Strategies for Network GWAS Evaluated Using Classroom Crowd Science

Samson H Fong; Daniel E Carlin; Kivilcim Ozturk; 2018 UCSD Network Biology Class; Trey Ideker

doi:10.1016/j.cels.2019.03.013

Strategies for Network GWAS Evaluated Using Classroom Crowd Science

Cell Syst. 2019 Apr 24;8(4):275-280. doi: 10.1016/j.cels.2019.03.013.

Authors

Samson H Fong¹, Daniel E Carlin², Kivilcim Ozturk³; 2018 UCSD Network Biology Class⁴; Trey Ideker⁵

Collaborators

2018 UCSD Network Biology Class:
Nadia Arang, Bokan Bao, Hunter Bennett, Xiaochun Cai, Kevin Chau, Bethany Fixsen, Edahi Gonzalez-Avalos, Alexander Hakansson, Vincent Hu, Arya Kaul, Irina Kufareva, Duong Nguyen, Elly Poretsky, Yue Qin, David Rideout, Isaac Shamie, Alex Sharp, Erica Silva, James Sorrentino, Anya Umlauf, Chao Zhang, Jessica Zhou

Affiliations

¹ Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA; Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA.
² Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA.
³ Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA; Program in Bioinformatics, University of California San Diego, La Jolla, CA 92093, USA.
⁴ Program in Bioinformatics, University of California San Diego, La Jolla, CA 92093, USA.
⁵ Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA; Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA; Program in Bioinformatics, University of California San Diego, La Jolla, CA 92093, USA. Electronic address: tideker@ucsd.edu.

Abstract

Biological networks can substantially boost power to identify disease genes in genome-wide association studies. To explore different network GWAS methods, we challenged students of a UC San Diego graduate level bioinformatics course, Network Biology and Biomedicine, to explore and improve such algorithms during a four-week-long classroom competition. Here, we report the many creative solutions and share our experiences in conducting classroom crowd science as both a research and pedagogical tool.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Computational Biology / education*
Crowdsourcing / methods*
Education, Graduate / methods
Genome-Wide Association Study / methods*
Humans

Abstract

Publication types

MeSH terms

Grants and funding