Our main research interest is in understanding the structure and function of genomes, especially those of medical or agricultural importance. The core strength of our research is in developing novel algorithms and computational systems for large-scale biological sequence analysis, including leading algorithms for de novo genome assembly, variant detection, and related –omics assays. Using these advances we have contributed to the de novo genome assemblies of dozens of species; probed the sequence variations related to autism, cancer, and other human diseases; mapped the transcriptional and epigenetic profiles of tomatoes, corn, and other important plant species; and explored the role of microbes in different environments. In response to the deluge of biological sequence data we are now facing, we have also been at the forefront of distributed and parallel computing in genomics, and have pioneered the use of cloud computing as an enabling platform to address the big data challenges we are all facing.

Looking forward, we see ourselves at the intersection of biotechnology and algorithmics, developing systems for probing the structure and function of genomes using the best technologies possible. Our expertise spans from low level computer architecture, through sequencing, de novo assembly, variant identification, transcriptome & other -omics data and up to machine learning approaches to build predictive models of diseases and treatment response. In addition to ongoing projects in autism, cancer, and other human diseases, we also study agricultrual systems to better understand the underlying genotype to phenotype relations. Altogether, we intend to develop powerful new methods for analyzing large collections of genomes to address questions of disease, development, and evolution. Among other recognition, for this work I was granted an NSF CAREER award, a Sloan Foundation Fellowship, and was named a TIME100 receiptient in 2022.

Recent News
» Congratulations to Schatz lab alumn Hayan Lee for starting her lab at the Fox Chase Cancer Center
Sept 12, 2022
» Establishing Physalis as a new Solanaceae model system enables genetic reevaluation of the inflated calyx syndrome
July 30, 2022
» Diversifying the genomic data science research community
July 21, 2022
» Modbamtools: Analysis of single-molecule epigenetic data for long-range profiling, heterogeneity, and clustering
July 8, 2022
» Minos: variant adjudication and joint genotyping of cohorts of bacterial genomes
July 8, 2022
(past news)

Upcoming Events

~~ 2022 ~~

» American Society of Human Genetics
Oct 2022
» Biological Data Science
CSHL, NY. November 9-12 2022
~~ 2023 ~~

» Plant and Animal Genomes Conference (PAG)
San Diego, CA. Jan 2023
» Advances in Genome Biology and Technology (AGBT)
Hollywood Beach, FL. Feb 2023
» Advances in Genome Biology and Technology (AGBT) Ag
San Antonio, TX. March 2023
» Biology of Genomes
CSHL, NY. May, 2023
(presentation archive)

Michael Schatz

Bloomberg Distinguished
Professor of Computer Science
and Biology

CS office and Mailing address:
Johns Hopkins University
Department of Computer Science
3400 N Charles St
Malone Hall 323
Baltimore, MD 21218

Adjunct Professor of
Quantitative Biology

Cold Spring Harbor Laboratory
One Bungtown Road
Koch Building 1121
Cold Spring Harbor, NY 11724

Cell: (703) 966-1987
E-mail: mschatz <at> cs.jhu.edu
Twitter: @mike_schatz