TY - JOUR
T1 - Supporting database annotations and beyond with the Evidence & Conclusion Ontology (ECO)
AU - Chibucos, Marcus C.
AU - Nadendla, Suvarna
AU - Munro, James B.
AU - Mitraka, Elvira
AU - Olley, Dustin
AU - Vasilevsky, Nicole A.
AU - Brush, Matthew H.
AU - Giglio, Michelle
N1 - Funding Information:
This work is supported by funding from the National Science Foundation Division of Biological Infrastructure under award number 1458400. The authors acknowledge the Ontology for Biomedical Investigations (OBI) Consortium and, in particular, Bjoern Peters for ongoing collaboration with ECO. We thank Christian J. Stoeckert, Jr. and Jie Zheng for co-organizing the ICBO 2016 workshop W08 titled "OBI-ECO Interactions and Evidence."
Publisher Copyright:
© 2016, CEUR-WS. All rights reserved.
PY - 2016
Y1 - 2016
N2 - The Evidence & Conclusion Ontology (ECO) is a community standard for summarizing evidence in scientific research in a controlled, structured way. Annotations at the world's most frequented biological databases (e.g. model organisms, UniProt, Gene Ontology) are supported using ECO terms. ECO describes evidence derived from experimental and computational methods, author statements curated from the literature, inferences drawn by curators, and other types of evidence. Here, we describe recent ECO developments and collaborations, most notably: (i) a new ECO website containing user documentation, up-to-date news, and visualization tools; (ii) improvements to the ontology structure; (iii) implementing logic via an ongoing collaboration with the Ontology for Biomedical Investigations (OBI); (iv) addition of numerous experimental evidence types; and (v) addition of new evidence classes describing computationally derived evidence. Due to its utility, popularity, and simplicity, ECO is now expanding into realms beyond the protein annotation community, for example the biodiversity and phenotype communities. As ECO continues to grow as a resource, we are seeking new users and new use cases, with the hope that ECO will continue to be a broadly used and easy-to-implement community standard for representing evidence in diverse biological applications. Feel free to visit two ECO-sponsored workshops at ICBO 2016 to learn more: 1. "An introduction to the Evidence and Conclusion Ontology and representing evidence in scientific research" and 2. "OBI-ECO Interactions & Evidence".
AB - The Evidence & Conclusion Ontology (ECO) is a community standard for summarizing evidence in scientific research in a controlled, structured way. Annotations at the world's most frequented biological databases (e.g. model organisms, UniProt, Gene Ontology) are supported using ECO terms. ECO describes evidence derived from experimental and computational methods, author statements curated from the literature, inferences drawn by curators, and other types of evidence. Here, we describe recent ECO developments and collaborations, most notably: (i) a new ECO website containing user documentation, up-to-date news, and visualization tools; (ii) improvements to the ontology structure; (iii) implementing logic via an ongoing collaboration with the Ontology for Biomedical Investigations (OBI); (iv) addition of numerous experimental evidence types; and (v) addition of new evidence classes describing computationally derived evidence. Due to its utility, popularity, and simplicity, ECO is now expanding into realms beyond the protein annotation community, for example the biodiversity and phenotype communities. As ECO continues to grow as a resource, we are seeking new users and new use cases, with the hope that ECO will continue to be a broadly used and easy-to-implement community standard for representing evidence in diverse biological applications. Feel free to visit two ECO-sponsored workshops at ICBO 2016 to learn more: 1. "An introduction to the Evidence and Conclusion Ontology and representing evidence in scientific research" and 2. "OBI-ECO Interactions & Evidence".
KW - Annotation
KW - Biodiversity
KW - Biomedical investigation
KW - Conclusion
KW - Confidence
KW - Curation
KW - Evidence
KW - Experimental evidence
KW - Inference
KW - Provenance
KW - Sequence similarity
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M3 - Conference article
AN - SCOPUS:85018738807
VL - 1747
JO - CEUR Workshop Proceedings
JF - CEUR Workshop Proceedings
SN - 1613-0073
T2 - 2016 Joint International Conference on Biological Ontology and BioCreative - Food, Nutrition, Health and Environment for the 9 Billion, ICBO-BioCreative 2016
Y2 - 1 August 2016 through 4 August 2016
ER -