Welcome!
RegenBase is a research project that applies informatics tools and methods to organize and interrogate experimental data generated by spinal cord injury (SCI) research, with the ultimate goal of translating SCI experimental findings in model organisms into human therapies.
We aim to improve the replicability of SCI research findings through a minimum information standard for describing SCI experiments and their results, and an ontology to formally describe SCI concepts and the relationships between them.
We use ontologies and semantic web tools to structure and analyze SCI experimental data.
Key Publications:
RegenBase: a knowledge base of spinal cord injury biology for translational research.
Callahan A1, Abeyruwan SW2, Al-Ali H3, Sakurai K3, Ferguson AR4, Popovich PG5, Shah NH1, Visser U2, Bixby JL6, Lemmon VP7.
Database (Oxford). 2016 Apr 7;2016. pii: baw040. doi: 10.1093/database/baw040. Print 2016.
PMID: 27055827
Minimum information about a spinal cord injury experiment: a proposed reporting standard for spinal cord injury experiments.
Lemmon VP, Ferguson AR, Popovich PG, Xu XM, Snow DM, Igarashi M, Beattie CE, Bixby JL; MIASCI Consortium.
J Neurotrauma. 2014 Aug 1;31(15):1354-61. doi: 10.1089/neu.2014.3400. Epub 2014 Jul 11.
PMID: 24870067
We aim to improve the replicability of SCI research findings through a minimum information standard for describing SCI experiments and their results, and an ontology to formally describe SCI concepts and the relationships between them.
We use ontologies and semantic web tools to structure and analyze SCI experimental data.
Key Publications:
RegenBase: a knowledge base of spinal cord injury biology for translational research.
Callahan A1, Abeyruwan SW2, Al-Ali H3, Sakurai K3, Ferguson AR4, Popovich PG5, Shah NH1, Visser U2, Bixby JL6, Lemmon VP7.
Database (Oxford). 2016 Apr 7;2016. pii: baw040. doi: 10.1093/database/baw040. Print 2016.
PMID: 27055827
Minimum information about a spinal cord injury experiment: a proposed reporting standard for spinal cord injury experiments.
Lemmon VP, Ferguson AR, Popovich PG, Xu XM, Snow DM, Igarashi M, Beattie CE, Bixby JL; MIASCI Consortium.
J Neurotrauma. 2014 Aug 1;31(15):1354-61. doi: 10.1089/neu.2014.3400. Epub 2014 Jul 11.
PMID: 24870067