Reed College

Biology Seminar: Dr. Suzanne Sindi, “Structural Variant Discovery: Integrating Multiple Lines of Evidence.”

This Friday's Biology Department Seminar speaker is:

Susanne Sindi, Ph.D.
University of California, Merced,

Structural Variant Discovery: Integrating Multiple Lines of Evidence.”

Friday, November 17, 2017
4:10 pm Seminar begins
Biology 19

Student Lunch: Students interested in joining Dr. Sindi for lunch should RSVP by emailing ASAP since spaces are limited. Then plan to meet in B-115 shortly before noon on Friday. Commons dining room vouchers will be distributed at that time.

Abstract: Structural variants (SVs) – such as deletions, insertions, copy-number gains and inversions – are rearrangements of a region of DNA relative to a reference. Until relatively recently, SVs were thought to be rare in genomes of healthy individuals, especially mammals. However, advances in high-throughput DNA sequencing, combined with the availability of high-quality reference genomes, has demonstrated SVs to be common even in healthy individuals. I will give an overview of computational methods for SV discovery and discuss two novel likelihood based approaches under development. The first employs a Hidden Markov Model (HMMs) for split-read alignment allowing for a likelihood model consisting of all three common signals for SV prediction in a single individual. The second addresses simultaneous prediction of SVs in populations including related individuals by framing SV prediction in populations as a constrained optimization problem.


Additional Biology Department seminars can be found on-line, including links to some speakers' home pages at:


Friday, November 17, 2017 at 4:10pm to 5:00pm

Biology, Biology 19
3203 Southeast Woodstock Boulevard, Portland, Oregon 97202-8199

Event Type



Faculty & Staff, Students, Alumni, General Public, Parents & Family, Prospective Students & Families




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