Process-Level Representation of Scientific Protocols with Interactive Annotation

Ronen Tamari, Fan Bai, Alan Ritter, Gabriel Stanovsky


Abstract
We develop Process Execution Graphs (PEG), a document-level representation of real-world wet lab biochemistry protocols, addressing challenges such as cross-sentence relations, long-range coreference, grounding, and implicit arguments. We manually annotate PEGs in a corpus of complex lab protocols with a novel interactive textual simulator that keeps track of entity traits and semantic constraints during annotation. We use this data to develop graph-prediction models, finding them to be good at entity identification and local relation extraction, while our corpus facilitates further exploration of challenging long-range relations.
Anthology ID:
2021.eacl-main.187
Volume:
Proceedings of the 16th Conference of the European Chapter of the Association for Computational Linguistics: Main Volume
Month:
April
Year:
2021
Address:
Online
Editors:
Paola Merlo, Jorg Tiedemann, Reut Tsarfaty
Venue:
EACL
SIG:
Publisher:
Association for Computational Linguistics
Note:
Pages:
2190–2202
Language:
URL:
https://aclanthology.org/2021.eacl-main.187
DOI:
10.18653/v1/2021.eacl-main.187
Bibkey:
Cite (ACL):
Ronen Tamari, Fan Bai, Alan Ritter, and Gabriel Stanovsky. 2021. Process-Level Representation of Scientific Protocols with Interactive Annotation. In Proceedings of the 16th Conference of the European Chapter of the Association for Computational Linguistics: Main Volume, pages 2190–2202, Online. Association for Computational Linguistics.
Cite (Informal):
Process-Level Representation of Scientific Protocols with Interactive Annotation (Tamari et al., EACL 2021)
Copy Citation:
PDF:
https://aclanthology.org/2021.eacl-main.187.pdf
Code
 bflashcp3f/textlabs-xwlp-code +  additional community code