Cornell University

This is a past event. Its details are archived for historical purposes.

The contact information may no longer be valid.

Please visit our current events listings to look for similar events by title, location, or venue.

Biological Statistics & Computational Biology Seminar

Wednesday, August 23, 2017 at 1:45pm to 2:45pm

Weill Hall, 226

"Assembling the Transcriptome: Computational Challenges and Genetic Discoveries"

Steven Salzberg
Professor of Biomedical Engineering, Computer Science, and Biostatistics
Director, Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine
Johns Hopkins University School of Medicine

 

Next-generation sequencing technology allows us to peer inside the cell in exquisite detail, revealing new aspects of biology, evolution, and disease that would have been impossible to discover just a few years ago.  The enormous volumes of data produced by NGS experiments present many computational challenges, particularly when analyzing data from RNA sequencing experiments.  In recent years, members of my lab have developed several widely-used systems this problem, including the Bowtie, TopHat and Cufflinks programs for alignment and assembly of transcipts from RNA-seq data. In this talk, I will discuss two new systems and the algorithms underlying them: (1) the HISAT system for spliced aligment of NGS reads, a successor to TopHat; and (2) the StringTie program for assembly and quantitation of RNA-seq data, a successor to Cufflinks. I will then describe how we used these systems to analyze nearly 10,000 human RNA-seq experiments and create a comprehensive new human gene catalog, containing thousands of novel genes and gene variants.

This talk describes joint work with Mihaela Pertea, Ph.D. and Daehwan Kim, Ph.D.

Subscribe
Google Calendar iCal Outlook
Event Type

Seminar

Departments

Dept. of Biological Statistics and Computational Biology, CALS

Tags

CALScomm

Website

https://bscb.cornell.edu/news-events/...

Contact E-Mail

skp5@cornell.edu

Contact Name

Sue Bishop

Contact Phone

607-255-5488

Speaker

Steven Salzberg

Speaker Affiliation

Johns Hopkins School of Medicine

Recent Activity