The landscape of cancer cell line metabolism
Li, Haoxin, Shaoyang Ning, Mahmoud Ghandi, Gregory Kryukov, Shuba Gopal, Amy Deik, Amanda Souza, et al. 2019. “The Landscape of Cancer Cell Line Metabolism”. Nat Med 25 (5): 850-60.
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Oncogenic Hijacking of the Stress Response Machinery in T cell Acute Lymphoblastic Leukemia
Kourtis, Nikos, Charalampos Lazaris, Kathryn Hockemeyer, Juan Carlos Balandrán, Alejandra R. Jimenez, Jasper Mullenders, Yixiao Gong, et al. 2018. “Oncogenic Hijacking of the Stress Response Machinery in T Cell Acute Lymphoblastic Leukemia”. Nat Med 24: 1157-66.
Stratification of TAD Boundaries Reveals Preferential Insulation of Super-enhancers by Strong Boundaries
Gong, Yixiao, Charalampos Lazaris, Theodore Sakellaropoulos, Aurelie Lozano, Prabhanjan Kambadur, Panagiotis Ntziachristos, Iannis Aifantis, and Aristotelis Tsirigos. 2018. “Stratification of TAD Boundaries Reveals Preferential Insulation of Super-Enhancers by Strong Boundaries”. Nat Commun 9: 542-42.
Low-Grade Astrocytoma Mutations in IDH1, P53, and ATRX Cooperate to Block Differentiation of Human Neural Stem Cells via Repression of SOX2
Modrek, Aram S., Danielle Golub, Themasap Khan, Devin Bready, Jod Prado, Christopher Bowman, Jingjing Deng, et al. 2017. “Low-Grade Astrocytoma Mutations in IDH1, P53, and ATRX Cooperate to Block Differentiation of Human Neural Stem Cells via Repression of SOX2”. Cell Rep 21: 1267-80.
Regulation of Transcriptional Elongation in Pluripotency and cell Differentiation by the PHD-finger Protein Phf5a
Strikoudis, Alexandros, Charalampos Lazaris, Thomas Trimarchi, Antonio L. Galvao Neto, Yan Yang, Panagiotis Ntziachristos, Scott Rothbart, et al. 2016. “Regulation of Transcriptional Elongation in Pluripotency and Cell Differentiation by the PHD-Finger Protein Phf5a”. Nat Cell Biol 18: 1127-38.
Genomic evolution of cancer models: perils and opportunities
Ben-David, U., R. Beroukhim, and T. R. Golub. 2019. “Genomic Evolution of Cancer Models: Perils and Opportunities”. Nat Rev Cancer 19: 97-109.
A dataset of images and morphological profiles of 30 000 small-molecule treatments using the Cell Painting assay
Bray, M. A., S. M. Gustafsdottir, M. H. Rohban, S. Singh, V. Ljosa, K. L. Sokolnicki, J. A. Bittker, et al. 2017. “A Dataset of Images and Morphological Profiles of 30 000 Small-Molecule Treatments Using the Cell Painting Assay”. Gigascience 6: 1-5.
WRN helicase is a synthetic lethal target in microsatellite unstable cancers
Chan, E. M., T. Shibue, J. M. McFarland, B. Gaeta, M. Ghandi, N. Dumont, A. Gonzalez, et al. 2019. “WRN Helicase Is a Synthetic Lethal Target in Microsatellite Unstable Cancers”. Nature 568: 551-56.
CRISPR-Cas9 screen reveals a MYCN-amplified neuroblastoma dependency on EZH2
Chen, L., G. Alexe, N. V. Dharia, L. Ross, A. B. Iniguez, A. S. Conway, E. J. Wang, et al. 2018. “CRISPR-Cas9 Screen Reveals a MYCN-Amplified Neuroblastoma Dependency on EZH2”. J Clin Invest 128: 446-62.
High-throughput validation of ceRNA regulatory networks
Chiu, H. S., M. R. Martinez, M. Bansal, A. Subramanian, T. R. Golub, X. Yang, P. Sumazin, and A. Califano. 2017. “High-Throughput Validation of CeRNA Regulatory Networks”. BMC Genomics 18: 418.