BMI Grand Rounds Guest Speaker : Dan Levy - Extending short-read sequencing

Date of Event

Department of Biomedical Informatics

Guest Speaker: Dan Levy, PhD; Associate Professor, Simons Center for Quantitive Biology, Cold Spring Harbor Laboratory

Title: Extending short-read sequencing

When: Wednesday, November 14, 2018

Time: 3:00 – 4:00PM


While the Illumina sequencing platform is useful for many applications, the limits of read length and error rate make some applications unsuitable. These include important problems like long-range genomic phasing, assembly of complex genomic regions and measuring low frequency allelic variants. An area of interest for our group has been extending the capabilities of the short-read platform to handle these difficult cases. Our approach involves co-designing protocols and informatics, using the Illumina machine as a channel of communication. This integrated approach resulted in a set of new sequencing technologies: for low-cost copy number (SMASH), for synthetic long-read assembly (muSeq), for whole genome phasing (HaHa) and for quantitative sensitive detection (MASQ).

Dr. Levy studied to be a mathematician and on the way discovered a personal interest in biology. It was his fortune that this happened at a time when the number of ways of applying mathematics in biology went from some small few to what now seems like limitless possibilities. At UC Berkeley, Dr. Levy's mathematics thesis studied the combinatorics of chromosome repair and phylogenetic reconstruction algorithms. In 2007, Dr. Levy joined the Wigler Lab at Cold Spring Harbor where he developed methods to identify de novo copy number mutations in children with autism from high-density microarray data. Dr. Levy is currently at CSHL, as an Associate Professor. I have focused my lab on developing tools that improve genomic analysis in three domains: human genetics and disease, cancer detection and tumor heterogeneity, and the structure of the genome.

**CME Credit Available**

The School Of Medicine, State University of New York at Stony Brook, is accredited by the Accreditation Council for Continuing Medical Education to provide continuing medical education for physicians.

The School of Medicine, State University of New York at Stony Brook designates this live activity for a maximum of 1 AMA PRA Category 1 Credit(s) ™.   Physicians should only claim the credit commensurate with the extent of their participation in the activity. Disclosure Policy:  All those in control of CME content are expected to disclose any relevant financial relationship with the provider of commercial products or services discussed in the educational presentation or that have directly supported the CME activity through an educational grant to the sponsoring organization(s).   All commercial relationships that create a conflict with the planners, speakers, author’s control of content must be resolved before the educational activity occurs.

CME Reminder:

  • Everyone MUST register with the CME office by using this link: ALL attendees are tracked by the CME office
  • All CME credits are now being entered onto the online Stony Brook system.
  • You will be able to view and print your credits yourself whenever you need them.