BpForms and BcForms: a toolkit for concretely describing non-canonical polymers and complexes to facilitate global biochemical networks
BpForms and BcForms: a toolkit for concretely describing non-canonical polymers and complexes to facilitate global biochemical networks
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DOI：
10.1186/s13059-020-02025-z
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发表时间：
2020-05-18
期刊：
影响因子：
12.3
通讯作者：
Karr, Jonathan R.
中科院分区：
文献类型：
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作者：
Lang, Paul F.;Chebaro, Yassmine;Karr, Jonathan R.
非规范残基、帽、交联和切口对DNA、RNA、蛋白质和复合物的许多功能都很重要。然而，我们并不完全理解这种非规范大分子网络如何产生行为。一个障碍是我们描述大分子的格式有限。为了克服这一障碍，我们开发了BpForms和BcForms，这是一个用于将大分子的一级结构表示为残基、帽、交联和缺口的组合的工具包。该工具包可以帮助组学研究人员进行质量控制和交换有关大分子的信息，帮助系统生物学家组装包含翻译后修饰等过程的细胞全局模型，并帮助生物工程师设计细胞。
Non-canonical residues, caps, crosslinks, and nicks are important to many functions of DNAs, RNAs, proteins, and complexes. However, we do not fully understand how networks of such non-canonical macromolecules generate behavior. One barrier is our limited formats for describing macromolecules. To overcome this barrier, we develop BpForms and BcForms, a toolkit for representing the primary structure of macromolecules as combinations of residues, caps, crosslinks, and nicks. The toolkit can help omics researchers perform quality control and exchange information about macromolecules, help systems biologists assemble global models of cells that encompass processes such as post-translational modification, and help bioengineers design cells.