| Year |
Citation |
Score |
| 2021 |
Gamiz-Arco G, Risso VA, Gaucher EA, Gavira JA, Naganathan AN, Ibarra-Molero B, Sanchez-Ruiz JM. Combining Ancestral Reconstruction with Folding-Landscape Simulations to Engineer Heterologous Protein Expression. Journal of Molecular Biology. 433: 167321. PMID 34687715 DOI: 10.1016/j.jmb.2021.167321 |
0.302 |
|
| 2021 |
Knight KA, Coyle CW, Radford CE, Parker ET, Fedanov A, Shields JM, Szlam F, Purchel A, Chen M, Denning G, Sniecinski RM, Lollar P, Spencer HT, Gaucher EA, Doering CB. Identification of coagulation factor IX variants with enhanced activity through ancestral sequence reconstruction. Blood Advances. 5: 3333-3343. PMID 34477814 DOI: 10.1182/bloodadvances.2021004742 |
0.341 |
|
| 2021 |
Zakas PM, Coyle CW, Brehm A, Bayer M, Solecka-Witulska B, Radford CE, Brown C, Nesbitt K, Dwyer C, Kannicht C, Spencer HT, Gaucher EA, Doering CB, Lillicrap D. Molecular coevolution of coagulation factor VIII and von Willebrand factor. Blood Advances. 5: 812-822. PMID 33560395 DOI: 10.1182/bloodadvances.2020002971 |
0.349 |
|
| 2021 |
Selberg AGA, Gaucher EA, Liberles DA. Ancestral Sequence Reconstruction: From Chemical Paleogenetics to Maximum Likelihood Algorithms and Beyond. Journal of Molecular Evolution. PMID 33486547 DOI: 10.1007/s00239-021-09993-1 |
0.614 |
|
| 2019 |
DeLey Cox VE, Cole MF, Gaucher EA. Incorporation of Modified Amino Acids by Engineered Elongation Factors with Expanded Substrate Capabilities. Acs Synthetic Biology. 8: 287-296. PMID 30609889 DOI: 10.1021/acssynbio.8b00305 |
0.646 |
|
| 2018 |
Okafor CD, Pathak MC, Fagan CE, Bauer NC, Cole MF, Gaucher EA, Ortlund EA. Structural and Dynamics Comparison of Thermostability in Ancient, Modern, and Consensus Elongation Factor Tus. Structure (London, England : 1993). 26: 118-129.e3. PMID 29276038 DOI: 10.1016/J.Str.2017.11.018 |
0.684 |
|
| 2017 |
Risso VA, Martinez-Rodriguez S, Candel AM, Krüger DM, Pantoja-Uceda D, Ortega-Muñoz M, Santoyo-Gonzalez F, Gaucher EA, Kamerlin SCL, Bruix M, Gavira JA, Sanchez-Ruiz JM. De novo active sites for resurrected Precambrian enzymes. Nature Communications. 8: 16113. PMID 28719578 DOI: 10.1038/Ncomms16113 |
0.417 |
|
| 2017 |
Kacar B, Ge X, Sanyal S, Gaucher EA. Experimental Evolution of Escherichia coli Harboring an Ancient Translation Protein. Journal of Molecular Evolution. PMID 28233029 DOI: 10.1007/S00239-017-9781-0 |
0.725 |
|
| 2016 |
Zakas PM, Brown HC, Knight K, Meeks SL, Spencer HT, Gaucher EA, Doering CB. Enhancing the pharmaceutical properties of protein drugs by ancestral sequence reconstruction. Nature Biotechnology. PMID 27669166 DOI: 10.1038/Nbt.3677 |
0.436 |
|
| 2016 |
Randall RN, Radford CE, Roof KA, Natarajan DK, Gaucher EA. An experimental phylogeny to benchmark ancestral sequence reconstruction. Nature Communications. 7: 12847. PMID 27628687 DOI: 10.1038/Ncomms12847 |
0.412 |
|
| 2016 |
Tan PK, Farrar JE, Gaucher EA, Miner JN. Coevolution of URAT1 and Uricase during Primate Evolution: Implications for Serum Urate Homeostasis and Gout. Molecular Biology and Evolution. PMID 27352852 DOI: 10.1093/Molbev/Msw116 |
0.346 |
|
| 2016 |
Romero-Romero ML, Risso VA, Martinez-Rodriguez S, Gaucher EA, Ibarra-Molero B, Sanchez-Ruiz JM. Selection for Protein Kinetic Stability Connects Denaturation Temperatures to Organismal Temperatures and Provides Clues to Archaean Life. Plos One. 11: e0156657. PMID 27253436 DOI: 10.1371/Journal.Pone.0156657 |
0.34 |
|
| 2016 |
Zakas PM, Brown HC, Knight KA, Parker ET, Spencer HT, Gaucher EA, Doering CB. 456. Transgene Bioengineering Through Ancestral Protein Reconstruction Molecular Therapy. 24: S181. DOI: 10.1016/S1525-0016(16)33265-8 |
0.446 |
|
| 2015 |
Cox VE, Gaucher EA. Molecular Evolution Directs Protein Translation Using Unnatural Amino Acids. Current Protocols in Chemical Biology. 7: 223-8. PMID 26629613 DOI: 10.1002/9780470559277.Ch150115 |
0.409 |
|
| 2015 |
Risso VA, Manssour-Triedo F, Delgado-Delgado A, Arco R, Barroso-delJesus A, Ingles-Prieto A, Godoy-Ruiz R, Gavira JA, Gaucher EA, Ibarra-Molero B, Sanchez-Ruiz JM. Mutational studies on resurrected ancestral proteins reveal conservation of site-specific amino acid preferences throughout evolutionary history. Molecular Biology and Evolution. 32: 440-55. PMID 25392342 DOI: 10.1093/Molbev/Msu312 |
0.421 |
|
| 2015 |
Zakas P, Knight K, Parker ET, Spencer HT, Gaucher E, Doering CB. Bioengineering Coagulation Factor VIII through Ancestral Protein Reconstruction Blood. 126: 123-123. DOI: 10.1182/Blood.V126.23.123.123 |
0.445 |
|
| 2014 |
Cox VE, Gaucher EA. Engineering proteins by reconstructing evolutionary adaptive paths Methods in Molecular Biology. 1179: 353-363. PMID 25055790 DOI: 10.1007/978-1-4939-1053-3_24 |
0.487 |
|
| 2014 |
Risso VA, Gavira JA, Gaucher EA, Sanchez-Ruiz JM. Phenotypic comparisons of consensus variants versus laboratory resurrections of Precambrian proteins Proteins: Structure, Function and Bioinformatics. 82: 887-896. PMID 24710963 DOI: 10.1002/Prot.24575 |
0.448 |
|
| 2014 |
Veleva-Rotse BO, Smart JL, Baas AF, Edmonds B, Zhao ZM, Brown A, Klug LR, Hansen K, Reilly G, Gardner AP, Subbiah K, Gaucher EA, Clevers H, Barnes AP. STRAD pseudokinases regulate axogenesis and LKB1 stability. Neural Development. 9: 5. PMID 24594058 DOI: 10.1186/1749-8104-9-5 |
0.511 |
|
| 2014 |
Kratzer JT, Lanaspa MA, Murphy MN, Cicerchi C, Graves CL, Tipton PA, Ortlund EA, Johnson RJ, Gaucher EA. Evolutionary history and metabolic insights of ancient mammalian uricases Proceedings of the National Academy of Sciences of the United States of America. 111: 3763-3768. PMID 24550457 DOI: 10.1073/Pnas.1320393111 |
0.77 |
|
| 2013 |
Ingles-Prieto A, Ibarra-Molero B, Delgado-Delgado A, Perez-Jimenez R, Fernandez JM, Gaucher EA, Sanchez-Ruiz JM, Gavira JA. Conservation of protein structure over four billion years Structure. 21: 1690-1697. PMID 23932589 DOI: 10.1016/J.Str.2013.06.020 |
0.388 |
|
| 2013 |
Kaçar B, Gaucher EA. Experimental evolution of protein-protein interaction networks Biochemical Journal. 453: 311-319. PMID 23849056 DOI: 10.1042/Bj20130205 |
0.688 |
|
| 2013 |
Laos R, Shaw R, Leal NA, Gaucher E, Benner S. Directed evolution of polymerases to accept nucleotides with nonstandard hydrogen bond patterns. Biochemistry. 52: 5288-94. PMID 23815560 DOI: 10.1021/Bi400558C |
0.536 |
|
| 2013 |
Cole MF, Cox VE, Gratton KL, Gaucher EA. Reconstructing evolutionary adaptive paths for protein engineering. Methods in Molecular Biology (Clifton, N.J.). 978: 115-25. PMID 23423892 DOI: 10.1007/978-1-62703-293-3_8 |
0.706 |
|
| 2013 |
Risso VA, Gavira JA, Mejia-Carmona DF, Gaucher EA, Sanchez-Ruiz JM. Hyperstability and substrate promiscuity in laboratory resurrections of precambrian β-lactamases Journal of the American Chemical Society. 135: 2899-2902. PMID 23394108 DOI: 10.1021/Ja311630A |
0.437 |
|
| 2013 |
Cacan E, Kratzer JT, Cole MF, Gaucher EA. Interchanging functionality among homologous elongation factors using signatures of heterotachy. Journal of Molecular Evolution. 76: 4-12. PMID 23370546 DOI: 10.1007/S00239-013-9540-9 |
0.674 |
|
| 2013 |
Gromiha MM, Pathak MC, Saraboji K, Ortlund EA, Gaucher EA. Hydrophobic environment is a key factor for the stability of thermophilic proteins Proteins: Structure, Function and Bioinformatics. 81: 715-721. PMID 23319168 DOI: 10.1002/Prot.24232 |
0.359 |
|
| 2012 |
Zhou Y, Asahara H, Gaucher EA, Chong S. Reconstitution of translation from Thermus thermophilus reveals a minimal set of components sufficient for protein synthesis at high temperatures and functional conservation of modern and ancient translation components Nucleic Acids Research. 40: 7932-7945. PMID 22723376 DOI: 10.1093/Nar/Gks568 |
0.364 |
|
| 2012 |
Petrov AS, Bernier CR, Hsiao C, Okafor CD, Tannenbaum E, Stern J, Gaucher E, Schneider D, Hud NV, Harvey SC, Williams LD. RNA-magnesium-protein interactions in large ribosomal subunit. The Journal of Physical Chemistry. B. 116: 8113-20. PMID 22712611 DOI: 10.1021/Jp304723W |
0.302 |
|
| 2012 |
Kaçar B, Gaucher E. Towards the recapitulation of ancient history in the laboratory: Combining synthetic biology with experimental evolution Artificial Life 13: Proceedings of the 13th International Conference On the Simulation and Synthesis of Living Systems, Alife 2012. 11-18. DOI: 10.7551/978-0-262-31050-5-Ch002 |
0.717 |
|
| 2011 |
Zhao ZM, Reynolds AB, Gaucher EA. The evolutionary history of the catenin gene family during metazoan evolution. Bmc Evolutionary Biology. 11: 198. PMID 21740572 DOI: 10.1186/1471-2148-11-198 |
0.526 |
|
| 2011 |
Cole MF, Gaucher EA. Utilizing natural diversity to evolve protein function: applications towards thermostability. Current Opinion in Chemical Biology. 15: 399-406. PMID 21470898 DOI: 10.1016/J.Cbpa.2011.03.005 |
0.709 |
|
| 2011 |
Perez-Jimenez R, Inglés-Prieto A, Zhao ZM, Sanchez-Romero I, Alegre-Cebollada J, Kosuri P, Garcia-Manyes S, Kappock TJ, Tanokura M, Holmgren A, Sanchez-Ruiz JM, Gaucher EA, Fernandez JM. Single-molecule paleoenzymology probes the chemistry of resurrected enzymes. Nature Structural & Molecular Biology. 18: 592-6. PMID 21460845 DOI: 10.1038/Nsmb.2020 |
0.542 |
|
| 2011 |
Cole MF, Gaucher EA. Exploiting models of molecular evolution to efficiently direct protein engineering. Journal of Molecular Evolution. 72: 193-203. PMID 21132281 DOI: 10.1007/S00239-010-9415-2 |
0.71 |
|
| 2011 |
Zhao ZM, Reynolds AB, Gaucher EA. The evolutionary history of the catenin gene family during metazoan evolution Bmc Evolutionary Biology. 11. DOI: 10.1186/1471-2148-11-198 |
0.457 |
|
| 2010 |
Carnahan RH, Rokas A, Gaucher EA, Reynolds AB. The molecular evolution of the p120-catenin subfamily and its functional associations. Plos One. 5: e15747. PMID 21209830 DOI: 10.1371/Journal.Pone.0015747 |
0.348 |
|
| 2010 |
Chen F, Gaucher EA, Leal NA, Hutter D, Havemann SA, Govindarajan S, Ortlund EA, Benner SA. Reconstructed evolutionary adaptive paths give polymerases accepting reversible terminators for sequencing and SNP detection. Proceedings of the National Academy of Sciences of the United States of America. 107: 1948-53. PMID 20080675 DOI: 10.1073/Pnas.0908463107 |
0.757 |
|
| 2010 |
Perez-Jimenez R, Inglés-Prieto A, Sanchez-Romero I, Alegre-Cebollada J, Kosuri P, Garcia-Mañes S, Gaucher E, Sanchez-Ruiz JM, Fernandez JM. Paleoenzymology at the Single-Molecule Level: Probing the Chemistry of Resurrected Enzymes with Force-Clamp Spectroscopy Biophysical Journal. 98: 617a. DOI: 10.1016/J.Bpj.2009.12.3368 |
0.403 |
|
| 2009 |
Perez-Jimenez R, Li J, Kosuri P, Sanchez-Romero I, Wiita AP, Rodriguez-Larrea D, Chueca A, Holmgren A, Miranda-Vizuete A, Becker K, Cho SH, Beckwith J, Gelhaye E, Jacquot JP, Gaucher EA, ... Gaucher E, et al. Diversity of chemical mechanisms in thioredoxin catalysis revealed by single-molecule force spectroscopy. Nature Structural & Molecular Biology. 16: 890-6. PMID 19597482 DOI: 10.1038/Nsmb.1627 |
0.316 |
|
| 2008 |
Johnson RJ, Gaucher EA, Sautin YY, Henderson GN, Angerhofer AJ, Benner SA. The planetary biology of ascorbate and uric acid and their relationship with the epidemic of obesity and cardiovascular disease. Medical Hypotheses. 71: 22-31. PMID 18331782 DOI: 10.1016/J.Mehy.2008.01.017 |
0.512 |
|
| 2008 |
Gaucher EA, Govindarajan S, Ganesh OK. Palaeotemperature trend for Precambrian life inferred from resurrected proteins. Nature. 451: 704-7. PMID 18256669 DOI: 10.1038/Nature06510 |
0.358 |
|
| 2007 |
Benner SA, Sassi SO, Gaucher EA. Molecular paleoscience: systems biology from the past. Advances in Enzymology and Related Areas of Molecular Biology. 75: 1-132, xi. PMID 17124866 DOI: 10.1002/9780471224464.Ch1 |
0.786 |
|
| 2006 |
Li T, Chamberlin SG, Caraco MD, Liberles DA, Gaucher EA, Benner SA. Analysis of transitions at two-fold redundant sites in mammalian genomes. Transition redundant approach-to-equilibrium (TREx) distance metrics. Bmc Evolutionary Biology. 6: 25. PMID 16545144 DOI: 10.1186/1471-2148-6-25 |
0.688 |
|
| 2006 |
Gaucher EA, De Kee DW, Benner SA. Application of DETECTER, an evolutionary genomic tool to analyze genetic variation, to the cystic fibrosis gene family. Bmc Genomics. 7: 44. PMID 16522197 DOI: 10.1186/1471-2164-7-44 |
0.741 |
|
| 2006 |
Phillips SE, Vincent P, Rizzieri KE, Schaaf G, Bankaitis VA, Gaucher EA. The diverse biological functions of phosphatidylinositol transfer proteins in eukaryotes. Critical Reviews in Biochemistry and Molecular Biology. 41: 21-49. PMID 16455519 DOI: 10.1080/10409230500519573 |
0.35 |
|
| 2005 |
Gaucher EA, Miyamoto MM. A call for likelihood phylogenetics even when the process of sequence evolution is heterogeneous Molecular Phylogenetics and Evolution. 37: 928-931. PMID 16291095 DOI: 10.1016/J.Ympev.2005.03.027 |
0.345 |
|
| 2005 |
Thomson JM, Gaucher EA, Burgan MF, De Kee DW, Li T, Aris JP, Benner SA. Resurrecting ancestral alcohol dehydrogenases from yeast. Nature Genetics. 37: 630-5. PMID 15864308 DOI: 10.1038/Ng1553 |
0.692 |
|
| 2004 |
Gaucher EA, Graddy LG, Li T, Simmen RC, Simmen FA, Schreiber DR, Liberles DA, Janis CM, Benner SA. The planetary biology of cytochrome P450 aromatases. Bmc Biology. 2: 19. PMID 15315709 DOI: 10.1186/1741-7007-2-19 |
0.79 |
|
| 2004 |
West CM, Van Der Wel H, Sassi S, Gaucher EA. Cytoplasmic glycosylation of protein-hydroxyproline and its relationship to other glycosylation pathways Biochimica Et Biophysica Acta - General Subjects. 1673: 29-44. PMID 15238247 DOI: 10.1016/J.Bbagen.2004.04.007 |
0.739 |
|
| 2003 |
Gaucher EA, Thomson JM, Burgan MF, Benner SA. Inferring the palaeoenvironment of ancient bacteria on the basis of resurrected proteins. Nature. 425: 285-8. PMID 13679914 DOI: 10.1038/Nature01977 |
0.596 |
|
| 2003 |
Gaucher EA, Miyamoto MM, Benner SA. Evolutionary, structural and biochemical evidence for a new interaction site of the leptin obesity protein. Genetics. 163: 1549-53. PMID 12702697 |
0.472 |
|
| 2002 |
Gaucher EA, Gu X, Miyamoto MM, Benner SA. Predicting functional divergence in protein evolution by site-specific rate shifts. Trends in Biochemical Sciences. 27: 315-21. PMID 12069792 DOI: 10.1016/S0968-0004(02)02094-7 |
0.6 |
|
| 2002 |
Benner SA, Caraco MD, Thomson JM, Gaucher EA. Planetary biology--paleontological, geological, and molecular histories of life. Science (New York, N.Y.). 296: 864-8. PMID 11988562 DOI: 10.1126/Science.1069863 |
0.575 |
|
| 2002 |
Gaucher EA, Das UK, Miyamoto MM, Benner SA. The crystal structure of eEF1A refines the functional predictions of an evolutionary analysis of rate changes among elongation factors. Molecular Biology and Evolution. 19: 569-73. PMID 11919299 DOI: 10.1093/Oxfordjournals.Molbev.A004113 |
0.623 |
|
| 2002 |
West CM, Van Der Wel H, Gaucher EA. Complex glycosylation of Skp1 in Dictyostelium: Implications for the modification of other eukaryotic cytoplasmic and nuclear proteins Glycobiology. 12: 17R-27R. PMID 11886837 DOI: 10.1093/Glycob/12.2.17R |
0.354 |
|
| 2001 |
Benner SA, Gaucher EA. Evolution, language and analogy in functional genomics. Trends in Genetics : Tig. 17: 414-8. PMID 11418223 DOI: 10.1016/S0168-9525(01)02320-4 |
0.532 |
|
| 2001 |
Gaucher EA, Miyamoto MM, Benner SA. Function-structure analysis of proteins using covarion-based evolutionary approaches: Elongation factors. Proceedings of the National Academy of Sciences of the United States of America. 98: 548-52. PMID 11209054 DOI: 10.1073/Pnas.98.2.548 |
0.64 |
|
| 1998 |
Laten HM, Majumdar A, Gaucher EA. SIRE-1, a copia/Ty1 -like retroelement from soybean, encodes a retroviral envelope-like protein Proceedings of the National Academy of Sciences of the United States of America. 95: 6897-6902. PMID 9618510 DOI: 10.1073/Pnas.95.12.6897 |
0.451 |
|
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