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UID:d454997b-4825-40d9-88ab-e39f73002698@nexttoyou
DTSTAMP:20261106T173351Z
DTSTART:20261113T180000Z
DTEND:20261113T190000Z
SUMMARY:CS&STA & IACR AI/ML Seminar: Deep statistical and contrastive mode
 lling of nanopore sequencing translocation times reveals latent non-B DNA
  structures
LOCATION:Tyler Hall 106\, 9 Greenhouse Rd\, University of Rhode Island\, K
 ingston\, RI 02881\, USA
DESCRIPTION:Speaker: Derek Aguiar (Associate Professor in the School of Co
 mputing at the University of Connecticut)\nDate/Time/Location: Nov 13\, 1
 pm\, Tyler Hall RM. 106.\nTitle: Deep statistical and contrastive modelli
 ng of nanopore sequencing translocation times reveals latent non-B DNA st
 ructures\n\nAbstract: Non-canonical (or non-B) DNA are genomic regions wh
 ose three-dimensional conformation deviates from the canonical double hel
 ix. Non-B DNA plays an important role in cellular processes and is associ
 ated with genomic instability\, gene regulation\, and oncogenesis. Experi
 mental methods are low-throughput and detect only a limited set of non-B 
 structures\, while computational methods typically rely on sequence motif
 s that indicate the potential to form non-B DNA but do not establish that
  a structure is present. I will present our group's work on predicting no
 n-B DNA structure from Oxford Nanopore sequencing by modeling the time re
 quired for DNA to translocate through a nanopore. We first formulated non
 -B structure prediction as a novelty-detection problem and developed a de
 ep statistical model combining representation learning with goodness-of-f
 it testing. In subsequent work\, we addressed sensitivity to noisy motif-
 based labels using noise-resilient contrastive learning. Both approaches 
 use large-scale hypothesis testing with false discovery rate control to i
 dentify significant deviations from canonical B-DNA. Across simulated and
  whole-genome nanopore sequencing data\, our results demonstra\n\nhttp://
 next-to-u.app/events/d454997b-4825-40d9-88ab-e39f73002698
URL:http://next-to-u.app/events/d454997b-4825-40d9-88ab-e39f73002698
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