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Andrew Robert Joyce - Publications

Affiliations: 
2007 Bioinformatics University of California, San Diego, La Jolla, CA 
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19 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2011 Applebee MK, Joyce AR, Conrad TM, Pettigrew DW, Palsson BØ. Functional and metabolic effects of adaptive glycerol kinase (GLPK) mutants in Escherichia coli. The Journal of Biological Chemistry. 286: 23150-9. PMID 21550976 DOI: 10.1074/Jbc.M110.195305  0.725
2010 Conrad TM, Frazier M, Joyce AR, Cho BK, Knight EM, Lewis NE, Landick R, Palsson BØ. RNA polymerase mutants found through adaptive evolution reprogram Escherichia coli for optimal growth in minimal media. Proceedings of the National Academy of Sciences of the United States of America. 107: 20500-5. PMID 21057108 DOI: 10.1073/Pnas.0911253107  0.773
2009 Conrad TM, Joyce AR, Applebee MK, Barrett CL, Xie B, Gao Y, Palsson BØ. Whole-genome resequencing of Escherichia coli K-12 MG1655 undergoing short-term laboratory evolution in lactate minimal media reveals flexible selection of adaptive mutations. Genome Biology. 10: R118. PMID 19849850 DOI: 10.1186/Gb-2009-10-10-R118  0.742
2009 Gianchandani EP, Joyce AR, Palsson BØ, Papin JA. Functional states of the genome-scale Escherichia coli transcriptional regulatory system. Plos Computational Biology. 5: e1000403. PMID 19503608 DOI: 10.1371/Journal.Pcbi.1000403  0.683
2009 Joyce AR, Palsson B. In Silico Genome-Scale Metabolic Models: The Constraint-Based Approach and Its Applications Systems Biology and Synthetic Biology. 193-233. DOI: 10.1002/9780470437988.ch6  0.492
2008 Joyce AR, Palsson BØ. Predicting gene essentiality using genome-scale in silico models. Methods in Molecular Biology (Clifton, N.J.). 416: 433-57. PMID 18392986 DOI: 10.1007/978-1-59745-321-9_30  0.577
2007 Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, Karp PD, Broadbelt LJ, Hatzimanikatis V, Palsson BØ. A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Molecular Systems Biology. 3: 121. PMID 17593909 DOI: 10.1038/Msb4100155  0.744
2007 Hua Q, Joyce AR, Palsson BØ, Fong SS. Metabolic characterization of Escherichia coli strains adapted to growth on lactate. Applied and Environmental Microbiology. 73: 4639-47. PMID 17513588 DOI: 10.1128/Aem.00527-07  0.693
2007 Joyce AR, Palsson BO. Toward whole cell modeling and simulation: comprehensive functional genomics through the constraint-based approach. Progress in Drug Research. Fortschritte Der Arzneimittelforschung. ProgrèS Des Recherches Pharmaceutiques. 64: 265, 267-309. PMID 17195479 DOI: 10.1007/978-3-7643-7567-6_11  0.537
2006 Reed JL, Patel TR, Chen KH, Joyce AR, Applebee MK, Herring CD, Bui OT, Knight EM, Fong SS, Palsson BO. Systems approach to refining genome annotation. Proceedings of the National Academy of Sciences of the United States of America. 103: 17480-4. PMID 17088549 DOI: 10.1073/Pnas.0603364103  0.708
2006 Herring CD, Raghunathan A, Honisch C, Patel T, Applebee MK, Joyce AR, Albert TJ, Blattner FR, van den Boom D, Cantor CR, Palsson BØ. Comparative genome sequencing of Escherichia coli allows observation of bacterial evolution on a laboratory timescale. Nature Genetics. 38: 1406-12. PMID 17086184 DOI: 10.1038/Ng1906  0.761
2006 Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BØ, Agarwalla S. Experimental and computational assessment of conditionally essential genes in Escherichia coli. Journal of Bacteriology. 188: 8259-71. PMID 17012394 DOI: 10.1128/Jb.00740-06  0.627
2006 Gianchandani EP, Papin JA, Price ND, Joyce AR, Palsson BO. Matrix formalism to describe functional states of transcriptional regulatory systems. Plos Computational Biology. 2: e101. PMID 16895435 DOI: 10.1371/Journal.Pcbi.0020101  0.695
2006 Hua Q, Joyce AR, Fong SS, Palsson BØ. Metabolic analysis of adaptive evolution for in silico-designed lactate-producing strains. Biotechnology and Bioengineering. 95: 992-1002. PMID 16807925 DOI: 10.1002/Bit.21073  0.668
2006 Joyce AR, Palsson BØ. The model organism as a system: integrating 'omics' data sets. Nature Reviews. Molecular Cell Biology. 7: 198-210. PMID 16496022 DOI: 10.1038/Nrm1857  0.48
2006 Allen TE, Price ND, Joyce AR, Palsson BØ. Long-range periodic patterns in microbial genomes indicate significant multi-scale chromosomal organization. Plos Computational Biology. 2: e2. PMID 16410829 DOI: 10.1371/Journal.Pcbi.0020002  0.713
2005 Fong SS, Joyce AR, Palsson BØ. The econometrics of evolution. Nature Chemical Biology. 1: 191-2. PMID 16408032 DOI: 10.1038/Nchembio0905-191  0.646
2005 Fong SS, Joyce AR, Palsson BØ. Parallel adaptive evolution cultures of Escherichia coli lead to convergent growth phenotypes with different gene expression states. Genome Research. 15: 1365-72. PMID 16204189 DOI: 10.1101/Gr.3832305  0.668
2001 Vrana PB, Matteson PG, Schmidt JV, Ingram RS, Joyce A, Prince KL, Dewey MJ, Tilghman SM. Genomic imprinting of a placental lactogen gene in Peromyscus. Development Genes and Evolution. 211: 523-32. PMID 11862458 DOI: 10.1007/S00427-001-0188-X  0.396
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