Joung, J Keith

Phone: (617) 726-5695


Dr. Joung’s research interests include understanding how Cys2His2 zinc fingers, the most common domain encoded in the human genome, mediate specific protein-DNA and protein-protein interactions. In addition, Dr. Joung’s lab uses a combination of directed randomization and bacterial cell-based selection methods to engineer artificial “designer” zinc finger domains with desired DNA-binding specificities. The ability to direct functional domains (e.g.—transcriptional regulatory or endonuclease domains) to specific genomic loci using these customized DNA-binding domains will have important applications as tools for biological research and as potential therapeutics for molecular medicine and gene therapy.

Education & Training:

1998-2001 Post-doctoral fellowship, Massachusetts Institute of Technology
1996 Ph.D. in Genetics, Harvard University
1996 M.D., Harvard Medical School
1987 A.B., Biochemical Sciences, Harvard College

2009-pres Associate Pathologist, Massachusetts General Hospital
2009-pres Associate Chief of Pathology for Research, Massachusetts General Hospital
2008-pres Associate Professor of Pathology, Harvard Medical School
2007-pres. Director, Molecular Pathology Unit, Massachusetts General Hospital
2007-pres. Member, Center for Computational and Integrative Biology, Massachusetts General Hospital
2004-2008 Assistant Professor of Pathology, Harvard Medical School
2004-pres. Faculty member, Ph.D. program in Biological and Biomedical Sciences, Division of Medical Sciences, Harvard Medical School
2003-pres. Member, Center for Cancer Research, MGH Cancer Center
2000-2008 Assistant Pathologist, Massachusetts General Hospital
1998-2001 Post-doctoral Fellow, HHMI/Massachusetts Institute of Technology
1997 Chief Resident in Clinical Pathology, Massachusetts General Hospital
1996-1999 Resident in Clinical Pathology, Massachusetts General Hospital

2011 Appointment as The Jim and Ann Orr MGH Research Scholar
2010 NIH Director’s Pioneer Award recipient
2010 NIH Transformative R01 recipient
2009 Honoree, The One Hundred, MGH Cancer Center
2000-2005 NIH K08 fellowship award
2000 Board Certification in Clinical Pathology, American Board of Pathology
1998-2000 Howard Hughes Medical Institute Postdoctoral Research Fellowship for Physicians
1996 Bernard N. Fields Prize in Microbiology and Molecular Genetics (for Ph.D. thesis), Harvard Medical School
1989-1996 Medical Scientist Training Program (M.D.-Ph.D.) appointment, Harvard Medical School
1987 Graduated magna cum laude, Harvard College

Selected Publications (from total of 110)


Tsai SQ, Nguyen NT, Malagon-Lopez J, Topkar VV, Aryee MJ, Joung JK
CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets.
Nat Methods. 2017;:ePub - PMID: 28459458
Gootenberg JS, Abudayyeh OO, Lee JW, Essletzbichler P, Dy AJ, Joung J, Verdine V, Donghia N, Daringer NM, Freije CA, Myhrvold C, Bhattacharyya RP, Livny J, Regev A, Koonin EV, Hung DT, Sabeti PC, Collins JJ, Zhang F
Nucleic acid detection with CRISPR-Cas13a/C2c2.
Science. 2017;356(6336):438-442 - PMID: 28408723
Ando K, Shah AK, Sachdev V, Kleinstiver BP, Taylor-Parker J, Welch MM, Hu Y, Salgia R, White FM, Parvin JD, Ozonoff A, Rameh LE, Joung JK, Bharti AK
Camptothecin resistance is determined by the regulation of topoisomerase I degradation mediated by ubiquitin proteasome pathway.
Oncotarget. 2017;:ePub - PMID: 28415827
Cornu TI, Thibodeau-Beganny S, Guhl E, Alwin S, Eichtinger M, Joung JK, Cathomen T
DNA-binding Specificity Is a Major Determinant of the Activity and Toxicity of Zinc-finger Nucleases.
Mol Ther. 2016;16(2):352-358 - PMID: 28178540
Corrigan-Curay J, O'Reilly M, Kohn DB, Cannon PM, Bao G, Bushman FD, Carroll D, Cathomen T, Joung JK, Roth D, Sadelain M, Scharenberg AM, von Kalle C, Zhang F, Jambou R, Rosenthal E, Hassani M, Singh A, Porteus MH
Genome Editing Technologies: Defining a Path to Clinic: Genomic Editing: Establishing Preclinical Toxicology Standards, Bethesda, Maryland 10 June 2014.
Mol Ther. 2016;23(5):796-806 - PMID: 28142000
Kleinstiver BP, Tsai SQ, Prew MS, Nguyen NT, Welch MM, Lopez JM, McCaw ZR, Aryee MJ, Joung JK
Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells.
Nat Biotechnol. 2016;34(8):869-874 - PMID: 27347757 - PMCID: PMC4980201
Saha SK, Gordan JD, Kleinstiver BP, Vu P, Najem MS, Yeo JC, Shi L, Kato Y, Levin RS, Webber JT, Damon LJ, Egan RK, Greninger P, McDermott U, Garnett MJ, Jenkins RL, Rieger-Christ KM, Sullivan TB, Hezel AF, Liss AS, Mizukami Y, Goyal L, Ferrone CR, Zhu AX, Joung JK, Shokat KM, Benes CH, Bardeesy N
Isocitrate dehydrogenase mutations confer dasatinib hypersensitivity and SRC-dependence in intrahepatic cholangiocarcinoma.
Cancer Discov. 2016;6(7):727-39 - PMID: 27231123
Tsai SQ, Topkar VV, Joung JK, Aryee MJ
Open-source guideseq software for analysis of GUIDE-seq data.
Nat Biotechnol. 2016;34(5):483 - PMID: 27153277
Tsai SQ, Joung JK
Defining and improving the genome-wide specificities of CRISPR-Cas9 nucleases.
Nat Rev Genet. 2016;17(5):300-12 - PMID: 27087594
Joung JK, Voytas DF, Kamens J
Accelerating research through reagent repositories: the genome editing example.
Genome Biol. 2015;16(1):255 - PMID: 26585970 - PMCID: PMC4653914
Kleinstiver BP, Prew MS, Tsai SQ, Nguyen NT, Topkar VV, Zheng Z, Joung JK
Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition.
Nat Biotechnol. 2015;33(12):1293-1298 - PMID: 26524662 - PMCID: PMC4689141
Wyvekens N, Tsai SQ, Joung JK
Genome Editing in Human Cells Using CRISPR/Cas Nucleases.
Curr Protoc Mol Biol. 2015;112:31.3.1-31.3.18 - PMID: 26423589 - PMCID: PMC4852847
Spisák S, Lawrenson K, Fu Y, Csabai I, Cottman RT, Seo JH, Haiman C, Han Y, Lenci R, Li Q, Tisza V, Szállási Z, Herbert ZT, Chabot M, Pomerantz M, Solymosi N, , Gayther SA, Joung JK, Freedman ML
CAUSEL: an epigenome- and genome-editing pipeline for establishing function of noncoding GWAS variants.
Nat Med. 2015;21(11):1357-1363 - PMID: 26398868 - PMCID: PMC4746056
Hubbard BP, Badran AH, Zuris JA, Guilinger JP, Davis KM, Chen L, Tsai SQ, Sander JD, Joung JK, Liu DR
Continuous directed evolution of DNA-binding proteins to improve TALEN specificity.
Nat Methods. 2015;12(10):939-942 - PMID: 26258293 - PMCID: PMC4589463
Joung JK
Unwanted mutations: Standards needed for gene-editing errors.
Nature. 2015;523(7559):158 - PMID: 26156364