Tran Ngoc Tam L, Huang Chun-Hsi
Department of Computer Science and Engineering, University of Connecticut , Storrs, Connecticut.
J Comput Biol. 2017 Sep;24(9):895-905. doi: 10.1089/cmb.2017.0005. Epub 2017 Jun 20.
Finding binding site motifs plays an important role in bioinformatics as it reveals the transcription factors that control the gene expression. The development for motif finders has flourished in the past years with many tools have been introduced to the research community. Although these tools possess exceptional features for detecting motifs, they report different results for an identical data set. Hence, using multiple tools is recommended because motifs reported by several tools are likely biologically significant. However, the results from multiple tools need to be compared for obtaining common significant motifs. MOTIFSIM web tool and command-line tool were developed for this purpose. In this work, we present several technical improvements as well as additional features to further support the motif analysis in our new release MOTIFSIM 2.1.
寻找结合位点基序在生物信息学中起着重要作用，因为它揭示了控制基因表达的转录因子。在过去几年中，基序发现工具蓬勃发展，许多工具被引入到研究领域。尽管这些工具在检测基序方面具有出色的功能，但对于相同的数据集，它们报告的结果却不同。因此，建议使用多种工具，因为多个工具报告的基序可能具有生物学意义。然而，需要对多个工具的结果进行比较，以获得共同的显著基序。为此开发了MOTIFSIM网络工具和命令行工具。在这项工作中，我们在新版本的MOTIFSIM 2.1中提出了一些技术改进以及额外的功能，以进一步支持基序分析。
