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Steven Salzberg, Ph.D. Bloomberg Distinguished Professor of Biomedical Engineering, Computer Science, and Biostatistics |
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Aleksey Zimin, Ph.D. Research Scientist, Dept. of Biomedical Engineering |
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Daniela Puiu, M.S., Bioinformatics Engineer and Senior Software Engineer |
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Ales Varabyou, Ph.D., Postdoctoral Fellow (Primary advisor: Mihaela Pertea) |
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Harun Mustafa, Ph.D., Postdoctoral Fellow |
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Beril Erdogdu, Ph.D. student, Biomedical Engineering (co-advisor: Mihaela Pertea) |
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Yuchen (Peter) Ge, Ph.D. student, Biomedical Engineering |  |
Celine Hoh, Ph.D. student, Computer Science |
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Hayden (Hyun Joo) Ji, Ph.D. student, Computer Science |
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David Bass, Ph.D. student, Cell, Molecular, Developmental Biology, and Biophysics (CMDB) |
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Nikola Zadorozhny, Ph.D. student, Computer Science (co-advisor: Mihaela Pertea) |
Undergraduate lab members
Amanda (Haojun) Xu, research assistant, Fall 2023–Fall 2025
Edward Li, research assistant, Summer 2025–Fall 2025
Tomoya Furutani, research assistant, Summer 2025–Fall 2025
Lab Alumni (former Ph.D. students indicated by *)
 | *Kuan-Hao Chao, Ph.D. (2025) Senior Deep Learning Scientist, Illumina AI Lab |
 | Ilia Minkin, Ph.D. Postdoctoral Associate, Broad Institute of MIT and Harvard |
 | *Markus Sommer, Ph.D. (2023) Assistant Principal Investigator, National Biodefense Analysis and Countermeasures Center (NBACC) |
 | *Jennifer Lu, Ph.D. (2020) Staff Engineer, Dept. of Pathology, Johns Hopkins School of Medicine |
 | *Alaina Shumate, Ph.D. (2022) Staff Scientist at Dana-Farber Cancer Institute, Harvard Medical School |
 | Government scientist, Germany |
 | Martin Steinegger, Ph.D. Associate Professor, School of Biological Sciences, Seoul National University |
 | *Rachel Sherman, Ph.D. (2021) Bioinformatics Support Scientist, Illumina Inc. |
 | Florian Breitwieser, Ph.D. Senior Bioinformatics Software Engineer, SOPHiA Genetics. |
 | Remy Schwab, former M.S.E. student, now at Day Zero Diagnostics. |
 | *Daehwan Kim, Ph.D. (2013) Founder and Co-CEO of Omphalos Life Sciences. Former Assistant Professor at UT Southwestern Medical Center |
 | Ruibang Laurent Luo, Ph.D. Associate Professor, Dept. of Computer Science, The University of Hong Kong |
 | Geo Pertea, M.S., M.D. Data/Software Engineer, The Lieber Institute for Brain Development |
 | Art Delcher, Ph.D. Former Research Professor at Hopkins, retired as of July 1, 2016 |
 | Corina Antonescu Senior Software Engineer, Dept. of Genetic Medicine, JHU School of Medicine |
 | Valentin Antonescu Senior Software Engineer, OMIM (Online Mendelian Inheritance in Man), JHU School of Medicine |
 | *Derrick Wood, Ph.D. (2014) Senior Scientist, Output Biosciences |
 | Rachel Coston, former M.S.E. student, Software Engineer, Raytheon |
 | Stefan Canzar, Ph.D. Postdoctoral Fellow, 2012-2014. Associate Professor, Penn State University |
 | Stefan Pabinger, Ph.D. Visiting Postdoctoral Fellow, 2012-2013. Now at the Austrian Inst. of Technology. |
 | *Ben Langmead, Ph.D. (2012) Professor, Computer Science Department, Johns Hopkins University |
 | Tanja Magoc, Ph.D. Postdoctoral Fellow, 2010-2012. Staff scientist, University of Florida |
 | Liliana Florea, Ph.D. Associate Professor, McKusick-Nathans Institute of Genetic Medicine and Dept. of Computer Science, Johns Hopkins University |
 | *Mike Schatz, Ph.D. (2010) Bloomberg Distinguished Professor of Computer Science and Biology, Johns Hopkins University |
 | *Adam Phillippy, Ph.D. (2010) Senior Investigator, National Human Genome Research Institute, NIH |
 | *Cole Trapnell, Ph.D. (2010) Professor, Genome Sciences, University of Washington |
 | *David Kelley, Ph.D. (2011) Scientist, Calico Labs |
 | Todd Treangen, Ph.D. Associate Professor, Computer Science, Rice University |
 | *Sam Angiuoli, Ph.D. (2011) Chief Information Officer, Personal Genome Diagnostics |
 | Arthur Brady, Ph.D. Staff Scientist, Inst. for Genome Sciences., U. Maryland School of Medicine |
 | Henry Lin, Ph.D. Staff Scientist, Philips Research. |
 | Carl Kingsford, Ph.D. Professor, Computational Biology Dept., Carnegie Mellon Univ. |
 | Mihai Pop, Ph.D. Professor of Computer Science and Director of UMIACS, University of Maryland |
< | *Jonathan Allen, Ph.D. (2006) Research Scientist, Lawrence Livermore Natl. Laboratory |
 | *Mihaela (Ela) Pertea, Ph.D. (2001) Associate Professor of Biomedical Engineering, Computer Science, and Genetic Medicine, Johns Hopkins University |
 | Bill Majoros, Ph.D. Assistant Professor, Department of Biostatistics & Bioinformatics, Duke University |
 | Carlos Canchaya, Ph.D. Former visiting postdoctoral fellow. Research Fellow, Universida de Vigo, Spain. |
 | Kunmi Ayanbule, Bioinformatics Engineer at CBCB, later at Bluegate.co |
 | Dan Sommer, Bioinformatics Engineer at CBCB, later at Natl. Biodefense and Countermeasures Center (NBACC) |
 | Pawel Gajer, Ph.D. Bioinformatics Scientist (TIGR), now at Institute of Genome Sciences, U. Maryland School of Medicine |
| Maria Ermolaeva, Ph.D., former postdoc and Bioinformatics Scientist at TIGR, now an instructor in Hopkins Engineering for Professionals program. |
 | Natalia Volfovsky, Ph.D. Former postdoc (TIGR), now at Simons Foundation |
 | Olga Troyanskaya, Ph.D. Summer intern, 1997 and 1998 Professor, Dept. of Computer Science and Lewis-Sigler Inst. of Integrative Genomics, Princeton University Deputy Director for Genomics, Flatiron Institute, Simons Foundation, NYC |
 | *John Sheppard, Ph.D. (1997) College of Engineering Distinguished Professor, Gianforte School of Computing, Montana State Univ. |
 | *Sreerama K. Murthy, Ph.D. (1995) CEO & Chief Data Scientist, Quadratyx |
Salzberg Lab 