Sergey Koren, PhD

Staff Scientist

sergey.korennih.gov

Sergey received his PhD in computer science in 2012 under the supervision of Mihai Pop at the University of Maryland. He joined the National Bioforensics Analysis Center in 2011 and was appointed as an associate principal investigator in 2014. During this time, he pioneered the use of single-molecule sequencing for the reconstruction of complete genomes. In 2015, he joined the National Human Genome Research Institute as a founding member of the Genome Informatics Section. His research focuses on the efficient analysis of large-scale genomic datasets and new methods for metagenomic analysis and assembly of high-noise single-molecule sequencing data.

Projects

MetaMaps

Long-read metagenomic analysis

SALSA

A tool to scaffold long read assemblies with Hi-C data

MashMap

A fast and approximate long read mapper

Canu

A single molecule sequence assembler for genomes large and small
News posts

Human genome assemblies with nanopore, an update

May 23, 2018

Assembling the Cliveome

April 28, 2017

Assembly of a human genome from nanopore sequencing data

January 8, 2017
Publications
Highly-accurate long-read sequencing improves variant detection and assembly of a human genome
bioRxiv, January 23, 2019
Wenger AM … Phillippy AMKoren S … Hunkapiller MW
A chromosome-scale assembly of the major African malaria vector Anopheles funestus
bioRxiv, December 10, 2018
Ghurye J, Koren S, Small ST, Redmond S, Howell P, Phillippy AM, Besansky NJ
Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation
bioRxiv, December 9, 2018
Bickhart D, Watson M, Koren S, Panke-Buisse K, Cersosimo LM, Press MO, Van Tassell CP, Van Kessel JAS, Haley BJ, Kim SW, Heiner C, Suen G, Bakshy K, Liachko I, Sullivan ST, Ghurye J, Pop M, Weimer PJ, Phillippy AM, Smith TPL
Improved reference genome of Aedes aegypti informs arbovirus vector control
Nature, November 14, 2018
Matthews BJ … Koren SPhillippy AM, Vosshall LB