Clemson University

School of Computing Seminar with Justin Sybrandt, Clemson University SoC

Moliere: Automatic Biomedical Hypothesis Generation

Abstract:

Hypothesis generation is becoming a crucial time-saving technique which allows biomedical researchers to quickly discover implicit connections between important concepts. Typically, these systems operate on domain-specific fractions of public medical data. MOLIERE, in contrast, utilizes information from over 27 million documents. At the heart of our approach lies a multi-modal and multi-relational network of biomedical objects extracted from several heterogeneous datasets from the National Center for Biotechnology Information (NCBI). These objects include but are not limited to scientific papers, keywords, genes, proteins, diseases, and diagnoses. Using this network we quantify the potential of future connections between entities. To do so, we propose a range of analytic measures, and perform a large-scale validation to ensure their validity. Furthermore, we apply this predictive capacity to identify gene associations related to HIV-associated dementia. These predicted, never-before studied, relationships are verified in wet lab experiments.

Bio:

Justin is in the 4'th year of his PhD, wherein he has studied text and graph mining. He is a fellow of the Clemson NRT program, and during his studies has interned at Los Alamos National Lab, Google, and Facebook. Moliere, the biomedical hypothesis generation system, is his primary research focus, which has recently grown to include a re-release, PyMoliere, as well as current work in natural language generation. Justin has accepted a position at Google, starting Spring of 2020.

Advisor: Dr. Ilya Safro

Papers:

Moliere: An Automatic Biomedical Hypothesis Generation System (KDD'17)

Large-scale validation of hypothesis generation systems via candidate ranking (BigData'18)

Are Abstracts Enough for Hypothesis Generation? (BigData'18)

 
 
 
 

Friday, November 22 at 2:30pm to 3:30pm

McAdams Hall, 114
821 McMillan Rd., Clemson, SC 29634, USA

Event Type

Lectures / Seminars / Speakers

Departments

College of Engineering, Computing and Applied Sciences, School of Computing, Research Seminars

Target Audience

Students, Faculty

Website

https://computing.clemson.edu/socsemi...

Contact Name:

Dida Weeks

Contact Phone:

8646565555

Contact Email:

didaw@clemson.edu

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