Joel Bader, PhD


Office: Clark 201C
Lab: Bioinformatics and Computational Biology Lab

Research Interests

Joel S. Bader, a professor in the Department of Biomedical Engineering, is a leading innovator in genomics and biotechnology. His research explores the connection between genotype and phenotype, relating an organism’s genetic material to its observable characteristics.

Bader develops new computational methods to define how inborn genetic variants and acquired mutations lead to disease, primarily complex genetic disorders and cancer, with the goal of identifying new therapeutic targets. He also leads synthetic biology projects that design and build entire chromosomes and genomes to create new forms of life. He also leads an effort to create cells that rely on RNA (ribonucleic acid) rather than DNA for their genetic information. In related efforts, Bader’s lab develops technologies for biosafety and biosecurity, preventing escape of engineered life and identifying evidence of genetic engineering in DNA samples.

Bader serves as Interim Director of the High-Throughput Biology Center (HiT Center) at the Johns Hopkins University School of Medicine. He leads the Johns Hopkins Cancer Target Discovery and Development (CTD2) Center, which was funded by the National Cancer Institute to identify new targets for metastatic breast cancer by revealing the molecular drivers of tumor  metastasis, the main cause of breast cancer mortality.

Bader, who holds a secondary appointment in the Department of Computer Science, is a member of the Whiting School of Engineering’s Institute of Computational Medicine and the Johns Hopkins School of Medicine’s Institute of Genetic Medicine. He is a founder of Neochromosome, Inc., a company using synthetic biology to develop new products for biomedicine and agriculture. Prior to joining the JHU faculty in 2003, Bader worked in biotech at CuraGen Corporation as director of bioinformatics. At CuraGen Corporation, he co-invented the 454 Genome Sequencer, the first next-generation DNA sequencer to reach the market.

Bader received a National Science Foundation (NSF) CAREER Award. He is a Fellow of the American Institute for Medical and Biological Engineering (AIMBE) and Deputy Editor of PLOS Computational Biology. He regularly serves on federal government advisory committees for the National Institutes of Health, the NSF, and the Department of Energy.

Bader received a BS in Biochemistry from Lehigh University, where he was elected to Phi Beta Kappa and Tau Beta Pi, and a PhD in Chemistry from the University of California, Berkeley. He did postdoctoral research at Columbia University.

Publications Search

From Pub Med   |   Google Scholar Profile

Selected Publications

Simone Gupta, Shannon E. Ellis, Foram N. Ashar, Anna Moes, Joel S. Bader, Jianan Zhan, Andrew B. West & Dan E. Arking. 2014. Transcriptome analysis reveals dysregulation of innate immune response genes and neuronal activity-dependent genes in autism. Nature Communications. Article 5748, 10 Dec 2014.

Huang H, Jedynak BM, Bader JS. 2007. Where Have All the Interactions Gone? Estimating the Coverage of Two-Hybrid Protein Interaction Maps. PLoS Comput Biol 3(11): e214.

Liu LA, Bader JS. 2007. Ab initio prediction of transcription factor binding sites. Pac. Symp. Biocomp. 12: 484–495.

Stuart LM, Boulais J, Charriere GM, Hennessy EJ, Brunet S, Jutras I, Goyette G, Rondeau C, Letarte S, Huang H, Ye P, Morales F, Kocks C, Bader JS, Desjardins M, Ezekowitz RA. A systems biology analysis of the Drosophila phagosome. Nature. 2007 Jan 4;445(7123):95–101. Epub 2006 Dec 6. PMID: 17151602