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.
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Description of Research Expertise

Our lab is interested in functional genomics, approaches that are aimed at understanding gene function by following the effects of direct perturbations at a large scale, we are developing novel perturbation and functional genomics approaches and applying them together with additional genomics approaches to study a range of human diseases including early and late onset neurodegenerative diseases.

Selected Publications

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.

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., Zhang, F.: High-throughput functional genomics using CRISPR-Cas9. Nat Rev Genet 16(5): 299-311, 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.

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.

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, Apr 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, Sep 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.

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.

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Last updated: 06/11/2024
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