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KOFFI and Anabel 2.0-a new binding kinetics database and its integration in an open-source binding analysis software.

ABSTRACT: The kinetics of featured interactions (KOFFI) database is a novel tool and resource for binding kinetics data from biomolecular interactions. While binding kinetics data are abundant in literature, finding valuable information is a laborious task. We used text extraction methods to store binding rates (association, dissociation) as well as corresponding meta-information (e.g. methods, devices) in a novel database. To date, over 270 articles were manually curated and binding data on over 1705 interactions was collected and stored in the (KOFFI) database. Moreover, the KOFFI database application programming interface was implemented in Anabel (open-source software for the analysis of binding interactions), enabling users to directly compare their own binding data analyses with related experiments described in the database.

SUBMITTER: Norval LW 

PROVIDER: S-EPMC6790968 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature

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KOFFI and Anabel 2.0-a new binding kinetics database and its integration in an open-source binding analysis software.

Norval Leo William LW   Krämer Stefan Daniel SD   Gao Mingjie M   Herz Tobias T   Li Jianyu J   Rath Christin C   Wöhrle Johannes J   Günther Stefan S   Roth Günter G  

Database : the journal of biological databases and curation 20190101

The kinetics of featured interactions (KOFFI) database is a novel tool and resource for binding kinetics data from biomolecular interactions. While binding kinetics data are abundant in literature, finding valuable information is a laborious task. We used text extraction methods to store binding rates (association, dissociation) as well as corresponding meta-information (e.g. methods, devices) in a novel database. To date, over 270 articles were manually curated and binding data on over 1705 int  ...[more]

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