Synthetic Biology Knowledge System

The Synthetic Biology Knowledge System
(SBKS) is an instance of
the SynBioHub repository that includes text and data information that
has been mined from papers published in ACS Synthetic Biology. This
paper describes the SBKS curation framework that is being developed
to construct the knowledge stored in this repository. The text mining
pipeline performs automatic annotation of the articles using natural
language processing techniques to identify salient content such as
key terms, relationships between terms, and main topics. The data
mining pipeline performs automatic annotation of the sequences extracted
from the supplemental documents with the genetic parts used in them.
Together these two pipelines link genetic parts to papers describing
the context in which they are used. Ultimately, SBKS will reduce the
time necessary for synthetic biologists to find the information necessary
to complete their designs.