ProtocolDB: Storing scientific protocols with a domain ontology

Michel Kinsy, Zoé Lacroix, Christophe Legendre, Piotr Wlodarczyk, Nadia Yacoubi

Research output: Chapter in Book/Report/Conference proceedingConference contribution

13 Scopus citations


This paper addresses a systemic problem in science: although datasets collected through scientific protocols may be properly stored, the protocol itself is often only recorded on paper or stored electronically as the script developed to implement the protocol. Once the scientist who has implemented the protocol leaves the laboratory, this record may be lost. Collected datasets without a description of the process used to produce them become meaningless; furthermore, the experiment designed to produce the data is not reproducible. In this paper we present the ProtocolDB system that aims at assisting scientists in the process of (1) designing and implementing scientific protocols, (2) storing, querying, and transforming scientific protocols, and (3) reasoning about collected experimental data (data provenance).

Original languageEnglish (US)
Title of host publicationWeb Information Systems Engineering - WISE 2007 Workshops - WISE 2007 International Workshops, Proceedings
PublisherSpringer Verlag
Number of pages12
ISBN (Print)9783540770091
StatePublished - 2007
EventInternational Conference on Web Information Systems Engineering, WISE 2007 - Nancy, France
Duration: Dec 3 2007Dec 6 2007

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume4832 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349


ConferenceInternational Conference on Web Information Systems Engineering, WISE 2007

ASJC Scopus subject areas

  • Theoretical Computer Science
  • General Computer Science


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