Form Submission: Session, Poster, Demo Submission

Demo/Poster Number

Ross Island
55

Contact Information
First Name: 
Olga
Last Name: 
Giraldo
Session Information
Presentation Title: 
Using Semantics and NLP in Experimental Protocols
Description: 
In this poster we present SMART Protocols, a semantic and NLP-based infrastructure for processing experimental protocols. Our contri- bution is twofold; on the one hand, SMART Protocols delivers a semantic layer that represents the knowledge encoded in experimental protocols. On the other hand, it builds the groundwork for making use of such semantics within an NLP framework. We emphasize the semantic and NLP components, namely the SMART Protocols (SP) Ontology, the Sample Instrument Reagent Objective (SIRO) model and the text mining integrative architecture GATE. The SIRO model defines an extended layer of metadata for experimental pro- tocols; SIRO is also a Minimal Information (MI) model conceived in the same realm as the Patient Intervention Comparison Outcome (PICO) model that supports search, retrieval and classification purposes. By combining compre- hensive vocabularies with NLP rules and gazetteers, we identify meaningful parts of speech in experimental protocols. Moreover, in cases for which SIRO is not available, our NLP automatically extracts it; also, searching for queries such as: What bacteria have been used in protocols for persister cells isolation is possible.
Presenter Information
First Name: 
Alexander
Last Name: 
Garcia
Organization/Affiliation: 
UPM
Phone: 
354444444
Contributors
First Name: 
Olga
Last Name: 
Giraldo
Organization/Affiliation: 
UPM
Project Role: 
PI
First Name: 
alexander
Last Name: 
garcia
Organization/Affiliation: 
UPM
Project Role: 
supervisor
First Name: 
oscar
Last Name: 
corcho
Organization/Affiliation: 
UPM
Project Role: 
supervisor
First Name: 
jose
Last Name: 
Figueredo
Organization/Affiliation: 
usb
Project Role: 
Software engineer