Workshop on

Advanced Knowledge Technologies for Science
in a FAIR World (AKTS)

Co-located with the IEEE eScience Conference

September 24, 2019

San Diego, CA

Workshop Description

A new wave of knowledge technologies is sparking innovation in eScience, including the emergence of large knowledge graphs created from text extraction and crowdsourcing, the rise of Wikidata as a nexus for core entities and resources in science, the proposed open knowledge networks of scientific content that include provenance and natural interfaces, and the advent of web-scale semantic dataset search using standard schemas. Given that semantics and ontologies have enabled many scientific advances, these new knowledge technologies offer exciting possibilities that will be discussed at this workshop.

There is also renewed interest in semantics and metadata to support the FAIR principles (findability, accessibility, interoperability, and reusability). Although most of the work has focused on FAIR data, there are many other scientific resources that need to be considered and appropriate metadata developed to support FAIR principles. This includes software, workflows, sensors and instruments, and other scientific research products. Moreover, FAIR principles would be better supported with interlinked scientific resources that connect data, software, people, results, papers, and all other research products as a network of interrelated entities.

This workshop will offer a forum to exchange ideas about advanced knowledge technologies for eScience. Topics of interest include:

In addition to traditional workshop submissions that focus on reporting novel research, we encourage the submission of vision papers that reimagine science through the use of emerging knowledge technologies, discuss challenges in adoption of these technologies, or put forward novel ideas for reconsidering FAIR principles in light of new knowledge approaches.

The workshop will include two 1-hr sessions with presentations of research papers, two 1-hr panels, a 1-hr session for vision papers, and a 1-hr session for an invited talk.

Workshop Schedule *Updated*

8:30-9:00Welcome and workshop overview (Yolanda Gil)
9:00-10:00 Research paper presentations (I)

Describing datasets in Wikidata
Denny Vrandecic

WDPlus: Leveraging Wikidata to Link and Extend Tabular Data
Daniel Garijo and Pedro Szekely

Wikidata as a Community Curation Platform for Ontology Development
Gregory S. Stupp, Andra Waagmeester, Sebastian Burgstaller-Muehlbacher, Núria Queralt-Rosinach, Lynn M. Schriml and Andrew I. Su

10:30-11:40 Research paper presentations (II)

A FAIR Resource Information Network
Jeffrey S. Grethe, Ko-Wei Lin, Xiaohui “Vicky” Guo, James Go, I. Burak Ozyurt, Anita Bandrowski, Maryann E. Martone

Making Data FAIR Requires More Than Just Principles: We Need Knowledge Technologies
Mark A. Musen

Creating a FAIR Data Catalog to Support Scientific Modeling
Basel Shbita, Binh Vu, Dan Feldman, Minh Pham, Arunkumar Rajendran, Craig Knoblock, Jay Pujara, and Yao-Yi Chiang

Bioschemas: exploiting for FAIRer Life Sciences resources
Carole Goble

1:00-2:00 Invited Talk
Natasha Noy
2:00-2:40 Research paper presentations (III)

Increasing the findability of datasets annotations
Krzysztof J. Gorgolewski

Challenges in Software Usability: Towards Computational Knowledge Networks
Daniel Garijo

3:00-4:00 Research paper presentations (IV)

Iterative Document Retrieval via Deep Learning Approaches for Biomedical Question Answering
Ibrahim Burak Ozyurt and Jeffery S. Grethe

Incorporating New Concepts into the Scientific Variables Ontology
Maria Stoica and Scott D. Peckham

Ontology-Powered Automatic Labeling of Earth Science Articles
Jia Zhang, Ming shuai Zhang, Rahul Ramachandran, Derek Koehl, Jeffrey J. Miller, Andrea Word and Tsengdar J. Lee

4:00-4:45 Panel and discussion
Mark Musen, Natasha Noy, Denny Vrandecic, Pedro Szekely
4:45-5:00Summary and wrap up (Andrew Su)

Organizing Committee

Program committee


We accept submissions in the following formats

Submissions can be as short as a 1-page abstract and should be at most 6 pages, using the IEEE eScience conference format. Submissions should be sent by email to


July 20Submissions due
July 25Notifications sent to authors
August 31Final electronic version of papers due
September 24Workshop held at eScience 2019

Accepted Papers