Ichiro Matsumura - Publications

Affiliations: 
Emory University, Atlanta, GA 
Area:
Biochemistry, Molecular Biology

38 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
2020 Matsumura I. Methylase-assisted subcloning for high throughput BioBrick assembly. Peerj. 8: e9841. PMID 32974095 DOI: 10.7717/Peerj.9841  0.331
2020 Matsumura I, Chyong D. Statistical noise from recombinant plasmids can be abated via complementation of a ribosomal protein gene deletion. Protein Engineering, Design & Selection : Peds. PMID 32328658 DOI: 10.1093/Protein/Gzaa007  0.372
2017 Matsumura I. Semi-automated Tip Snip cloning of restriction fragments into and out of plasmid polylinkers. Biotechniques. 62: 99-106. PMID 28298176 DOI: 10.2144/000114522  0.354
2015 Matsumura I. Why Johnny can't clone: Common pitfalls and not so common solutions. Biotechniques. 59: IV-XIII. PMID 26345511 DOI: 10.2144/000114324  0.386
2014 Blanchard K, Robic S, Matsumura I. Transformable facultative thermophile Geobacillus stearothermophilus NUB3621 as a host strain for metabolic engineering. Applied Microbiology and Biotechnology. 98: 6715-23. PMID 24788326 DOI: 10.1007/S00253-014-5746-Z  0.357
2014 Falls KC, Williams AL, Bryksin AV, Matsumura I. Escherichia coli deletion mutants illuminate trade-offs between growth rate and flux through a foreign anabolic pathway. Plos One. 9: e88159. PMID 24505410 DOI: 10.1371/Journal.Pone.0088159  0.359
2013 Kramer JR, Matsumura I. Directed evolution of aminoglycoside phosphotransferase (3') type IIIa variants that inactivate amikacin but impose significant fitness costs. Plos One. 8: e76687. PMID 24204655 DOI: 10.1371/Journal.Pone.0076687  0.438
2013 Bryksin A, Matsumura I. Overlap extension PCR cloning. Methods in Molecular Biology (Clifton, N.J.). 1073: 31-42. PMID 23996437 DOI: 10.1007/978-1-62703-625-2_4  0.369
2013 Yip SH, Matsumura I. Substrate ambiguous enzymes within the Escherichia coli proteome offer different evolutionary solutions to the same problem. Molecular Biology and Evolution. 30: 2001-12. PMID 23728795 DOI: 10.1093/Molbev/Mst105  0.442
2012 Ivanov A, Matsumura I. The adenosine deaminases of Plasmodium vivax and Plasmodium falciparum exhibit surprising differences in ligand specificity. Journal of Molecular Graphics & Modelling. 35: 43-8. PMID 22481078 DOI: 10.1016/J.Jmgm.2012.02.004  0.306
2012 Murin CD, Segal K, Bryksin A, Matsumura I. Expression vectors for Acinetobacter baylyi ADP1. Applied and Environmental Microbiology. 78: 280-3. PMID 22020504 DOI: 10.1128/Aem.05597-11  0.315
2010 Bryksin AV, Matsumura I. Overlap extension PCR cloning: a simple and reliable way to create recombinant plasmids. Biotechniques. 48: 463-5. PMID 20569222 DOI: 10.2144/000113418  0.401
2009 Matsumura I, Ivanov AA. How evolving enzymes can beat the heat and avoid defeat. Nature Chemical Biology. 5: 538-9. PMID 19620993 DOI: 10.1038/Nchembio0809-538  0.391
2008 Patrick WM, Matsumura I. A study in molecular contingency: glutamine phosphoribosylpyrophosphate amidotransferase is a promiscuous and evolvable phosphoribosylanthranilate isomerase. Journal of Molecular Biology. 377: 323-36. PMID 18272177 DOI: 10.1016/J.Jmb.2008.01.043  0.45
2007 Patrick WM, Quandt EM, Swartzlander DB, Matsumura I. Multicopy suppression underpins metabolic evolvability. Molecular Biology and Evolution. 24: 2716-22. PMID 17884825 DOI: 10.1093/Molbev/Msm204  0.397
2007 Geddie ML, Matsumura I. Antibody-induced oligomerization and activation of an engineered reporter enzyme. Journal of Molecular Biology. 369: 1052-9. PMID 17467736 DOI: 10.1016/J.Jmb.2007.03.076  0.724
2007 Greene DN, Whitney SM, Matsumura I. Artificially evolved Synechococcus PCC6301 Rubisco variants exhibit improvements in folding and catalytic efficiency. The Biochemical Journal. 404: 517-24. PMID 17391103 DOI: 10.1042/Bj20070071  0.39
2006 Polizzi KM, Parikh M, Spencer CU, Matsumura I, Lee JH, Realff MJ, Bommarius AS. Pooling for improved screening of combinatorial libraries for directed evolution. Biotechnology Progress. 22: 961-7. PMID 16889370 DOI: 10.1021/Bp060099Z  0.46
2006 O'Loughlin TL, Patrick WM, Matsumura I. Natural history as a predictor of protein evolvability. Protein Engineering, Design & Selection : Peds. 19: 439-42. PMID 16868005 DOI: 10.1093/Protein/Gzl029  0.447
2006 O'Loughlin TL, Matsumura I. HIV protease-activated molecular switches based on beta-glucuronidase and alkaline phosphatase. Combinatorial Chemistry & High Throughput Screening. 9: 313-20. PMID 16724922 DOI: 10.2174/138620706776843219  0.444
2006 O'Loughlin TL, Greene DN, Matsumura I. Diversification and specialization of HIV protease function during in vitro evolution. Molecular Biology and Evolution. 23: 764-72. PMID 16423863 DOI: 10.1093/Molbev/Msj098  0.461
2006 Parikh MR, Greene DN, Woods KK, Matsumura I. Directed evolution of RuBisCO hypermorphs through genetic selection in engineered E.coli. Protein Engineering, Design & Selection : Peds. 19: 113-9. PMID 16423843 DOI: 10.1093/Protein/Gzj010  0.441
2005 Polizzi KM, Spencer CU, Dubey A, Matsumura I, Lee JH, Realff MJ, Bommarius AS. Simulation modeling of pooling for combinatorial protein engineering. Journal of Biomolecular Screening. 10: 856-64. PMID 16234344 DOI: 10.1177/1087057105280134  0.453
2005 Geddie ML, O'Loughlin TL, Woods KK, Matsumura I. Rational design of p53, an intrinsically unstructured protein, for the fabrication of novel molecular sensors. The Journal of Biological Chemistry. 280: 35641-6. PMID 16118206 DOI: 10.1074/Jbc.M508149200  0.735
2005 Parikh MR, Matsumura I. Site-saturation mutagenesis is more efficient than DNA shuffling for the directed evolution of beta-fucosidase from beta-galactosidase. Journal of Molecular Biology. 352: 621-8. PMID 16095606 DOI: 10.1016/J.Jmb.2005.07.020  0.482
2005 Matsumura I, Rowe LA. Whole plasmid mutagenic PCR for directed protein evolution. Biomolecular Engineering. 22: 73-9. PMID 15857786 DOI: 10.1016/J.Bioeng.2004.10.004  0.512
2004 Geddie ML, Rowe LA, Alexander OB, Matsumura I. High throughput microplate screens for directed protein evolution. Methods in Enzymology. 388: 134-45. PMID 15289067 DOI: 10.1016/S0076-6879(04)88012-1  0.711
2004 Geddie ML, Matsumura I. Rapid evolution of beta-glucuronidase specificity by saturation mutagenesis of an active site loop. The Journal of Biological Chemistry. 279: 26462-8. PMID 15069062 DOI: 10.1074/Jbc.M401447200  0.749
2003 Rowe LA, Geddie ML, Alexander OB, Matsumura I. A comparison of directed evolution approaches using the beta-glucuronidase model system. Journal of Molecular Biology. 332: 851-60. PMID 12972256 DOI: 10.1016/S0022-2836(03)00972-0  0.736
2002 Matsumura I, Ellington AD. Mutagenic polymerase chain reaction of protein-coding genes for in vitro evolution. Methods in Molecular Biology (Clifton, N.J.). 182: 259-67. PMID 11768971 DOI: 10.1385/1-59259-194-9:259  0.465
2001 Matsumura I, Olsen MJ, Ellington AD. Optimization of heterologous gene expression for in vitro evolution. Biotechniques. 30: 474-6. PMID 11252780 DOI: 10.2144/01303Bm01  0.437
2001 Matsumura I, Ellington AD. In vitro evolution of beta-glucuronidase into a beta-galactosidase proceeds through non-specific intermediates. Journal of Molecular Biology. 305: 331-9. PMID 11124909 DOI: 10.1006/Jmbi.2000.4259  0.61
1999 Matsumura I, Wallingford JB, Surana NK, Vize PD, Ellington AD. Directed evolution of the surface chemistry of the reporter enzyme β- glucuronidase Nature Biotechnology. 17: 696-701. PMID 10404164 DOI: 10.1038/10910  0.589
1999 Matsumura I, Ellington AD. In vitro evolution of thermostable p53 variants. Protein Science : a Publication of the Protein Society. 8: 731-40. PMID 10211819 DOI: 10.1110/Ps.8.4.731  0.549
1998 Osborne SE, Matsumura I, Ellington AD. Aptamers as therapeutic and diagnostic reagents: problems and prospects. Current Opinion in Chemical Biology. 1: 5-9. PMID 9667829 DOI: 10.1016/S1367-5931(97)80102-0  0.447
1998 Matsumura I, Ellington AD. DNA shuffling brightens prospects for GFP. Nature Biotechnology. 14: 366. PMID 9630902 DOI: 10.1038/Nbt0396-366  0.488
1996 Matsumura I, Kirsch JF. Synergistic contributions of asparagine 46 and aspartate 52 to the catalytic mechanism of chicken egg white lysozyme. Biochemistry. 35: 1890-6. PMID 8639671 DOI: 10.1021/Bi951672I  0.527
1996 Matsumura I, Kirsch JF. Is aspartate 52 essential for catalysis by chicken egg white lysozyme? The role of natural substrate-assisted hydrolysis. Biochemistry. 35: 1881-9. PMID 8639670 DOI: 10.1021/Bi951671Q  0.567
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