Publications

Publications

  1. Senigl F, Maman Y, Dinesh RK, Alinikula J, Seth RB, Pecnova L, Omer AD, Rao SP, Weisz D, Buerstedde JM, Lieberman-Aiden E, Casellas R, Jiri Hejnar J, Schatz DG (2019). Topologically Associated Domains Delineate Susceptibility to Somatic Hypermutation. Cell Reports. In press

 

  1. Shinoda K*, Maman Y*, Canela A, Schatz DG, Livak F, Nussenzweig A (2019). Intra-Vk Cluster Recombination Shapes the Ig Kappa Locus Repertoire. Cell Reports. In press
        *Co-first authors
  1. Callen E, Zong 1, Wu 1, Wong 1, Stanlie 1, Ishikawa M, Pavani R, Dumitrache LC, Byrum AK, Mendez-Dorantes C, Martinez P, Canela A, Maman Y, Day A, Kruhlak MJ, Blasco MA, Stark JM, Mosammaparast N, McKinnon PJ, Nussenzweig A. (2019). 53BP1 Enforces Distinct Pre- and Post-resection Blocks on Homologous Recombination. Molecular 77, 1–13

 

  1. Canela A*, Maman Y*, Huang, SH, Wutz G, Tang W, Zagnoli-Vieira G, Callen E, Wong N, Day A, Peters JM, Caldecott KW, Pommier Y, Nussenzweig A. (2019). “Topoisomerase II-induced Chromosome Breakage and Translocation Is Determined by Chromosome Architecture and Transcriptional Activity “. Molecular Cell. 75: 252–266
            *Co-first authors
  1. Tubbs A, Sridharan S, van Wietmarschen N, Maman Y, Callen E, Stanlie A, Wu W, Wu X, Day A, Wong W, Yin M, Canela A, Fu H, Redon C, C. Pruitt S, Jaszczyszyn Y, Aladjem MI, Aplan PD, Hyrien O, Nussenzweig A.(2018). “Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse”.Cell. 174(5):1127-1142.e19.

 

  1. Vian L, Pękowska A, Rao SSP, Kieffer-Kwon KR, Jung S, Baranello L, Huang SC, El Khattabi L, Dose M, Pruett N, Sanborn AL, Canela A, Maman Y, Oksanen A, Resch W, Li X, Lee B, Kovalchuk AL, Tang Z, Nelson S, Di Pierro M, Cheng RR, Machol I, St Hilaire BG, Durand NC, Shamim MS, Stamenova EK, Onuchic JN, Ruan Y, Nussenzweig A, Levens D, Aiden EL, Casellas R. (2018). “The Energetics and Physiological Impact of Cohesin Extrusion”.Cell. 173(5):1165-1178.e20

 

  1. Canela A*, Maman Y*, Jung S, Wong N, Callen E, Day A, Kieffer-Kwon KR, Pekowska A, Zhang H, Rao SSP, Huang SC, Mckinnon PJ, Aplan PD, Pommier Y, Lieberman Aiden E, Casellas R, Nussenzweig A. (2017). “Genome Organization Drives Chromosome Fragility”.Cell. 170,507-521.
           *Co-first authors
  1. Maman Y, Teng G, Seth R, Kleinstein SH, Schatz DG. (2016). “RAG1 targeting in the genome is dominated by chromatin interactions mediated by the non-core regions of RAG1 and RAG2.” Nucleic Acid Research, 44(20):9624-963

 

  1. Williams AM, Maman Y, Alinikula J, Schatz DG. (2016).” Bcl6 Is Required for Somatic Hypermutation and Gene Conversion in Chicken DT40 Cells.” PLoS ONE, 11(2): e0149146;

 

  1. Liberman, G., Benichou, J., Maman, Y., Glanville, J., Alter, I., Louzoun, Y. (2015). “Estimate of Within Population Incremental Selection Through Branch Imbalance in Lineage Trees.” Nucleic Acid Research, 44(5):e46

 

  1. Teng, G., Maman, Y., Resch W., Kim, M, Yamane, A., Qian J., Kieffer-Kwon KR, Manda, M., Meffre,E., Clark M., Cowell, LG., Casellas, R., and Schatz, DG.(2015). ”RAG Represents a Widespread Threat to the Lymphocyte Genome” Cell, 162, 751–765.

 

  1. Choi, J. ,Goh, G. ,Chen, K. ,Wang,T. ,Walradt, T. ,Tordoff, J.,Overton J. , Liu K. ,Lewis, J. , Devine, L. , Barbarotta, L. , Foss, F. , Vonderheid, E. , Edelson, R. ,Boggon, T. ,Girardi, M. , Bjornson, R. , Maman, Y. ,Subtil, A., Hong, B. , Schatz, DG. , Bunick, C. , Carlson, K., Lifton, RP. (2015) ”Genomic landscape of cutaneous T cell lymphoma”, Nature Genetics, 47, 1011–1019.

 

  1. Maman Y, Hershberg U, Louzoun Y. (2015) “Viral CD8 T cell epitope nucleotide composition shows evidence of short- and long-term evolutionary strategies”. Immunogenetics.;67(1):15-24

  

  1. Agranovich A*, Maman Y*, Louzoun Y. (2013) ”Viral proteome size and CD8+ T cell epitope density are correlated: the effect of complexity on selection”. Infect Genet Evol.;20:71-7.
           *Co-first authors 
  1. Hoze E, Tsaban, L, Maman, Y., Louzoun, Y. (2013) “Predictor for the effect of amino acid composition on CD4+ T cell epitopes preprocessing” J Immunol Methods;391(1-2):163-73.

 

  1. Maman, Y., R. Nir-Paz, et al. (2011). “Bacteria modulate the CD8+ T cell epitope repertoire of host cytosol-exposed proteins to manipulate the host immune response.” PLoS Comput Biol 7(10): e1002220

 

  1. Maman, Y., A. Blancher, et al. (2011). “Immune-induced evolutionary selection focused on a single reading frame in overlapping hepatitis B virus proteins.” J Virol 85(9): 4558-4566.

 

  1. Toussaint, N. C., Maman, Y. et al. (2011). “Universal peptide vaccines – optimal peptide vaccine design based on viral sequence conservation.” Vaccine 29(47): 8745-8753.

 

  1. Vider-Shalit, T., R. Sarid, et al. (2009). “Viruses selectively mutate their CD8+ T-cell epitopes–a large-scale immunomic analysis.” Bioinformatics 25(12): i39-44.

Book chapters

  • Maman, Y., Agranovich, A., Vider-Shalit, T. and Louzoun, Y. (2013) “Evolutionary Principles In Viral Epitopes. ” Mathematical Models and Methods in Biomedicine. ISBN 978-1-4614-4178-6