High-throughput systematic characterization of regulatory element function

调控元件功能的高通量系统表征

• 批准号: 10238366
• 负责人: MICHAEL C BASSIK
• 金额: $ 103.26万
• 依托单位: STANFORD UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-01 至 2022-01-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10238366
• 关键词: Administrative Supplement; CRISPR screen; Cell Line; Chromatin Structure; Collection; Coupled; Data; Elements; Gene Expression; Generations; Genes; Genomics; Maps; Methods; Regulatory Element; Resolution; Technology; Testing; Tissues; Validation; genome-wide; large datasets; transcription factor

Project Summary This application is an administrative supplement request for 5UM1HG009436. The ENCODE project has produced high-resolution, high-quality maps of components of the `regulome' in a set of tissues and cell lines, identifying a collection of putative regulatory elements. Our proposal aims to generate and release data that test the functional relevance of these putative elements with high-throughput, pooled CRISPR screens, as well as a number of other methods that are aimed to understand the relationship between transcription factor levels, global accessibility at regulatory elements, an the effects on gene expression.

项目摘要 此申请是5UM1HG009436的管理补充请求。编码项目具有 在一组组织和细胞系中产生了“调节组”成分的高分辨率，高质量的图， 确定一系列推定的监管要素。我们的建议旨在生成和发布数据 还测试这些推定元素的功能相关性，还可以使用高通量，合并的CRISPR屏幕 作为旨在了解转录因子之间关系的许多其他方法 水平，调节元素的全球可访问性，对基因表达的影响。

项目成果

A genome-wide atlas of co-essential modules assigns function to uncharacterized genes.

• DOI: 10.1038/s41588-021-00840-z
• 发表时间: 2021-05
• 期刊: Nature genetics
• 影响因子: 30.8
• 作者: Wainberg M;Kamber RA;Balsubramani A;Meyers RM;Sinnott-Armstrong N;Hornburg D;Jiang L;Chan J;Jian R;Gu M;Shcherbina A;Dubreuil MM;Spees K;Meuleman W;Snyder MP;Bassik MC;Kundaje A
• 通讯作者: Kundaje A

Single-Molecule Multikilobase-Scale Profiling of Chromatin Accessibility Using m6A-SMAC-Seq and m6A-CpG-GpC-SMAC-Seq.

• DOI: 10.1007/978-1-0716-2140-0_15
• 发表时间: 2022
• 期刊: Methods in molecular biology (Clifton, N.J.)

Genome-Wide Mapping of Active Regulatory Elements Using ATAC-seq.

使用 ATAC-seq 进行活性调控元件的全基因组图谱。

• DOI: 10.1007/978-1-0716-2899-7_1
• 发表时间: 2023
• 期刊: Methods in molecular biology (Clifton, N.J.)
• 作者: Marinov,GeorgiK;Shipony,Zohar;Kundaje,Anshul;Greenleaf,WilliamJ
• 通讯作者: Greenleaf,WilliamJ

Selective silencing of euchromatic L1s revealed by genome-wide screens for L1 regulators.

• DOI: 10.1038/nature25179
• 发表时间: 2018-01-11
• 期刊: Nature
• 影响因子: 64.8
• 作者: Liu N;Lee CH;Swigut T;Grow E;Gu B;Bassik MC;Wysocka J
• 通讯作者: Wysocka J