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Applied Math Seminar — Mario Banuelos (Cal State University, Fresno)

October 25 @ 4:15 pm - 5:15 pm

Title: A Recommendation Systems Approach for Detecting Epistasis

Abstract:

There are a variety of methods used to understand and interpret an organism’s phenotype, the physical expression of one or more genes. Epistasis, the phenomenon of one mutation affecting the resulting quantitative or qualitative phenotype, is used to assess gene variation in an attempt to find a combination of single nucleotide polymorphisms (SNPs) that contribute to a certain phenotype. Since one SNP rarely completely describes an organism’s phenotype, detecting these groups, or coalitions, of mutations without relying on an exponential number of numbers is one of the main challenges in this field. To alleviate these computational bottlenecks, we propose a neighborhood-based collaborative filtering approach by viewing this data with a recommender system formulation. As such, we are able to detect statistically significant higher order SNP interaction phenotypes related to muscle mice genomic variants.

Details

Date:
October 25
Time:
4:15 pm - 5:15 pm
Event Category:

Venue

Emmy Noether Room, Estella 1021, Pomona College, as well as on Zoom
610 N. College Ave.
Claremont, CA 91711 United States
+ Google Map

Details

Date:
October 25
Time:
4:15 pm - 5:15 pm
Event Category:

Venue

Emmy Noether Room, Estella 1021, Pomona College, as well as on Zoom
610 N. College Ave.
Claremont, CA 91711 United States
+ Google Map