一个关于 motif 发现网络工具的调查，用于检测 ChIP-Seq 数据中的结合位点 motif。
A survey of motif finding Web tools for detecting binding site motifs in ChIP-Seq data.
机构信息
Department of Computer Science and Engineering, University of Connecticut, 371 Fairfield Way, Unit 4155, Storrs, CT 06269, USA.
出版信息
Biol Direct. 2014 Feb 20;9:4. doi: 10.1186/1745-6150-9-4.
ChIP-Seq (chromatin immunoprecipitation sequencing) has provided the advantage for finding motifs as ChIP-Seq experiments narrow down the motif finding to binding site locations. Recent motif finding tools facilitate the motif detection by providing user-friendly Web interface. In this work, we reviewed nine motif finding Web tools that are capable for detecting binding site motifs in ChIP-Seq data. We showed each motif finding Web tool has its own advantages for detecting motifs that other tools may not discover. We recommended the users to use multiple motif finding Web tools that implement different algorithms for obtaining significant motifs, overlapping resemble motifs, and non-overlapping motifs. Finally, we provided our suggestions for future development of motif finding Web tool that better assists researchers for finding motifs in ChIP-Seq data.
ChIP-Seq（染色质免疫沉淀测序）为发现基序提供了优势，因为 ChIP-Seq 实验将基序发现缩小到结合位点位置。最近的基序发现工具通过提供用户友好的 Web 界面来方便基序检测。在这项工作中，我们回顾了 9 个能够在 ChIP-Seq 数据中检测结合位点基序的基序发现 Web 工具。我们表明，每个基序发现 Web 工具都有其自身的优势，用于检测其他工具可能无法发现的基序。我们建议用户使用多种基序发现 Web 工具，这些工具使用不同的算法来获得显著的基序、重叠相似的基序和非重叠的基序。最后，我们为基序发现 Web 工具的未来发展提供了建议，以便更好地帮助研究人员在 ChIP-Seq 数据中发现基序。
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