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 and Hadoop/MapReduce 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 & other human diseases, and developmental plant biology, I was granted an NSF CAREER award to research new approaches for analyzing single molecule sequencing, especially for genome and transcriptome analysis of crop species. Another recent thrust has been to develop algorithms for single cell analysis, especially to use copy number variations within individual tumor cells to examine how cancer progresses. Altogether, we intend to develop powerful new methods for analyzing large collections of genomes to address questions of disease, development, and evolution.

                  Recent News
                  » Benchmarking challenging small variants with linked and long reads
                  July 27, 2023
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                  July 8, 2023
                  » Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato
                  June 17, 2023
                  » A robust benchmark for detection of germline large deletions and insertions
                  June 15, 2023
                  » Congratulations to Dr. Nathan Roach for defending his Ph.D!
                  June 12, 2023
                  (past news)

                  Upcoming Events

                  ~~ 2023 ~~

                  » HiTSeq
                  Montreal, Canada. July 13-14, 2023
                  » German Conference on Bioinformatics (GCB)
                  Frankfurt, Germany. Sept 14-17, 2023
                  » American Society of Human Genetics
                  San Diego, CA. Oct 27-31, 2023
                  » Biological Data Science
                  CSHL, NY. November 4-7 2023
                  ~~ 2021 ~~

                  » Plant and Animal Genomes Conference (PAG)
                  San Diego, CA. Jan 9 - 13, 2021
                  » Advances in Genome Biology and Technology (AGBT)
                  Feb, 2021
                  » Biology of Genomes
                  CSHL, NY. May, 2021
                  (presentation archive)


                  Michael Schatz

                  Bloomberg Distinguished
                  Associate 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

                  SOM office:
                  Johns Hopkins Medicine
                  Department of Oncology
                  Welch Library 103
                  1900 E. Monument Street
                  Baltimore, MD 21205

                  Adjunct Associate 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: p站免费加速器