Mi Huaiyu, Schreiber Falk, Moodie Stuart, Czauderna Tobias, Demir Emek, Haw Robin, Luna Augustin, Le Novère Nicolas, Sorokin Anatoly, Villéger Alice
J Integr Bioinform. 2015 Sep 4;12(2):265. doi: 10.2390/biecoll-jib-2015-265.
The Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks. The goal of SBGN is to provide unambiguous pathway and network maps for readers with different scientific backgrounds as well as to support efficient and accurate exchange of biological knowledge between different research communities, industry, and other players in systems biology. Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels of detail. The SBGN Activity Flow language represents the influences of activities among various entities within a network. Unlike SBGN PD and ER that focus on the entities and their relationships with others, SBGN AF puts the emphasis on the functions (or activities) performed by the entities, and their effects to the functions of the same or other entities. The nodes (elements) describe the biological activities of the entities, such as protein kinase activity, binding activity or receptor activity, which can be easily mapped to Gene Ontology molecular function terms. The edges (connections) provide descriptions of relationships (or influences) between the activities, e.g., positive influence and negative influence. Among all three languages of SBGN, AF is the closest to signaling pathways in biological literature and textbooks, but its well-defined semantics offer a superior precision in expressing biological knowledge.
系统生物学图形符号（SBGN）是国际社会为生物途径和网络的标准化图形表示所做的努力。SBGN的目标是为具有不同科学背景的读者提供清晰明确的途径和网络图谱，并支持不同研究群体、行业以及系统生物学中的其他参与者之间高效、准确地交流生物知识。SBGN的三种语言，即过程描述（PD）、实体关系（ER）和活动流（AF），能够在不同详细程度上表示生物和生化系统的不同方面。SBGN活动流语言表示网络中各种实体之间活动的影响。与侧重于实体及其与其他实体关系的SBGN PD和ER不同，SBGN AF强调实体执行的功能（或活动）以及它们对相同或其他实体功能的影响。节点（元素）描述实体的生物活动，如蛋白激酶活性、结合活性或受体活性，这些可以很容易地映射到基因本体分子功能术语。边（连接）提供活动之间关系（或影响）的描述，例如正向影响和负向影响。在SBGN的所有三种语言中，AF最接近生物学文献和教科书中的信号通路，但其明确的语义在表达生物知识方面具有更高的精度。
