papers, or methods and resource reports that provide novel information on technologies or tools that will be of interest to a broad readership. Complete data sets are presented electronically on the journal''s web site where appropriate. The journal also provides Reviews, Perspectives, and Insight/Outlook articles, which present commentary on the latest advances published both here and elsewhere, placing such progress in its broader biological context.