Ophir Shalem, Ph.D.

faculty photo
Assistant Professor of Genetics
Department: Genetics

Contact information
5050 Colket Translational Research Building
3501 Civic Center Boulevard
Philadelphia, PA 19104
Office: 215-590-4168
B.Sc. (Computer Science and Biology, Bioinformatics Track in the Computer Science Department)
Ben Gurion University of The Negev, Beer Sheva, Israel, 2004.
M.Sc. (Bioinformatics, Advisors: Tzachi Pilpel and Eran Segal)
The Weizmann Institue of Science, 2007.
Ph.D. (Biology and Computer Science, Advisors: Tzachi Pilpel and Eran Segal)
The Weizmann Institue of Science, 2012.
Permanent link

Description of Research Expertise

Our lab is part of the Center for Cellular and Molecular Therapeutics at CHOP and the Department of Genetics at the University of Pennsylvania.

We focus on translational target discovery for a range of early and late onset neurodegenerative diseases. We combine cutting edge high throughput CRISPR based screening and genomic approaches with rigorous mechanistic studies in two main routes:

(1) Developing novel screening paradigms to understand the molecular mechanisms that underlie cellular toxicity of rare and common mutations associated with risk of neurodegeneration.
(2) Understanding the regulation of protein quality control pathways, their malfunction in neurodegenerative diseases and investigating the possibility of utilizing these pathways for therapeutic intervention.

visit www.shalem-lab.org for more information

Selected Publications

Jain, I. H., Zazzeron, L., Goli, R., Alexa, K., Schatzman-Bone, S., Dhillon, H., Goldberger, O., Peng, J., Shalem, O., Sanjana, N. E., Zhang, F., Goessling, W., Zapol, W. M., Mootha, V. K.: Hypoxia as a therapy for mitochondrial disease. Science 352(6281): 54-61, 2016.

Sanjana, Neville E., Wright, Jason, Zheng, Kaijie, Shalem, Ophir, Fontanillas, Pierre, Joung, Julia, Cheng, Christine, Regev, Aviv, Zhang, Feng: High-resolution interrogation of functional elements in the noncoding genome. Science 353(6307): 1545-1549, 2016.

Canver, M. C., Smith, E. C., Sher, F., Pinello, L., Sanjana, N. E., Shalem, O., Chen, D. D., Schupp, P. G., Vinjamur, D. S., Garcia, S. P., Luc, S., Kurita, R., Nakamura, Y., Fujiwara, Y., Maeda, T., Yuan, G. C., Zhang, F., Orkin, S. H., Bauer, D. E.: BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis. Nature 527(7577): 192-7, 2015.

Shalem, O., Sharon, E., Lubliner, S., Regev, I., Lotan-Pompan, M., Yakhini, Z., Segal, E.: Systematic dissection of the sequence determinants of gene 3'' end mediated expression control. PLoS Genet 11(4): e1005147, 2015.

Shalem, O., Sanjana, N. E., Zhang, F.: High-throughput functional genomics using CRISPR-Cas9. Nat Rev Genet 16(5): 299-311, 2015.

Ran, F. A., Cong, L., Yan, W. X., Scott, D. A., Gootenberg, J. S., Kriz, A. J., Zetsche, B., Shalem, O., Wu, X., Makarova, K. S., Koonin, E. V., Sharp, P. A., Zhang, F.: In vivo genome editing using Staphylococcus aureus Cas9. Nature 520(7546): 186-91, 2015.

Parnas, O., Jovanovic, M., Eisenhaure, T. M., Herbst, R. H., Dixit, A., Ye, C. J., Przybylski, D., Platt, R. J., Tirosh, I., Sanjana, N. E., Shalem, O., Satija, R., Raychowdhury, R., Mertins, P., Carr, S. A., Zhang, F., Hacohen, N., Regev, A.: A Genome-wide CRISPR Screen in Primary Immune Cells to Dissect Regulatory Networks. Cell 162(3): 675-86, 2015.

Chen, S., Sanjana, N. E., Zheng, K., Shalem, O., Lee, K., Shi, X., Scott, D. A., Song, J., Pan, J. Q., Weissleder, R., Lee, H., Zhang, F., Sharp, P. A.: Genome-wide CRISPR screen in a mouse model of tumor growth and metastasis. Cell 160(6): 1246-60, 2015.

Sanjana, N. E., Shalem, O., Zhang, F.: Improved vectors and genome-wide libraries for CRISPR screening. Nat Methods 11(8): 783-4, 2014.

Shalem, O., Sanjana, N. E., Hartenian, E., Shi, X., Scott, D. A., Mikkelsen, T. S., Heckl, D., Ebert, B. L., Root, D. E., Doench, J. G., Zhang, F.: Genome-scale CRISPR-Cas9 knockout screening in human cells. Science 343(6166): 84-7, 2014.

back to top
Last updated: 07/27/2017
The Trustees of the University of Pennsylvania