Adam Phillippy, PhD

Investigator

adam.phillippynih.gov

Adam began his career at The Institute for Genomic Research in 2001, followed by graduate studies at the University of Maryland starting in 2005. After receiving his PhD in 2010, he started a research group at the National Bioforensic Analysis Center, and later moved to the National Human Genome Research Institute in 2015 to form the Genome Informatics Section. He has made foundational contributions to bioinformatics, specifically in the areas of genome alignment, genome assembly, and microbial forensics. Most recently, he has pioneered the use of single-molecule and nanopore sequencing for the accurate reconstruction of complete genomes at low cost.

Projects

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

Mash

Fast genome and metagenome distance and containment estimation using MinHash
News posts

De novo assembly of haplotype-resolved genomes with trio binning

October 22, 2018

Human genome assemblies with nanopore, an update

May 23, 2018

We are hiring!

October 4, 2017

Mash Screen: what's in my sequencing run?

September 25, 2017
Publications
Leveraging evolutionary relationships to improve Anopheles genome assemblies
bioRxiv, October 4, 2018
Waterhouse RM, Aganezov S, Anselmetti Y, Lee J, Ruzzante L, Reijnders MJMF, Bèrard S, George P, Hahn MW, Howell PI, Kamali M, Koren S, Lawson D, Maslen G, Peery A, Phillippy AM, Sharakhova MV, Tannier E, Unger MF, Zhang SV, Alekseyev MA, Besansky NJ, Chauve C, Emrich SJ, Sharakhov IV
Variation in human chromosome 21 ribosomal RNA genes characterized by TAR cloning and long-read sequencing
Nucleic Acids Res, July 27, 2018
Kim JH, Dilthey AT, Nagaraja R, Lee HS, Koren S, Dudekula D, Wood III WH, Piao Y, Ogurtsov AY, Utani K, Noskov V, Shabalina SA, Schlessinger D, Phillippy AM, Larionov V
De novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole genome duplication
bioRxiv, July 20, 2018
Chen Z, Omori Y, Koren S, Shirokiya T, Kuroda T, Miyamoto A, Wada H, Fujiyama A, Toyoda A, Zhang S, Wolfsberg TG, Kawakami K, Phillippy AM, NISC, Mullikin JC, Burgess SM