LifeWatch ERIC Metadata Catalogue
Literature Mining virtual Lab
Biodiversity literature and data constitute a vast public resource open to mining and knowledge extraction.
Associating organisms to key features of their life, for example the environment in which they live, the way feed, their breeding habits, is cornerstone in explaining biodiversity patterns and informing ecological decisions.
The Literature Mining virtual Lab (LM-vLab) aims at the automatic extraction of species - traits associations from the literature.
The Literature Mining vLab is a collection of: applications (EXTRACT annotation tool, ENVIRONMENTS and SPECIES/ORGANISMS taggers) and analysis datasets ("ENVIRONMENTS and EOL: identification of Environment Ontology terms in text and the annotation of the Encyclopedia of Life"
Simple
- OnLine resource
- Link to the VRE ( WWW:LINK-1.0-http--link )
- OnLine resource
- Info page ( WWW:LINK-1.0-http--link )
- Individual Name
- Evangelos Pafilis
- Address
- IMBBC, LifeWatch Greece, HCMR
- pafilis[at]hcmr.gr
- Service Name
- Semantic annotation
- Service Description
- The tools can be used for semantic annotation (e.g. tagging of organism names, and environment types mentioned in a piece of text).
- Publications about this VRE
- Pafilis, E., Frankild, S. P., Fanini, L., Faulwetter, S., Pavloudi, C., et al. (2013). The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text. PLoS ONE 8(6): e65390
- Publications about this VRE
- Pafilis, E., Buttigieg, P. L., Ferrell, B., et al. (2016). EXTRACT: interactive extraction of environment metadata and term suggestion for metagenomic sample annotation. Database, baw005
- Publications about this VRE
- Pafilis, E., Frankild, S. P., Schnetzer, J., et al (2015). ENVIRONMENTS and EOL: identification of Environment Ontology terms in text and the annotation of the Encyclopedia of Life. Bioinformatics (btv045)
