@article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/72621, title ="A genome wide dosage suppressor network reveals genomic robustness", author = "Patra, Biranchi and Kon, Yoshiko and Yadav, Gitanjali and Sevold, Anthony W. and Frumkin, Jesse P. and Vallabhajosyula, Ravishankar R. and Hintze, Arend and Østman, Bjørn and Schossau, Jory and Bhan, Ashish and Marzolf, Bruz and Tamashiro, Jenna K. and Kaur, Amardeep and Baliga, Nitin S. and Grayhack, Elizabeth J. and Adami, Christoph and Galas, David J. and Raval, Alpan and Phizicky, Eric M. and Ray, Animesh", journal = "Nucleic Acids Research", volume = "45", number = "1", pages = "255-270", month = "January", year = "2017", doi = "https://doi.org/10.1093/nar/gkw1148", url = "https://resolver.caltech.edu/CaltechAUTHORS:20161207-074147204", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/47688, title ="Trade-offs drive resource specialization and the gradual establishment of ecotypes", author = "Østman, Bjørn and Lin, Randall and Adami, Christoph", journal = "BMC Evolutionary Biology", volume = "14", pages = "Art. No. 113", month = "May", year = "2014", doi = "https://doi.org/10.1186/1471-2148-14-113 ", url = "https://resolver.caltech.edu/CaltechAUTHORS:20140731-083113386", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/28929, title ="Robust Monomer-Distribution Biosignatures in Evolving Digital Biota", author = "Dorn, Evan D. and Adami, Christoph", journal = "Astrobiology", volume = "11", number = "10", pages = "959-968", month = "December", year = "2011", doi = "https://doi.org/10.1089/ast.2010.0556", url = "https://resolver.caltech.edu/CaltechAUTHORS:20120124-083258458", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/28588, title ="Integrated Information Increases with Fitness in the Evolution of Animats\r\n", author = "Edlund, Jeffrey A. and Chaumont, Nicolas and Hintze, Arend and Koch, Christof and Tononi, Giulio and Adami, Christoph", journal = "PLoS Computational Biology", volume = "7", number = "10", pages = "Art. No. e1002236", month = "October", year = "2011", doi = "https://doi.org/10.1371/journal.pcbi.1002236 ", url = "https://resolver.caltech.edu/CaltechAUTHORS:20111223-104836001", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/23161, title ="Colored Motifs Reveal Computational Building Blocks in the C. elegans Brain", author = "Qian, Jifeng and Hintze, Arend and Adami, Christoph", journal = "PLoS ONE", volume = "6", number = "3", pages = "Art. No. e17013", month = "March", year = "2011", doi = "https://doi.org/10.1371/journal.pone.0017013 ", url = "https://resolver.caltech.edu/CaltechAUTHORS:20110329-143325274", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/23827, title ="Monomer Abundance Distribution Patterns as a Universal\r\nBiosignature: Examples from Terrestrial and Digital Life", author = "Dorn, Evan D. and Nealson, Kenneth H. and Adami, Christoph", journal = "Journal of Molecular Evolution", volume = "72", number = "3", pages = "283-295", month = "March", year = "2011", doi = "https://doi.org/10.1007/s00239-011-9429-4", url = "https://resolver.caltech.edu/CaltechAUTHORS:20110527-142902990", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/55898, title ="Digital genetics: unravelling the genetic basis of evolution", author = "Adami, Christoph", journal = "Nature Reviews. Genetics", volume = "7", number = "2", pages = "109-118", month = "February", year = "2006", doi = "https://doi.org/10.1038/nrg1771 ", url = "https://resolver.caltech.edu/CaltechAUTHORS:20150318-140720858", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/2221, title ="Why highly expressed proteins evolve slowly", author = "Drummond, D. Allan and Bloom, Jesse D. and Adami, Christoph and Wilke, Claus O. and Arnold, Frances H.", journal = "Proceedings of the National Academy of Sciences of the United States of America", volume = "102", number = "40", pages = "14338-14343", month = "October", year = "2005", url = "https://resolver.caltech.edu/CaltechAUTHORS:DRUpnas05b", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/2059, title ="Random matrix model of adiabatic quantum computing", author = "Mitchell, David R. and Adami, Christoph and Lue, Waynn and Williams, Colin P.", journal = "Physical Review A", volume = "71", number = "5", pages = "Art. No. 052324", month = "May", year = "2005", url = "https://resolver.caltech.edu/CaltechAUTHORS:MITpra05", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/924, title ="Thermodynamic prediction of protein neutrality", author = "Bloom, Jesse D. and Silberg, Jonathan J. and Wilke, Claus O. and Drummond, D. Allan and Adami, Christoph and Arnold, Frances H.", journal = "Proceedings of the National Academy of Sciences of the United States of America", volume = "102", number = "3", pages = "606-611", month = "January", year = "2005", url = "https://resolver.caltech.edu/CaltechAUTHORS:BLOpnas05", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/51960, title ="Adaptive Radiation from Resource Competition in Digital Organisms", author = "Chow, Stephanie S. and Wilke, Claus O. and Ofria, Charles and Lenski, Richard E. and Adami, Christoph", journal = "Science", volume = "305", number = "5680", pages = "84-86", month = "July", year = "2004", doi = "https://doi.org/10.1126/science.1096307", url = "https://resolver.caltech.edu/CaltechAUTHORS:20141119-110450767", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/993, title ="Evolutionary rate depends on number of protein-protein interactions independently of gene expression level: Response", author = "Bloom, Jesse D. and Adami, Christoph", journal = "BMC Evolutionary Biology", volume = "4", pages = "Art. No. 14", month = "June", year = "2004", url = "https://resolver.caltech.edu/CaltechAUTHORS:BLObmceb04", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/89072, title ="Stability and the Evolvability of Function in a Model Protein", author = "Bloom, Jesse D. and Wilke, Claus O. and Arnold, Frances H. and Adami, Christoph", journal = "Biophysical Journal", volume = "86", number = "5", pages = "2758-2764", month = "May", year = "2004", doi = "https://doi.org/10.1016/S0006-3495(04)74329-5", url = "https://resolver.caltech.edu/CaltechAUTHORS:20180823-073709439", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/13497, title ="Bifurcation into functional niches in adaptation", author = "White, Justin S. and Adami, Christoph", journal = "Artificial Life", volume = "10", number = "2", pages = "135-144", month = "March", year = "2004", url = "https://resolver.caltech.edu/CaltechAUTHORS:WHIal04", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/13559, title ="Evolution of robustness in digital organisms", author = "Edlund, Jeffrey A. and Adami, Christoph", journal = "Artificial Life", volume = "10", number = "2", pages = "167-179", month = "March", year = "2004", doi = "https://doi.org/10.1162/106454604773563595", url = "https://resolver.caltech.edu/CaltechAUTHORS:EDLal04", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/13485, title ="Influence of chance, history, and adaptation on digital evolution\r\n", author = "Wagenaar, Daniel A. and Adami, Christoph", journal = "Artificial Life", volume = "10", number = "2", pages = "181-190", month = "March", year = "2004", doi = "https://doi.org/10.1162/106454604773563603", url = "https://resolver.caltech.edu/CaltechAUTHORS:WAGal04", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/12381, title ="Experiments in Digital Evolution (Editors’ Introduction to the Special Issue)", author = "Adami, Christoph and Wilke, Claus O.", journal = "Artificial Life", volume = "10", number = "2", pages = "117-122", month = "January", year = "2004", doi = "https://doi.org/10.1162/106454604773563540", url = "https://resolver.caltech.edu/CaltechAUTHORS:ADAal04", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/992, title ="Apparent dependence of protein evolutionary rate on number of interactions is linked to biases in protein–protein interactions data sets", author = "Bloom, Jesse D. and Adami, Christoph", journal = "BMC Evolutionary Biology", volume = "3", pages = "Art. No. 21", month = "October", year = "2003", url = "https://resolver.caltech.edu/CaltechAUTHORS:BLObmceb03", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/56142, title ="The evolutionary origin of complex features", author = "Lenski, Richard E. and Ofria, Charles and Pennock, Robert T. and Adami, Christoph", journal = "Nature", volume = "423", number = "6936", pages = "139-144", month = "May", year = "2003", doi = "https://doi.org/10.1038/nature01568", url = "https://resolver.caltech.edu/CaltechAUTHORS:20150326-134627107", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/994, title ="Compensatory mutations cause excess of antagonistic epistasis in RNA secondary structure folding", author = "Wilke, Claus O. and Lenski, Richard E. and Adami, Christoph", journal = "BMC Evolutionary Biology", volume = "3", pages = "Art. No. 3", month = "February", year = "2003", url = "https://resolver.caltech.edu/CaltechAUTHORS:WILbcmeb03", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/1203, title ="Critical and near-critical branching processes", author = "Adami, Christoph and Chu, Johan", journal = "Physical Review E", volume = "66", number = "1", pages = "Art. No. 011907", month = "July", year = "2002", url = "https://resolver.caltech.edu/CaltechAUTHORS:ADApre02", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/56230, title ="Evolution of digital organisms at high mutation rates leads to survival of the flattest", author = "Wilke, Claus O. and Wang, Jia Lan and Ofria, Charles and Lenski, Richard E. and Adami, Christoph", journal = "Nature", volume = "412", number = "6844", pages = "331-333", month = "July", year = "2001", doi = "https://doi.org/10.1038/35085569", url = "https://resolver.caltech.edu/CaltechAUTHORS:20150331-082348880", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/13564, title ="Open problems in artificial life", author = "Bedau, Mark A. and McCaskill, John S. and Packard, Norman H. and Rasmussen, Steen and Adami, Christoph and Green, David G. and Ikegami, Takashi and Kaneko, Kunihiko and Ray, Thomas S.", journal = "Artificial Life", volume = "6", number = "4", pages = "363-376", month = "September", year = "2000", doi = "https://doi.org/10.1162/106454600300103683", url = "https://resolver.caltech.edu/CaltechAUTHORS:BEDal00", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/51974, title ="Evolution of biological complexity", author = "Adami, Christoph and Ofria, Charles and Collier, Travis C.", journal = "Proceedings of the National Academy of Sciences of the United States of America", volume = "97", number = "9", pages = "4463-4468", month = "April", year = "2000", doi = "https://doi.org/10.1073/pnas.97.9.4463 ", url = "https://resolver.caltech.edu/CaltechAUTHORS:20141119-140034477", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/12383, title ="A Developmental Model for the Evolution of Artificial Neural\r\nNetworks", author = "Astor, J. C. and Adami, C.", journal = "Artificial Life", volume = "6", number = "3", pages = "189-218", month = "January", year = "2000", doi = "https://doi.org/10.1162/106454600568834", url = "https://resolver.caltech.edu/CaltechAUTHORS:ASTal00", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/52161, title ="A simple explanation for taxon abundance patterns", author = "Chu, Johan and Adami, Christoph", journal = "Proceedings of the National Academy of Sciences of the United States of America", volume = "96", number = "26", pages = "15017-15019", month = "December", year = "1999", doi = "https://doi.org/10.1073/pnas.96.26.15017", url = "https://resolver.caltech.edu/CaltechAUTHORS:20141125-151625999", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/58280, title ="Genome complexity, robustness and genetic interactions in digital organisms", author = "Lenski, Richard E. and Ofria, Charles and Collier, Travis C. and Adami, Christoph", journal = "Nature", volume = "400", number = "6745", pages = "661-664", month = "August", year = "1999", doi = "https://doi.org/10.1038/23245 ", url = "https://resolver.caltech.edu/CaltechAUTHORS:20150616-101322997", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/2322, title ="Quantum extension of conditional probability", author = "Cerf, N. J. and Adami, C.", journal = "Physical Review A", volume = "60", number = "2", pages = "893-897", month = "August", year = "1999", url = "https://resolver.caltech.edu/CaltechAUTHORS:CERpra99a", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/3289, title ="Reduction criterion for separability", author = "Cerf, N. J. and Adami, C. and Gingrich, R. M.", journal = "Physical Review A", volume = "60", number = "2", pages = "898-909", month = "August", year = "1999", url = "https://resolver.caltech.edu/CaltechAUTHORS:CERpra99b", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/5514, title ="Optical simulation of quantum logic", author = "Cerf, N. J. and Adami, C. and Kwiat, P. G.", journal = "Physical Review A", volume = "57", number = "3", pages = "R1477-R1480", month = "March", year = "1998", url = "https://resolver.caltech.edu/CaltechAUTHORS:CERpra98a", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/5512, title ="Negative Entropy and Information in Quantum Mechanics", author = "Cerf, N. J. and Adami, C.", journal = "Physical Review Letters", volume = "79", number = "26", pages = "5194-5197", month = "December", year = "1997", url = "https://resolver.caltech.edu/CaltechAUTHORS:CERprl97", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/5515, title ="Entropic Bell inequalities", author = "Cerf, N. J. and Adami, C.", journal = "Physical Review A", volume = "55", number = "5", pages = "3371-3374", month = "May", year = "1997", url = "https://resolver.caltech.edu/CaltechAUTHORS:CERpra97a", } @article {CaltechAUTHORS_https://authors.library.caltech.edu/id/eprint/66197, title ="Book Review: Modeling Nature with Cellular Automata using Mathenmtica by Richard Gaylord and Kazume Nishidate", author = "Adami, Chris", journal = "ACM SIGSAM Bulletin", volume = "30", number = "3", pages = "24-25", month = "September", year = "1996", url = "https://resolver.caltech.edu/CaltechAUTHORS:20160414-161708428", }