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Publications

  1. F. Parisi, F. Strino, B. Nadler, and Y. Kluger, "Ranking and combining multiple predictors without labeled data," PNAS, p. 201219097, 2014.
  2. Strino, F., Parisi, F., Micsinai, M., and Kluger,Y., TrAp: a Tree Approach for Fingerprinting Subclonal Tumor Composition, Nucleic Acids Research 2013; doi: 10.1093/nar/gkt641, http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3783191/.
  3. Stanton, K., Parisi, F., Strino, F., Rabin, N., Asp, P. and Kluger,Y., Arpeggio: Harmonic compression of ChIP-seq data reveals protein-chromatin interaction signatures, Nucleic Acids Research 2013; doi: 10.1093/nar/gkt627.
  4. Chaumeil, J., Micsinai, M., Ntziachristos, P., Roth, D.B., Aifantis, I., Kluger, Y., Deriano, L., and Skok, J.A., The RAG2 C-terminus and ATM control cleavage to limit the number of potential translocation substrates, Nature Communications, 4, Article number: 2231 doi:10.1038/ncomms3231.
  5. Zhang, J., Bonasio, R. Strino, F., Kluger, Y., Holloway, K. Modzelewski, A., Cohen, P., Reinberg, D., SFMBT1 Functions with LSD1 to Regulate Expression of Canonical Histone Genes and Chromatin-Related Factors, Gene and Development 2013. 27: 749-766; PMC3639416
  6. Aziz, A.A., Sznol, J.A., Adeniran, A., Parisi, F. Kluger, Y. Camp, R.L. and Kluger, H.M., Expression of Drug Targets in Primary and Matched Metastatic Renal Cell Carcinoma Tumors, BMC Clinical Pathology, BMC Clinical Pathology 2013, 13:3; PMID: 23374878; PMC3575219
  7. Chaumeil J, Micsinai M, Ntziachristos P, Deriano L, Wang JMH, Ji Y, Nora E, Rodesch MJ, Jeddeloh JA, Kluger Y, Aifantis I, Schaatz DG, Skok JA. Higher-order looping and nuclear organization of antigen receptor loci facilities targeted RAG cleavage and regulated rearrangement in recombination centers. Cell Reports, Epub date 2013/02/19 PMID: 23416051
  8. Neumeister, V.M., Anagnostou, V., Siddiqui, S., England, A.M., Zarrella, E.R., Vassilakopoulou, M., Parisis, F., Kluger, Y., Hicks, D.G. and David L. Rimm, D.L. , Quantification of the Pre-analytic Effect of Cold Ischemic Time in Breast Cancer Tissue, JNCI 104(23): 1815-24 (2012); PMID: 23090068 ; PMCID: PMC3514166
  9. Rocha, P.P., Micsinai, M. Souza, P.P., Kim, J.R., Hewitt, S.L., Trimarchi, T., Strino, F., Parisi, F., Kluger, Y. and Skok, J.A., Close proximity to Igh is a contributing factor to AID mediated translocations, Molecular Cell 47(6): 873-85 (2012); PMID: 22864115 ; PMCID: PMC3571766
  10. Johnson, K., Chaumeil, J., Micsinai, M., Wang, J.M.H., Ramsey, L.B., Baracho, G.V., Rickert, R.C., Strino, F., Kluger, Y., Farrar, M.A., and Skok, J.A. IL-7 Functionally Segregates the Pro-B Cell Stage by Regulation Transcription of Recombination Mediators across Cell Cycle. Journal of Immunology 188(12):6084-92 (2012); PMID: 22581861 ; PMCID: PMC3370098
  11. M. Micsinai, F. Parisi, F. Strino, P. Asp, B. D. Dynlacht, and Y. Kluger, "Picking ChIP-seq peak detectors for analyzing chromatin modification experiments," Nucleic Acids Research, 2012.
  12. Z. Gao, J. Zhang, R. Bonasio, F. Strino, A. Sawai, F. Parisi, Y. Kluger, and D. Reinberg, "PCGF Homologs, CBX Proteins, and RYBP Define Functionally Distinct PRC1 Family Complexes," Molecular Cell, vol. 45, pp. 344-356, 2012.
  13. F. Strino, F. Parisi, and Y. Kluger, "VDA, a Method of Choosing a Better Algorithm with Fewer Validations," PLoS One, vol. 6, p. e26074, 2011.
  14. F. Parisi, S. Ariyan, D. Narayan, A. Bacchiocchi, K. Hoyt, E. Cheng, F. Xu, P. Li, R. Halaban, and Y. Kluger, "Detecting copy number status and uncovering subclonal markers in heterogeneous tumor biopsies," BMC genomics, vol. 12, p. 230, 2011.
  15. H. M. Kluger, K. Hoyt, A. Bacchiocchi, T. Mayer, J. Kirsch, Y. Kluger, M. Sznol, S. Ariyan, A. Molinaro, and R. Halaban, "Plasma Markers for Identifying Patients with Metastatic Melanoma," Clinical Cancer Research, vol. 17, p. 2417, 2011.
  16. A. Collins, S. L. Hewitt, J. Chaumeil, M. L. Sellars, M. Micsinai, J. Allinne, F. Parisi, E. P. Nora, D. J. Bolland, and A. E. Corcoran, "RUNX transcription factor-mediated association of Cd4 and Cd8 enables coordinate gene regulation," Immunity, vol. 34, pp. 303-314, 2011.
  17. P. Asp, R. Blum, V. Vethantham, F. Parisi, M. Micsinai, J. Cheng, C. Bowman, Y. Kluger, and B. D. Dynlacht, "Genome-wide remodeling of the epigenetic landscape during myogenic differentiation," Proceedings of the National Academy of Sciences, vol. 108, p. E149, 2011.
  18. C. van Oevelen, C. Bowman, J. Pellegrino, P. Asp, J. Cheng, F. Parisi, M. Micsinai, Y. Kluger, A. Chu, and A. Blais, "The mammalian Sin3 proteins are required for muscle development and sarcomere specification," Molecular and cellular biology, vol. 30, p. 5686, 2010.
  19. F. Parisi, A. M. Gonzalez, Y. Nadler, R. L. Camp, D. L. Rimm, H. M. Kluger, and Y. Kluger, "Benefits of biomarker selection and clinico-pathological covariate inclusion in breast cancer prognostic models," Breast Cancer Res, vol. 12, p. R66, 2010.
  20. Y. Nadler, A. Gonzalez, R. Camp, D. Rimm, H. Kluger, and Y. Kluger, "Growth factor receptor-bound protein-7 (Grb7) as a prognostic marker and therapeutic target in breast cancer," Annals of Oncology, vol. 21, p. 466, 2010.
  21. R. Halaban, W. Zhang, A. Bacchiocchi, E. Cheng, F. Parisi, S. Ariyan, M. Krauthammer, J. P. McCusker, Y. Kluger, and M. Sznol, "PLX4032, a selective BRAFV600E kinase inhibitor, activates the ERK pathway and enhances cell migration and proliferation of BRAFWT melanoma cells," Pigment cell & melanoma research, vol. 23, pp. 190-200, 2010.