Daniel S. Rokhsar

University of California, Berkeley, Berkeley, CA 
Computation & Theory
"Daniel Rokhsar"
Cross-listing: Neurotree - Physics Tree


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Philip Warren Anderson research assistant 1981-1982 Princeton (Physics Tree)
 (senior thesis)
Daniel L. Stein research assistant 1981-1982 Princeton (Physics Tree)
 (senior thesis)
N. David Mermin grad student 1982-1987 Cornell (Physics Tree)
James Sethna grad student 1982-1987 Cornell (Physics Tree)


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David M. Deaven grad student 1989-1993 UC Berkeley (Physics Tree)
Paul Edward Lammert grad student 1989-1993 UC Berkeley (Physics Tree)
Kanwal Gurbax Singh grad student 1989-1993 UC Berkeley (Physics Tree)
Dane D Morgan grad student 1998 UC Berkeley (Physics Tree)
Daniel A. Butts grad student 2000 UC Berkeley (Neurotree)
Elliot Greenfield grad student 2001 UC Berkeley (Physics Tree)
Michael D. Grabe grad student 2002 UC Berkeley (Physics Tree)
Jarrod A. Chapman grad student 2004 UC Berkeley (Physics Tree)
Nicholas H. Putnam grad student 2004 UC Berkeley (Physics Tree)
David A. Hendrix grad student 2007 UC Berkeley (Physics Tree)
Mansi Srivastava grad student 2009 UC Berkeley
Alistair N. Boettiger grad student 2011 UC Berkeley (Physics Tree)
Daria Gavriouchkina post-doc (Neurotree)
Ferdinand Marletaz post-doc UC Berkeley
Benjamin K. Blackman post-doc 2010-2010 UC Berkeley
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Albertin CB, Medina-Ruiz S, Mitros T, et al. (2022) Genome and transcriptome mechanisms driving cephalopod evolution. Nature Communications. 13: 2427
Bredeson JV, Lyons JB, Oniyinde IO, et al. (2022) Chromosome evolution and the genetic basis of agronomically important traits in greater yam. Nature Communications. 13: 2001
Simakov O, Bredeson J, Berkoff K, et al. (2022) Deeply conserved synteny and the evolution of metazoan chromosomes. Science Advances. 8: eabi5884
Sanchez G, Fernández-Álvarez FÁ, Taite M, et al. (2021) Phylogenomics illuminates the evolution of bobtail and bottletail squid (order Sepiolida). Communications Biology. 4: 819
Lei L, Goltsman E, Goodstein D, et al. (2021) Plant Pan-Genomics Comes of Age. Annual Review of Plant Biology
Lyons JB, Bredeson JV, Mansfeld BN, et al. (2021) Current status and impending progress for cassava structural genomics. Plant Molecular Biology
Mitros T, Session AM, James BT, et al. (2020) Genome biology of the paleotetraploid perennial biomass crop Miscanthus. Nature Communications. 11: 5442
Peng Z, Bredeson JV, Wu GA, et al. (2020) A Chromosome-scale Reference Genome of Trifoliate Orange (Poncirus trifoliata) Provides Insights into Disease Resistance, Cold Tolerance and Genome Evolution in Citrus. The Plant Journal : For Cell and Molecular Biology
Mudd AB, Bredeson JV, Baum R, et al. (2020) Analysis of muntjac deer genome and chromatin architecture reveals rapid karyotype evolution. Communications Biology. 3: 480
Gordon SP, Contreras-Moreira B, Levy JJ, et al. (2020) Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors. Nature Communications. 11: 3670
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