BARTweb: a web server for transcriptional regulator association analysis.
BARTweb: a web server for transcriptional regulator association analysis.
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BARTweb：一个用于转录调控相关分析的网络服务器。
DOI：
10.1093/nargab/lqab022
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发表时间：
2021-06
影响因子：
4.6
通讯作者：
Zang C
中科院分区：
文献类型：
--
作者：
Ma W;Wang Z;Zhang Y;Magee NE;Feng Y;Shi R;Chen Y;Zang C
识别与基因组中顺式调控元件相关的活性转录调控因子（TR）来调控基因表达是基因调控研究的一项关键任务。来自大量公共 ChIP-seq 数据的 TR 结合谱可用于与 TR 识别的查询数据进行关联分析，作为 DNA 序列基序分析的替代方案。然而，大规模 ChIP-seq 数据集的整合一直是此类方法的主要挑战。在这里，我们推出了 BARTweb，这是一个交互式网络服务器，用于通过利用超过 13000 个人类和小鼠的公共 ChIP-seq 数据集来识别其基因组结合模式与输入基因组特征相关的 TR。使用更新的转录调节结合分析 (BART) 算法，BARTweb 可以识别调节基因集、具有与 ChIP-seq 图谱相关的结合图谱或在基因组区域集中富集的功能 TR，而无需细胞类型的先验信息。 BARTweb 是一个有用的网络服务器，用于执行基因调控的功能分析。 BARTweb 可在 http://bartweb.org 免费获取，源代码可在 https://github.com/zanglab/bart2 获取。
Identifying active transcriptional regulators (TRs) associating with cis-regulatory elements in the genome to regulate gene expression is a key task in gene regulation research. TR binding profiles from numerous public ChIP-seq data can be utilized for association analysis with query data for TR identification, as an alternative to DNA sequence motif analysis. However, integration of the massive ChIP-seq datasets has been a major challenge in such approaches. Here we present BARTweb, an interactive web server for identifying TRs whose genomic binding patterns associate with input genomic features, by leveraging over 13 000 public ChIP-seq datasets for human and mouse. Using an updated binding analysis for regulation of transcription (BART) algorithm, BARTweb can identify functional TRs that regulate a gene set, have a binding profile correlated with a ChIP-seq profile or are enriched in a genomic region set, without a priori information of the cell type. BARTweb can be a useful web server for performing functional analysis of gene regulation. BARTweb is freely available at http://bartweb.org and the source code is available at https://github.com/zanglab/bart2.