| Year |
Citation |
Score |
| 2024 |
Wang B, Rocca JR, Hoshika S, Chen C, Yang Z, Esmaeeli R, Wang J, Pan X, Lu J, Wang KK, Cao YC, Tan W, Benner SA. A folding motif formed with an expanded genetic alphabet. Nature Chemistry. PMID 38858518 DOI: 10.1038/s41557-024-01552-7 |
0.41 |
|
| 2024 |
Wang B, Kobeissy F, Golpich M, Cai G, Li X, Abedi R, Haskins W, Tan W, Benner SA, Wang KKW. Aptamer Technologies in Neuroscience, Neuro-Diagnostics and Neuro-Medicine Development. Molecules (Basel, Switzerland). 29. PMID 38474636 DOI: 10.3390/molecules29051124 |
0.336 |
|
| 2024 |
Wang B, Pan X, Teng IT, Li X, Kobeissy F, Wu ZY, Zhu J, Cai G, Yan H, Yan X, Liang M, Yu F, Lu J, Yang Z, Biondi E, ... ... Benner SA, et al. Functional Selection of Tau Oligomerization-Inhibiting Aptamers. Angewandte Chemie (International Ed. in English). e202402007. PMID 38407551 DOI: 10.1002/anie.202402007 |
0.301 |
|
| 2022 |
Jerome CA, Hoshika S, Bradley KM, Benner SA, Biondi E. In vitro evolution of ribonucleases from expanded genetic alphabets. Proceedings of the National Academy of Sciences of the United States of America. 119: e2208261119. PMID 36279447 DOI: 10.1073/pnas.2208261119 |
0.305 |
|
| 2020 |
Ganguly A, Weissman BP, Giese TJ, Li NS, Hoshika S, Rao S, Benner SA, Piccirilli JA, York DM. Confluence of theory and experiment reveals the catalytic mechanism of the Varkud satellite ribozyme. Nature Chemistry. PMID 31959957 DOI: 10.1038/S41557-019-0391-X |
0.573 |
|
| 2019 |
Zumrut H, Yang Z, Williams N, Arizala JDR, Batool S, Benner S, Mallikaratchy P. Ligand Guided Selection (LIGS) with Artificially Expanded Genetic Information Systems against TCR-CD3ε. Biochemistry. PMID 31880917 DOI: 10.1021/Acs.Biochem.9B00919 |
0.326 |
|
| 2019 |
Benner SA, Kim HJ, Biondi E. Prebiotic Chemistry that Could Not Have Happened. Life (Basel, Switzerland). 9. PMID 31739415 DOI: 10.3390/Life9040084 |
0.316 |
|
| 2019 |
Zhang L, Wang S, Yang Z, Hoshika S, Xie S, Li J, Chen X, Wan S, Li L, Benner SA, Tan W. An Aptamer-Nanotrain Assembled from 6-Letter DNA Delivers Doxorubicin Selectively to Liver Cancer Cells. Angewandte Chemie (International Ed. in English). PMID 31650689 DOI: 10.1002/Anie.201909691 |
0.65 |
|
| 2019 |
Hoshika S, Leal NA, Kim MJ, Kim MS, Karalkar NB, Kim HJ, Bates AM, Watkins NE, SantaLucia HA, Meyer AJ, DasGupta S, Piccirilli JA, Ellington AD, SantaLucia J, Georgiadis MM, ... Benner SA, et al. Hachimoji DNA and RNA: A genetic system with eight building blocks. Science (New York, N.Y.). 363: 884-887. PMID 30792304 DOI: 10.1126/Science.Aat0971 |
0.802 |
|
| 2019 |
Laos R, Lampropoulos C, Benner SA. The surprising pairing of 2-aminoimidazo[1,2-a][1,3,5]triazin-4-one, a component of an expanded DNA alphabet. Acta Crystallographica. Section C, Structural Chemistry. 75: 22-28. PMID 30601127 DOI: 10.1107/S2053229618016923 |
0.339 |
|
| 2018 |
Ziegler EW, Kim HJ, Benner SA. Molybdenum(VI)-Catalyzed Rearrangement of Prebiotic Carbohydrates in Formamide, a Candidate Prebiotic Solvent. Astrobiology. 18: 1159-1170. PMID 30204496 DOI: 10.1089/Ast.2017.1742 |
0.314 |
|
| 2018 |
Hoshika S, Singh I, Switzer C, Molt RW, Leal NA, Kim MJ, Kim MS, Kim HJ, Georgiadis MM, Benner SA. "Skinny" and "Fat" DNA: Two New Double Helices. Journal of the American Chemical Society. PMID 30148365 DOI: 10.1021/Jacs.8B05042 |
0.674 |
|
| 2018 |
Karalkar NB, Benner SA. The challenge of synthetic biology. Synthetic Darwinism and the aperiodic crystal structure. Current Opinion in Chemical Biology. 46: 188-195. PMID 30098527 DOI: 10.1016/J.Cbpa.2018.07.008 |
0.323 |
|
| 2018 |
Singh I, Laos R, Hoshika S, Benner SA, Georgiadis MM. Snapshots of an evolved DNA polymerase pre- and post-incorporation of an unnatural nucleotide. Nucleic Acids Research. PMID 29986111 DOI: 10.1093/Nar/Gky552 |
0.336 |
|
| 2018 |
Yang Z, Kim HJ, Le JT, McLendon C, Bradley KM, Kim MS, Hutter D, Hoshika S, Yaren O, Benner SA. Nucleoside analogs to manage sequence divergence in nucleic acid amplification and SNP detection. Nucleic Acids Research. PMID 29800323 DOI: 10.1093/Nar/Gky392 |
0.315 |
|
| 2018 |
Biondi E, Benner SA. Artificially Expanded Genetic Information Systems for New Aptamer Technologies. Biomedicines. 6. PMID 29747381 DOI: 10.3390/Biomedicines6020053 |
0.354 |
|
| 2018 |
Koirala D, Shelke SA, Dupont M, Ruiz S, DasGupta S, Bailey LJ, Benner SA, Piccirilli JA. Affinity maturation of a portable Fab-RNA module for chaperone-assisted RNA crystallography. Nucleic Acids Research. PMID 29309709 DOI: 10.1093/Nar/Gkx1292 |
0.781 |
|
| 2018 |
Benner S. Uniting Natural History with the Molecular Sciences. The Ultimate Multidisciplinarity. Accounts of Chemical Research. 50: 498-502. PMID 28945399 DOI: 10.1021/Acs.Accounts.6B00496 |
0.303 |
|
| 2017 |
Kim HJ, Benner SA. A Direct Prebiotic Synthesis of Nicotinamide Nucleotide. Chemistry (Weinheim An Der Bergstrasse, Germany). PMID 29194806 DOI: 10.1002/Chem.201705394 |
0.333 |
|
| 2017 |
Kim HJ, Benner SA. Prebiotic stereoselective synthesis of purine and noncanonical pyrimidine nucleotide from nucleobases and phosphorylated carbohydrates. Proceedings of the National Academy of Sciences of the United States of America. 114: 11315-11320. PMID 29073050 DOI: 10.1073/Pnas.1710778114 |
0.348 |
|
| 2017 |
Singh I, Kim MJ, Molt RW, Hoshika S, Benner SA, Georgiadis MM. Structure and Biophysics for a Six Letter DNA Alphabet that Includes Imidazo[1,2-a]-1,3,5-triazine-2(8H)-4(3H)-dione (X) and 2,4-Diaminopyrimidine (K). Acs Synthetic Biology. PMID 28752992 DOI: 10.1021/Acssynbio.7B00150 |
0.31 |
|
| 2017 |
Karalkar NB, Khare K, Molt R, Benner SA. Tautomeric equilibria of iso-guanine and related purine analogs. Nucleosides, Nucleotides & Nucleic Acids. 1-19. PMID 28332916 DOI: 10.1080/15257770.2016.1268694 |
0.308 |
|
| 2017 |
Chen F, Zhang Y, Daugherty AB, Yang Z, Shaw R, Dong M, Lutz S, Benner SA. Biological phosphorylation of an Unnatural Base Pair (UBP) using a Drosophila melanogaster deoxynucleoside kinase (DmdNK) mutant. Plos One. 12: e0174163. PMID 28323896 DOI: 10.1371/Journal.Pone.0174163 |
0.777 |
|
| 2017 |
Wang X, Hoshika S, Peterson RJ, Kim MJ, Benner SA, Kahn JD. The Biophysics of Artificially Expanded Genetic Information Systems. Thermodynamics of DNA Duplexes Containing Matches and Mismatches Involving 2-Amino-3-nitropyridin-6-one (Z) and Imidazo[1,2-a]-1,3,5-triazin-4(8H)one (P). Acs Synthetic Biology. PMID 28094993 DOI: 10.1021/Acssynbio.6B00224 |
0.33 |
|
| 2016 |
Matsuura MF, Winiger CB, Shaw RW, Kim MJ, Kim MS, Daugherty AB, Chen F, Moussatche P, Moses JD, Lutz S, Benner SA. A Single Deoxynucleoside Kinase Variant from Drosophila melanogaster Synthesizes Monophosphates of Nucleosides That Are Components of an Expanded Genetic System. Acs Synthetic Biology. PMID 27935283 DOI: 10.1021/Acssynbio.6B00228 |
0.786 |
|
| 2016 |
Matsuura MF, Kim HJ, Takahashi D, Abboud KA, Benner SA. Crystal structures of deprotonated nucleobases from an expanded DNA alphabet. Acta Crystallographica. Section C, Structural Chemistry. 72: 952-959. PMID 27918296 DOI: 10.1107/S2053229616017071 |
0.352 |
|
| 2016 |
Biondi E, Lane JD, Das D, Dasgupta S, Piccirilli JA, Hoshika S, Bradley KM, Krantz BA, Benner SA. Laboratory evolution of artificially expanded DNA gives redesignable aptamers that target the toxic form of anthrax protective antigen. Nucleic Acids Research. PMID 27701076 DOI: 10.1093/Nar/Gkw890 |
0.799 |
|
| 2016 |
Benner SA, Karalkar NB, Hoshika S, Laos R, Shaw RW, Matsuura M, Fajardo D, Moussatche P. Alternative Watson-Crick Synthetic Genetic Systems. Cold Spring Harbor Perspectives in Biology. PMID 27663774 DOI: 10.1101/Cshperspect.A023770 |
0.346 |
|
| 2016 |
Zhang L, Yang Z, Le Trinh T, Teng IT, Wang S, Bradley KM, Hoshika S, Wu Q, Cansiz S, Rowold DJ, McLendon C, Kim MS, Wu Y, Cui C, Liu Y, ... ... Benner SA, et al. Aptamers against Cells Overexpressing Glypican 3 from Expanded Genetic Systems Combined with Cell Engineering and Laboratory Evolution. Angewandte Chemie (International Ed. in English). PMID 27601357 DOI: 10.1002/Anie.201605058 |
0.636 |
|
| 2016 |
Yaren O, Bradley KM, Moussatche P, Hoshika S, Yang Z, Zhu S, Karst SM, Benner SA. A Norovirus Detection Architecture Based on Isothermal Amplification and Expanded Genetic Systems. Journal of Virological Methods. PMID 27546345 DOI: 10.1016/J.Jviromet.2016.08.012 |
0.349 |
|
| 2016 |
Yaren O, Glushakova LG, Bradley KM, Hoshika S, Benner SA. Standard and AEGIS nicking molecular beacons detect amplicons from the Middle East respiratory syndrome coronavirus. Journal of Virological Methods. 236: 54-61. PMID 27421627 DOI: 10.1016/J.Jviromet.2016.07.008 |
0.33 |
|
| 2016 |
Winiger CB, Kim MJ, Hoshika S, Shaw RW, Moses JD, Matsuura MF, Gerloff DL, Benner SA. Polymerase Interactions with Wobble Mismatches in Synthetic Genetic Systems and their Evolutionary Implications. Biochemistry. PMID 27347689 DOI: 10.1021/Acs.Biochem.6B00533 |
0.378 |
|
| 2016 |
Karalkar NB, Leal NA, Kim MS, Bradley KM, Benner SA. Synthesis and Enzymology of 2'-Deoxy-7-deazaisoguanosine Triphosphate and Its Complement: A Second Generation Pair in an Artificially Expanded Genetic Information System. Acs Synthetic Biology. PMID 26914388 DOI: 10.1021/Acssynbio.5B00276 |
0.336 |
|
| 2016 |
Matsuura MF, Shaw RW, Moses JD, Kim HJ, Kim MJ, Kim MS, Hoshika S, Karalkar N, Benner SA. Assays To Detect the Formation of Triphosphates of Unnatural Nucleotides: Application to Escherichia coli Nucleoside Diphosphate Kinase. Acs Synthetic Biology. PMID 26829203 DOI: 10.1021/Acssynbio.5B00172 |
0.341 |
|
| 2015 |
Scharf C, Virgo N, Cleaves HJ, Aono M, Aubert-Kato N, Aydinoglu A, Barahona A, Barge LM, Benner SA, Biehl M, Brasser R, Butch CJ, Chandru K, Cronin L, Danielache S, et al. A Strategy for Origins of Life Research. Astrobiology. 15: 1031-42. PMID 26684503 DOI: 10.1089/Ast.2015.1113 |
0.617 |
|
| 2015 |
Glushakova LG, Sharma N, Hoshika S, Bradley AC, Bradley KM, Yang Z, Benner SA. Detecting respiratory viral RNA using expanded genetic alphabets and self-avoiding DNA. Analytical Biochemistry. 489: 62-72. PMID 26299645 DOI: 10.1016/J.Ab.2015.08.015 |
0.323 |
|
| 2015 |
Hernandez AR, Shao Y, Hoshika S, Yang Z, Shelke SA, Herrou J, Kim HJ, Kim MJ, Piccirilli JA, Benner SA. A Crystal Structure of a Functional RNA Molecule Containing an Artificial Nucleobase Pair. Angewandte Chemie (International Ed. in English). PMID 26223188 DOI: 10.1002/Anie.201504731 |
0.589 |
|
| 2015 |
Zhang L, Yang Z, Sefah K, Bradley KM, Hoshika S, Kim MJ, Kim HJ, Zhu G, Jiménez E, Cansiz S, Teng IT, Champanhac C, McLendon C, Liu C, Zhang W, ... ... Benner SA, et al. Evolution of functional six-nucleotide DNA. Journal of the American Chemical Society. 137: 6734-7. PMID 25966323 DOI: 10.1021/Jacs.5B02251 |
0.673 |
|
| 2015 |
Georgiadis MM, Singh I, Kellett WF, Hoshika S, Benner SA, Richards NG. Structural basis for a six nucleotide genetic alphabet. Journal of the American Chemical Society. 137: 6947-55. PMID 25961938 DOI: 10.1021/Jacs.5B03482 |
0.363 |
|
| 2015 |
Yang Z, McLendon C, Hutter D, Bradley KM, Hoshika S, Frye CB, Benner SA. Helicase-Dependent Isothermal Amplification of DNA and RNA by Using Self-Avoiding Molecular Recognition Systems. Chembiochem : a European Journal of Chemical Biology. 16: 1365-70. PMID 25953623 DOI: 10.1002/Cbic.201500135 |
0.332 |
|
| 2015 |
Kim HJ, Benner SA. Prebiotic glycosylation of uracil with electron-donating substituents. Astrobiology. 15: 301-6. PMID 25860300 DOI: 10.1089/Ast.2014.1264 |
0.308 |
|
| 2015 |
McLendon C, Opalko FJ, Illangkoon HI, Benner SA. Solubility of polyethers in hydrocarbons at low temperatures. A model for potential genetic backbones on warm titans. Astrobiology. 15: 200-6. PMID 25761113 DOI: 10.1089/ast.2014.1212 |
0.764 |
|
| 2015 |
Glushakova LG, Bradley A, Bradley KM, Alto BW, Hoshika S, Hutter D, Sharma N, Yang Z, Kim MJ, Benner SA. High-throughput multiplexed xMAP Luminex array panel for detection of twenty two medically important mosquito-borne arboviruses based on innovations in synthetic biology. Journal of Virological Methods. 214: 60-74. PMID 25680538 DOI: 10.1016/J.Jviromet.2015.01.003 |
0.311 |
|
| 2015 |
Leal NA, Kim HJ, Hoshika S, Kim MJ, Carrigan MA, Benner SA. Transcription, reverse transcription, and analysis of RNA containing artificial genetic components. Acs Synthetic Biology. 4: 407-13. PMID 25137127 DOI: 10.1021/Sb500268N |
0.364 |
|
| 2015 |
Benner SA, Kim HJ. The case for a Martian origin for Earth life Proceedings of Spie - the International Society For Optical Engineering. 9606. DOI: 10.1117/12.2192890 |
0.322 |
|
| 2015 |
Benner SA, Kim HJ, Merritt KB, Yang Z, McLendon DC, Hoshika S, Hutter D. Next-generation DNA in pathogen detection, surveillance, and CLIA-waivable diagnostics Proceedings of Spie - the International Society For Optical Engineering. 9490. DOI: 10.1117/12.2183481 |
0.357 |
|
| 2015 |
Wang X, Sharp KK, Hoshika S, Bellaousov S, Zhang X, Mathews DH, Benner SA, Peterson RJ, Kahn JD. Structure and Thermodynamics of Aegis Nucleotides P and Z in DNA Biophysical Journal. 108: 395a. DOI: 10.1016/J.Bpj.2014.11.2165 |
0.326 |
|
| 2015 |
Hernandez AR, Shao Y, Hoshika S, Yang Z, Shelke SA, Herrou J, Kim H, Kim M, Piccirilli JA, Benner SA. Inside Back Cover: A Crystal Structure of a Functional RNA Molecule Containing an Artificial Nucleobase Pair (Angew. Chem. Int. Ed. 34/2015) Angewandte Chemie International Edition. 54: 10035-10035. DOI: 10.1002/Anie.201506280 |
0.558 |
|
| 2015 |
Hernandez AR, Shao Y, Hoshika S, Yang Z, Shelke SA, Herrou J, Kim H, Kim M, Piccirilli JA, Benner SA. Innenrücktitelbild: A Crystal Structure of a Functional RNA Molecule Containing an Artificial Nucleobase Pair (Angew. Chem. 34/2015) Angewandte Chemie. 127: 10173-10173. DOI: 10.1002/Ange.201506280 |
0.559 |
|
| 2014 |
Laos R, Thomson JM, Benner SA. DNA polymerases engineered by directed evolution to incorporate non-standard nucleotides. Frontiers in Microbiology. 5: 565. PMID 25400626 DOI: 10.3389/Fmicb.2014.00565 |
0.382 |
|
| 2014 |
Merritt KK, Bradley KM, Hutter D, Matsuura MF, Rowold DJ, Benner SA. Autonomous assembly of synthetic oligonucleotides built from an expanded DNA alphabet. Total synthesis of a gene encoding kanamycin resistance. Beilstein Journal of Organic Chemistry. 10: 2348-60. PMID 25383105 DOI: 10.3762/Bjoc.10.245 |
0.353 |
|
| 2014 |
Sharma N, Hoshika S, Hutter D, Bradley KM, Benner SA. Recombinase-based isothermal amplification of nucleic acids with self-avoiding molecular recognition systems (SAMRS). Chembiochem : a European Journal of Chemical Biology. 15: 2268-74. PMID 25209570 DOI: 10.1002/Cbic.201402250 |
0.351 |
|
| 2014 |
Bradley KM, Benner SA. OligArch: A software tool to allow artificially expanded genetic information systems (AEGIS) to guide the autonomous self-assembly of long DNA constructs from multiple DNA single strands. Beilstein Journal of Organic Chemistry. 10: 1826-33. PMID 25161743 DOI: 10.3762/Bjoc.10.192 |
0.346 |
|
| 2014 |
Kim HJ, Leal NA, Hoshika S, Benner SA. Ribonucleosides for an artificially expanded genetic information system. The Journal of Organic Chemistry. 79: 3194-9. PMID 24597611 DOI: 10.1021/Jo402665D |
0.361 |
|
| 2014 |
Sefah K, Yang Z, Bradley KM, Hoshika S, Jiménez E, Zhang L, Zhu G, Shanker S, Yu F, Turek D, Tan W, Benner SA. In vitro selection with artificial expanded genetic information systems. Proceedings of the National Academy of Sciences of the United States of America. 111: 1449-54. PMID 24379378 DOI: 10.1073/Pnas.1311778111 |
0.682 |
|
| 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 |
0.688 |
|
| 2013 |
Benner SA, Bains W, Seager S. Models and standards of proof in cross-disciplinary science: the case of arsenic DNA. Astrobiology. 13: 510-3. PMID 23634974 DOI: 10.1089/Ast.2012.0954 |
0.309 |
|
| 2013 |
Neveu M, Kim HJ, Benner SA. The "strong" RNA world hypothesis: fifty years old. Astrobiology. 13: 391-403. PMID 23551238 DOI: 10.1089/Ast.2012.0868 |
0.329 |
|
| 2013 |
Yang Z, Durante M, Glushakova LG, Sharma N, Leal NA, Bradley KM, Chen F, Benner SA. Conversion strategy using an expanded genetic alphabet to assay nucleic acids. Analytical Chemistry. 85: 4705-12. PMID 23541235 DOI: 10.1021/Ac400422R |
0.356 |
|
| 2012 |
Carrigan MA, Uryasev O, Davis RP, Zhai L, Hurley TD, Benner SA. The natural history of class I primate alcohol dehydrogenases includes gene duplication, gene loss, and gene conversion. Plos One. 7: e41175. PMID 22859968 DOI: 10.1371/Journal.Pone.0041175 |
0.305 |
|
| 2012 |
Benner SA, Kim HJ, Carrigan MA. Asphalt, water, and the prebiotic synthesis of ribose, ribonucleosides, and RNA. Accounts of Chemical Research. 45: 2025-34. PMID 22455515 DOI: 10.1021/Ar200332W |
0.339 |
|
| 2012 |
Kim HJ, Chen F, Benner SA. Synthesis and properties of 5-cyano-substituted nucleoside analog with a donor-donor-acceptor hydrogen-bonding pattern. The Journal of Organic Chemistry. 77: 3664-9. PMID 22390337 DOI: 10.1021/Jo300230Z |
0.338 |
|
| 2012 |
Benner SA, Kim HJ, Yang Z. Setting the stage: the history, chemistry, and geobiology behind RNA. Cold Spring Harbor Perspectives in Biology. 4: a003541. PMID 20880988 DOI: 10.1101/087969739.43.1 |
0.317 |
|
| 2011 |
Benner SA, Yang Z, Chen F. Synthetic Biology, Tinkering Biology, and Artificial Biology. What are We Learning? Comptes Rendus. Chimie (Print). 14: 372-387. PMID 29983697 DOI: 10.1016/J.Crci.2010.06.013 |
0.311 |
|
| 2011 |
Yang Z, Chen F, Alvarado JB, Benner SA. Amplification, mutation, and sequencing of a six-letter synthetic genetic system. Journal of the American Chemical Society. 133: 15105-12. PMID 21842904 DOI: 10.1021/Ja204910N |
0.369 |
|
| 2011 |
Kim HJ, Ricardo A, Illangkoon HI, Kim MJ, Carrigan MA, Frye F, Benner SA. Synthesis of carbohydrates in mineral-guided prebiotic cycles. Journal of the American Chemical Society. 133: 9457-68. PMID 21553892 DOI: 10.1021/Ja201769F |
0.774 |
|
| 2011 |
Chen F, Yang Z, Yan M, Alvarado JB, Wang G, Benner SA. Recognition of an expanded genetic alphabet by type-II restriction endonucleases and their application to analyze polymerase fidelity. Nucleic Acids Research. 39: 3949-61. PMID 21245035 DOI: 10.1093/Nar/Gkq1274 |
0.388 |
|
| 2010 |
Hutter D, Kim MJ, Karalkar N, Leal NA, Chen F, Guggenheim E, Visalakshi V, Olejnik J, Gordon S, Benner SA. Labeled nucleoside triphosphates with reversibly terminating aminoalkoxyl groups. Nucleosides, Nucleotides & Nucleic Acids. 29: 879-95. PMID 21128174 DOI: 10.1080/15257770.2010.536191 |
0.343 |
|
| 2010 |
Benner SA, Kim HJ, Kim MJ, Ricardo A. Planetary organic chemistry and the origins of biomolecules. Cold Spring Harbor Perspectives in Biology. 2: a003467. PMID 20504964 DOI: 10.1101/Cshperspect.A003467 |
0.726 |
|
| 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 |
0.803 |
|
| 2010 |
Yang Z, Chen F, Chamberlin SG, Benner SA. Expanded genetic alphabets in the polymerase chain reaction. Angewandte Chemie (International Ed. in English). 49: 177-80. PMID 19946925 DOI: 10.1002/Anie.200905173 |
0.339 |
|
| 2010 |
Benner SA, Ellington AD. "Progenote" or "protogenote"? Science (New York, N.Y.). 248: 943-4. PMID 17745387 DOI: 10.1126/Science.248.4958.943 |
0.458 |
|
| 2010 |
Benner SA, Ricardo A, Carrigan MA. Is there a common chemical model for life in the universe? The Nature of Life: Classical and Contemporary Perspectives From Philosophy and Science. 164-185. DOI: 10.1017/CBO9780511730191.016 |
0.714 |
|
| 2010 |
BAESCHLIN DK, DAUBE M, BLAETTLER MO, BENNER SA, RICHERT C. ChemInform Abstract: Four-Step Synthesis of a 5′-Deoxy-5′-iodomethylthymidine. Cheminform. 27: no-no. DOI: 10.1002/chin.199625241 |
0.462 |
|
| 2010 |
PICCIRILLI JA, KRAUCH T, MACPHERSON LJ, BENNER SA. ChemInform Abstract: A Direct Route to 3-(D-Ribofuranosyl)pyridine Nucleosides. Cheminform. 22: no-no. DOI: 10.1002/chin.199123248 |
0.455 |
|
| 2009 |
Fuller CW, Middendorf LR, Benner SA, Church GM, Harris T, Huang X, Jovanovich SB, Nelson JR, Schloss JA, Schwartz DC, Vezenov DV. The challenges of sequencing by synthesis. Nature Biotechnology. 27: 1013-23. PMID 19898456 DOI: 10.1038/Nbt.1585 |
0.326 |
|
| 2008 |
Sheng P, Yang Z, Kim Y, Wu Y, Tan W, Benner SA. Design of a novel molecular beacon: modification of the stem with artificially genetic alphabet. Chemical Communications (Cambridge, England). 5128-30. PMID 18956044 DOI: 10.1039/B811159F |
0.42 |
|
| 2008 |
Branton D, Deamer DW, Marziali A, Bayley H, Benner SA, Butler T, Di Ventra M, Garaj S, Hibbs A, Huang X, Jovanovich SB, Krstic PS, Lindsay S, Ling XS, Mastrangelo CH, et al. The potential and challenges of nanopore sequencing. Nature Biotechnology. 26: 1146-53. PMID 18846088 DOI: 10.1038/Nbt.1495 |
0.36 |
|
| 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 |
0.612 |
|
| 2008 |
Havemann SA, Hoshika S, Hutter D, Benner SA. Incorporation of multiple sequential pseudothymidines by DNA polymerases and their impact on DNA duplex structure. Nucleosides, Nucleotides & Nucleic Acids. 27: 261-78. PMID 18260010 DOI: 10.1080/15257770701853679 |
0.792 |
|
| 2008 |
Kim HJ, Kim MJ, Karalkar N, Hutter D, Benner SA. Synthesis of pyrophosphates for in vitro selection of catalytic RNA molecules. Nucleosides, Nucleotides & Nucleic Acids. 27: 43-56. PMID 18188769 DOI: 10.1080/15257770701571867 |
0.337 |
|
| 2008 |
Sassi SO, Benner SA. The resurrection of ribonucleases from mammals: from ecology to medicine Ancestral Sequence Reconstruction. DOI: 10.1093/acprof:oso/9780199299188.003.0018 |
0.691 |
|
| 2007 |
Yang Z, Sismour AM, Sheng P, Puskar NL, Benner SA. Enzymatic incorporation of a third nucleobase pair. Nucleic Acids Research. 35: 4238-49. PMID 17576683 DOI: 10.1093/Nar/Gkm395 |
0.789 |
|
| 2007 |
Yang Z, Sismour AM, Benner SA. Nucleoside alpha-thiotriphosphates, polymerases and the exonuclease III analysis of oligonucleotides containing phosphorothioate linkages. Nucleic Acids Research. 35: 3118-27. PMID 17452363 DOI: 10.1093/Nar/Gkm168 |
0.794 |
|
| 2007 |
Sassi SO, Braun EL, Benner SA. The evolution of seminal ribonuclease: pseudogene reactivation or multiple gene inactivation events? Molecular Biology and Evolution. 24: 1012-24. PMID 17267422 DOI: 10.1093/Molbev/Msm020 |
0.742 |
|
| 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 |
0.79 |
|
| 2007 |
Benner SA, Glasfeld A, Piccirilli JA. Stereospecificity in Enzymology: Its Place in Evolution Topics in Stereochemistry. 19: 127-207. DOI: 10.1002/9780470147283.Ch3 |
0.521 |
|
| 2006 |
Ricardo A, Frye F, Carrigan MA, Tipton JD, Powell DH, Benner SA. 2-Hydroxymethylboronate as a reagent to detect carbohydrates: application to the analysis of the formose reaction. The Journal of Organic Chemistry. 71: 9503-5. PMID 17137382 DOI: 10.1021/Jo061770H |
0.695 |
|
| 2006 |
Yang Z, Hutter D, Sheng P, Sismour AM, Benner SA. Artificially expanded genetic information system: a new base pair with an alternative hydrogen bonding pattern. Nucleic Acids Research. 34: 6095-101. PMID 17074747 DOI: 10.1093/Nar/Gkl633 |
0.796 |
|
| 2006 |
Leal NA, Sukeda M, Benner SA. Dynamic assembly of primers on nucleic acid templates. Nucleic Acids Research. 34: 4702-10. PMID 16963776 DOI: 10.1093/Nar/Gkl625 |
0.347 |
|
| 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 |
0.72 |
|
| 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 |
0.778 |
|
| 2006 |
Bradley ME, Benner SA. Integrating protein structures and precomputed genealogies in the Magnum database: examples with cellular retinoid binding proteins. Bmc Bioinformatics. 7: 89. PMID 16504077 DOI: 10.1186/1471-2105-7-89 |
0.346 |
|
| 2006 |
Wang L, Yang CJ, Medley CD, Benner SA, Tan W. Locked nucleic acid molecular beacons for intracellular mRNA monitoring Progress in Biomedical Optics and Imaging - Proceedings of Spie. 6095. DOI: 10.1117/12.644649 |
0.463 |
|
| 2005 |
Wang L, Yang CJ, Medley CD, Benner SA, Tan W. Locked nucleic acid molecular beacons. Journal of the American Chemical Society. 127: 15664-5. PMID 16277483 DOI: 10.1021/Ja052498G |
0.457 |
|
| 2005 |
Sismour AM, Benner SA. Synthetic biology. Expert Opinion On Biological Therapy. 5: 1409-14. PMID 16255644 DOI: 10.1517/14712598.5.11.1409 |
0.802 |
|
| 2005 |
Sismour AM, Benner SA. The use of thymidine analogs to improve the replication of an extra DNA base pair: a synthetic biological system. Nucleic Acids Research. 33: 5640-6. PMID 16192575 DOI: 10.1093/Nar/Gki873 |
0.797 |
|
| 2005 |
Li Q, Ricardo A, Benner SA, Winefordner JD, Powell DH. Desorption/ionization on porous silicon mass spectrometry studies on pentose-borate complexes. Analytical Chemistry. 77: 4503-8. PMID 16013866 DOI: 10.1021/Ac050258D |
0.681 |
|
| 2005 |
Benner SA, Sismour AM. Synthetic biology. Nature Reviews. Genetics. 6: 533-43. PMID 15995697 DOI: 10.1038/nrg1637 |
0.775 |
|
| 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 |
0.749 |
|
| 2005 |
Bradley ME, Benner SA. Phylogenomic approaches to common problems encountered in the analysis of low copy repeats: the sulfotransferase 1A gene family example. Bmc Evolutionary Biology. 5: 22. PMID 15752422 DOI: 10.1186/1471-2148-5-22 |
0.317 |
|
| 2005 |
Benner SA, Ricardo A. Planetary systems biology. Molecular Cell. 17: 471-2. PMID 15721248 DOI: 10.1016/J.Molcel.2005.02.005 |
0.705 |
|
| 2004 |
Benner SA, Ricardo A, Carrigan MA. Is there a common chemical model for life in the universe? Current Opinion in Chemical Biology. 8: 672-89. PMID 15556414 DOI: 10.1016/J.Cbpa.2004.10.003 |
0.714 |
|
| 2004 |
Benner SA. Understanding nucleic acids using synthetic chemistry. Accounts of Chemical Research. 37: 784-97. PMID 15491125 DOI: 10.1021/Ar040004Z |
0.351 |
|
| 2004 |
Carrigan MA, Ricardo A, Ang DN, Benner SA. Quantitative analysis of a RNA-cleaving DNA catalyst obtained via in vitro selection. Biochemistry. 43: 11446-59. PMID 15350131 DOI: 10.1021/Bi049898L |
0.733 |
|
| 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 |
0.8 |
|
| 2004 |
Chang MS, Benner SA. Empirical analysis of protein insertions and deletions determining parameters for the correct placement of gaps in protein sequence alignments. Journal of Molecular Biology. 341: 617-31. PMID 15276848 DOI: 10.1016/J.Jmb.2004.05.045 |
0.352 |
|
| 2004 |
Martinot TA, Benner SA. Artificial genetic systems: exploiting the "aromaticity" formalism to improve the tautomeric ratio for isoguanosine derivatives. The Journal of Organic Chemistry. 69: 3972-5. PMID 15153036 DOI: 10.1021/Jo0497959 |
0.731 |
|
| 2004 |
Hendrickson CL, Devine KG, Benner SA. Probing minor groove recognition contacts by DNA polymerases and reverse transcriptases using 3-deaza-2'-deoxyadenosine. Nucleic Acids Research. 32: 2241-50. PMID 15107492 DOI: 10.1093/Nar/Gkh542 |
0.768 |
|
| 2004 |
Roychowdhury A, Illangkoon H, Hendrickson CL, Benner SA. 2'-deoxycytidines carrying amino and thiol functionality: synthesis and incorporation by Vent (exo-) polymerase. Organic Letters. 6: 489-92. PMID 14961605 DOI: 10.1021/Ol0360290 |
0.775 |
|
| 2004 |
Sismour AM, Lutz S, Park JH, Lutz MJ, Boyer PL, Hughes SH, Benner SA. PCR amplification of DNA containing non-standard base pairs by variants of reverse transcriptase from Human Immunodeficiency Virus-1. Nucleic Acids Research. 32: 728-35. PMID 14757837 DOI: 10.1093/Nar/Gkh241 |
0.791 |
|
| 2004 |
Ricardo A, Carrigan MA, Olcott AN, Benner SA. Borate minerals stabilize ribose. Science (New York, N.Y.). 303: 196. PMID 14716004 DOI: 10.1126/Science.1092464 |
0.715 |
|
| 2004 |
von Krosigk U, Benner S. Expanding the Genetic Alphabet: Pyrazine Nucleosides That Support a DonorDonorAcceptor Hydrogen-Bonding Pattern Helvetica Chimica Acta. 87: 1299-1324. DOI: 10.1002/Hlca.200490120 |
0.336 |
|
| 2003 |
Geyer CR, Battersby TR, Benner SA. Nucleobase pairing in expanded Watson-Crick-like genetic information systems. Structure (London, England : 1993). 11: 1485-98. PMID 14656433 DOI: 10.1016/J.Str.2003.11.008 |
0.757 |
|
| 2003 |
Hutter D, Benner SA. Expanding the genetic alphabet: non-epimerizing nucleoside with the pyDDA hydrogen-bonding pattern. The Journal of Organic Chemistry. 68: 9839-42. PMID 14656120 DOI: 10.1021/Jo034900K |
0.313 |
|
| 2003 |
Benner SA, Hutter D, Sismour AM. Synthetic biology with artificially expanded genetic information systems. From personalized medicine to extraterrestrial life. Nucleic Acids Research. Supplement (2001). 125-6. PMID 14510412 |
0.801 |
|
| 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 |
0.648 |
|
| 2003 |
Held HA, Roychowdhury A, Benner SA. C-5 modified nucleosides: direct insertion of alkynyl-thio functionality in pyrimidines. Nucleosides, Nucleotides & Nucleic Acids. 22: 391-404. PMID 12885121 DOI: 10.1081/Ncn-120022030 |
0.332 |
|
| 2003 |
Benner SA. Interpretive proteomics--finding biological meaning in genome and proteome databases. Advances in Enzyme Regulation. 43: 271-359. PMID 12791396 DOI: 10.1016/S0065-2571(02)00024-9 |
0.322 |
|
| 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 |
0.58 |
|
| 2003 |
Eschgfäller B, Schmidt JG, König M, Benner SA. Synthesis and properties of oligodeoxynucleotide analogs with bis(methylene) sulfone bridges Helvetica Chimica Acta. 86: 2959-2997. DOI: 10.1002/Hlca.200390244 |
0.344 |
|
| 2002 |
Held HA, Benner SA. Challenging artificial genetic systems: thymidine analogs with 5-position sulfur functionality. Nucleic Acids Research. 30: 3857-69. PMID 12202771 DOI: 10.1093/Nar/Gkf500 |
0.396 |
|
| 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 |
0.636 |
|
| 2002 |
Huang Z, Benner SA. Oligodeoxyribonucleotide analogues with bridging dimethylene sulfide, sulfoxide, and sulfone groups. Toward a second-generation model of nucleic acid structure. The Journal of Organic Chemistry. 67: 3996-4013. PMID 12054932 DOI: 10.1021/Jo0003910 |
0.368 |
|
| 2002 |
Fukami-Kobayashi K, Schreiber DR, Benner SA. Detecting compensatory covariation signals in protein evolution using reconstructed ancestral sequences. Journal of Molecular Biology. 319: 729-43. PMID 12054866 DOI: 10.1016/S0022-2836(02)00239-5 |
0.607 |
|
| 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 |
0.628 |
|
| 2002 |
Benner SA. The past as the key to the present: resurrection of ancient proteins from eosinophils. Proceedings of the National Academy of Sciences of the United States of America. 99: 4760-1. PMID 11959927 DOI: 10.1073/Pnas.092143699 |
0.33 |
|
| 2002 |
Benner SA, Hutter D. Phosphates, DNA, and the search for nonterrean life: a second generation model for genetic molecules. Bioorganic Chemistry. 30: 62-80. PMID 11955003 DOI: 10.1006/Bioo.2001.1232 |
0.41 |
|
| 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 |
0.651 |
|
| 2002 |
Hutter D, Blaettler MO, Benner SA. From phosphate to bis(methylene) sulfone: Non-ionic backbone linkers in DNA Helvetica Chimica Acta. 85: 2777-2806. DOI: 10.1002/1522-2675(200209)85:9<2777::Aid-Hlca2777>3.0.Co;2-1 |
0.351 |
|
| 2001 |
Liberles DA, Schreiber DR, Govindarajan S, Chamberlin SG, Benner SA. The adaptive evolution database (TAED). Genome Biology. 2: RESEARCH0028. PMID 11532212 DOI: 10.1186/Gb-2001-2-8-Research0028 |
0.721 |
|
| 2001 |
Rao P, Benner SA. Fluorescent charge-neutral analogue of xanthosine: synthesis of a 2'-deoxyribonucleoside bearing a 5-aza-7-deazaxanthine base. The Journal of Organic Chemistry. 66: 5012-5. PMID 11463249 DOI: 10.1021/Jo005743H |
0.311 |
|
| 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 |
0.605 |
|
| 2001 |
Liberles DA, Schreiber DR, Govindarajan S, Chamberlin SG, Benner SA. The Adaptive Evolution Database (TAED). Genome Biology. 2: PREPRINT0003. PMID 11305934 |
0.708 |
|
| 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 |
0.654 |
|
| 2000 |
Peltier MR, Raley LC, Liberles DA, Benner SA, Hansen PJ. Evolutionary history of the uterine serpins. The Journal of Experimental Zoology. 288: 165-74. PMID 10931499 DOI: 10.1002/1097-010X(20000815)288:2<165::Aid-Jez7>3.0.Co;2-R |
0.758 |
|
| 2000 |
Gonnet GH, Korostensky C, Benner S. Evaluation measures of multiple sequence alignments Journal of Computational Biology. 7: 261-276. PMID 10890401 DOI: 10.1089/10665270050081513 |
0.32 |
|
| 2000 |
Benner SA, Chamberlin SG, Liberles DA, Govindarajan S, Knecht L. Functional inferences from reconstructed evolutionary biology involving rectified databases--an evolutionarily grounded approach to functional genomics. Research in Microbiology. 151: 97-106. PMID 10865954 DOI: 10.1016/S0923-2508(00)00123-6 |
0.587 |
|
| 2000 |
Jurczyk SC, Horlacher J, Devined KG, Benner SA, Battersby TR. Synthesis and characterization of oligonucleotides containing 2'- deoxyxanthosine using phosphoramidite chemistry Helvetica Chimica Acta. 83: 1517-1524. DOI: 10.1002/1522-2675(20000705)83:7<1517::Aid-Hlca1517>3.0.Co;2-S |
0.747 |
|
| 1999 |
Battersby TR, Ang DN, Burgstaller P, Jurczyk SC, Bowser MT, Buchanan DD, Kennedy RT, Benner SA. Quantitative analysis of receptors for adenosine nucleotides obtained via in vitro selection from a library incorporating a cationic nucleotide analog. Journal of the American Chemical Society. 121: 9781-9. PMID 11543572 DOI: 10.1021/Ja9816436 |
0.751 |
|
| 1999 |
Soucek J, Raines RT, Haugg M, Raillard-Yoon SA, Benner SA. Structural changes to ribonuclease A and their effects on biological activity. Comparative Biochemistry and Physiology. Part C, Pharmacology, Toxicology & Endocrinology. 123: 103-11. PMID 10442819 DOI: 10.1016/S0742-8413(99)00005-5 |
0.323 |
|
| 1999 |
Lutz MJ, Will DW, Breipohl G, Benner SA, Uhlmann E. Synthesis of a monocharged peptide nucleic acid (PNA) analog and its recognition as substrate by DNA polymerases. Nucleosides & Nucleotides. 18: 393-401. PMID 10408922 DOI: 10.1080/15257779908043084 |
0.34 |
|
| 1999 |
Lutz S, Burgstaller P, Benner SA. An in vitro screening technique for DNA polymerases that can incorporate modified nucleotides. Pseudo-thymidine as a substrate for thermostable polymerases. Nucleic Acids Research. 27: 2792-8. PMID 10373598 DOI: 10.1093/Nar/27.13.2792 |
0.573 |
|
| 1999 |
Lutz S, Benner SA. Simple one-pot synthesis of a 2'-tritium labeled C-deoxynucleoside. Bioorganic & Medicinal Chemistry Letters. 9: 723-6. PMID 10201836 DOI: 10.1016/S0960-894X(99)00068-2 |
0.51 |
|
| 1999 |
Vatzaki EH, Allen SC, Leonidas DD, Trautwein-Fritz K, Stackhouse J, Benner SA, Acharya KR. Crystal structure of a hybrid between ribonuclease A and bovine seminal ribonuclease--the basic surface, at 2.0 A resolution. European Journal of Biochemistry / Febs. 260: 176-82. PMID 10091597 DOI: 10.1046/J.1432-1327.1999.00142.X |
0.333 |
|
| 1999 |
Gerloff DL, Cannarozzi GM, Joachimiak M, Cohen FE, Schreiber D, Benner SA. Evolutionary, mechanistic, and predictive analyses of the hydroxymethyldihydropterin pyrophosphokinase family of proteins. Biochemical and Biophysical Research Communications. 254: 70-6. PMID 9920734 DOI: 10.1006/Bbrc.1998.9884 |
0.602 |
|
| 1999 |
Benner SA, Burgstaller P, Battersby TR, Jurczyk S. 6 Did the RNA World Exploit an Expanded Genetic Alphabet Cold Spring Harbor Monograph Archive. 37: 163-181. DOI: 10.1101/087969589.37.163 |
0.371 |
|
| 1999 |
Jurczyk SC, Kodra JT, Park JH, Benner SA, Battersby TR. Synthesis of 2'-deoxyisoguanosine 5'-triphosphate and 2'-deoxy-5 methylisocytidine 5'-triphosphate Helvetica Chimica Acta. 82: 1005-1015. DOI: 10.1002/(Sici)1522-2675(19990707)82:7<1005::Aid-Hlca1005>3.0.Co;2-5 |
0.749 |
|
| 1998 |
Benner SA, Battersby TR, Eschgfaller B, Hutter D, Kodra JT, Lutz S, Arslan T, Baschlin DK, Blattler M, Egli M, Hammer C, Held HA, Horlacher J, Huang Z, Hyrup B, et al. Redesigning nucleic acids. Pure and Applied Chemistry. Chimie Pure Et Appliquã©E. 70: 263-6. PMID 11542721 DOI: 10.1351/Pac199870020263 |
0.791 |
|
| 1998 |
Lutz MJ, Horlacher J, Benner SA. Recognition of a non-standard base pair by thermostable DNA polymerases. Bioorganic & Medicinal Chemistry Letters. 8: 1149-52. PMID 9871725 DOI: 10.1016/S0960-894X(98)00177-2 |
0.338 |
|
| 1998 |
Lutz MJ, Horlacher J, Benner SA. Recognition of 2'-deoxyisoguanosine triphosphate by HIV-1 reverse transcriptase and mammalian cellular DNA polymerases. Bioorganic & Medicinal Chemistry Letters. 8: 499-504. PMID 9871606 DOI: 10.1016/S0960-894X(98)00057-2 |
0.309 |
|
| 1998 |
Gerloff DL, Joachimiak M, Cohen FE, Cannarozzi GM, Chamberlin SG, Benner SA. Structure prediction in a post-genomic environment: a secondary and tertiary structural model for the initiation factor 5A family. Biochemical and Biophysical Research Communications. 251: 173-81. PMID 9790926 DOI: 10.1006/Bbrc.1998.9198 |
0.314 |
|
| 1998 |
Benner SA, Trabesinger N, Schreiber D. Post-genomic science: Converting primary structure into physiological function Advances in Enzyme Regulation. 38: 155-180. PMID 9762352 DOI: 10.1016/S0065-2571(97)00019-8 |
0.629 |
|
| 1998 |
Chelvanayagam G, Knecht L, Jenny T, Benner SA, Gonnet GH. A combinatorial distance-constraint approach to predicting protein tertiary models from known secondary structure Folding and Design. 3: 149-160. PMID 9562545 DOI: 10.1016/S1359-0278(98)00023-6 |
0.306 |
|
| 1998 |
Opitz JG, Ciglic MI, Haugg M, Trautwein-Fritz K, Raillard SA, Jermann TM, Benner SA. Origin of the catalytic activity of bovine seminal ribonuclease against double-stranded RNA. Biochemistry. 37: 4023-33. PMID 9521723 DOI: 10.1021/Bi9722047 |
0.372 |
|
| 1998 |
Ciglic MI, Jackson PJ, Raillard SA, Haugg M, Jermann TM, Opitz JG, Trabesinger-Rüf N, Benner SA. Origin of dimeric structure in the ribonuclease superfamily. Biochemistry. 37: 4008-22. PMID 9521722 DOI: 10.1021/Bi972203E |
0.396 |
|
| 1998 |
Eschgfäller B, König M, Boess F, Boelsterli UA, Benner SA. Synthesis and biodistribution of a short nonionic oligonucleotide analogue in mouse with a potential to mimic peptides Journal of Medicinal Chemistry. 41: 276-283. PMID 9464358 DOI: 10.1021/Jm970538O |
0.31 |
|
| 1998 |
Jurczyk SC, Kodra JT, David Rozzell J, Benner SA, Battersby TR. Synthesis of Oligonucleotides Containing 2′-Deoxyisoguanosine and 2′-Deoxy-5-methylisocytidine Using Phosphoramidite Chemistry Helvetica Chimica Acta. 81: 793-811. |
0.722 |
|
| 1997 |
Chelvanayagam G, Eggenschwiler A, Knecht L, Gonnet GH, Benner SA. An analysis of simultaneous variation in protein structures Protein Engineering. 10: 307-316. PMID 9194155 DOI: 10.1093/Protein/10.4.307 |
0.318 |
|
| 1997 |
Gerloff DL, Cohen FE, Korostensky C, Turcotte M, Gonnet GH, Benner SA. A predicted consensus structure for the N-terminal fragment of the heat shock protein HSP90 family. Proteins. 27: 450-8. PMID 9094746 DOI: 10.1002/(Sici)1097-0134(199703)27:3<450::Aid-Prot12>3.0.Co;2-K |
0.324 |
|
| 1997 |
Tauer A, Benner SA. The B12-dependent ribonucleotide reductase from the archaebacterium Thermoplasma acidophila: An evolutionary solution to the ribonucleotide reductase conundrum Proceedings of the National Academy of Sciences of the United States of America. 94: 53-58. PMID 8990160 DOI: 10.1073/Pnas.94.1.53 |
0.312 |
|
| 1996 |
Baeschlin DK, Hyrup B, Benner SA, Richert C. Chimera of Dimethylene Sulfone-, Methyl Sulfide-, and Methyl Sulfoxide-Linked Ribonucleotides and DNA. The Journal of Organic Chemistry. 61: 7620-7626. PMID 11667701 DOI: 10.1021/Jo960669H |
0.514 |
|
| 1996 |
Lutz MJ, Held HA, Hottiger M, Hübscher U, Benner SA. Differential discrimination of DNA polymerase for variants of the non-standard nucleobase pair between xanthosine and 2,4-diaminopyrimidine, two components of an expanded genetic alphabet. Nucleic Acids Research. 24: 1308-13. PMID 8614635 DOI: 10.1093/Nar/24.7.1308 |
0.346 |
|
| 1996 |
Trabesinger-Ruef N, Jermann T, Zankel T, Durrant B, Frank G, Benner SA. Pseudogenes in ribonuclease evolution: A source of new biomacromolecular function? Febs Letters. 382: 319-322. PMID 8605993 DOI: 10.1016/0014-5793(96)00191-3 |
0.304 |
|
| 1996 |
Richert C, Roughton AL, Benner SA. Nonionic analogs of RNA with dimethylene sulfone bridges Journal of the American Chemical Society. 118: 4518-4531. DOI: 10.1021/Ja952322M |
0.546 |
|
| 1996 |
Baeschlin DK, Daube M, Blättler MO, Benner SA, Richert C. Four step synthesis of a 5′-deoxy-5′-iodomethylthymidine Tetrahedron Letters. 37: 1591-1592. DOI: 10.1016/0040-4039(96)00090-1 |
0.522 |
|
| 1996 |
Voegel JJ, Benner SA. 156. Synthesis, molecular recognition, and enzymology of oligonucleotides containing the non-standard base pair between 5-aza-7-deazaisoguanine and 6-amino-3-methylpyrazin-2(1H)-one, a donor-acceptor-acceptor purine analog and an acceptor-donor-donor pyrimidine analog Helvetica Chimica Acta. 79: 1881-1898. DOI: 10.1002/Hlca.19960790711 |
0.362 |
|
| 1996 |
Voegel JJ, Benner SA. 155. Synthesis and characterization of non-standard nucleosides and nucleotides bearing the acceptor-donor-donor pyrimidine analog 6-amino-3-methylpyrazin-2(1H)-one Helvetica Chimica Acta. 79: 1863-1880. DOI: 10.1002/Hlca.19960790710 |
0.322 |
|
| 1995 |
Gerloff DL, Benner SA. A consensus prediction of the secondary structure for the 6-phospho-β-D- galactosidase superfamily Proteins: Structure, Function and Genetics. 21: 273-281. PMID 7567950 DOI: 10.1002/Prot.340210402 |
0.302 |
|
| 1995 |
Hyrup B, Richert C, Schulte-herbrüggen T, Benner SA, Egli M. X-ray crystal struture of a dimethylene sulfone-bridged ribonucleotide dimer in a single-stranded state Nucleic Acids Research. 23: 2427-2433. PMID 7543197 DOI: 10.1093/Nar/23.13.2427 |
0.537 |
|
| 1995 |
Horlacher J, Hottiger M, Podust VN, Hübscher U, Benner SA. Recognition by viral and cellular DNA polymerases of nucleosides bearing bases with nonstandard hydrogen bonding patterns Proceedings of the National Academy of Sciences of the United States of America. 92: 6329-6333. PMID 7541538 DOI: 10.1073/Pnas.92.14.6329 |
0.324 |
|
| 1995 |
Jermann TM, Opitz JG, Stackhouse J, Benner SA. Reconstructing the evolutionary history of the artiodactyl ribonuclease superfamily Nature. 374: 57-59. PMID 7532788 DOI: 10.1038/374057A0 |
0.333 |
|
| 1994 |
Benner SA, Badcoe I, Cohen MA, Gerloff DL. Bona fide prediction of aspects of protein conformation. Assigning interior and surface residues from patterns of variation and conservation in homologous protein sequences. Journal of Molecular Biology. 235: 926-58. PMID 8289328 DOI: 10.1006/Jmbi.1994.1049 |
0.33 |
|
| 1994 |
Gonnet GH, Cohen MA, Benner SA. Analysis of amino acid substitution during divergent evolution: the 400 by 400 dipeptide substitution matrix. Biochemical and Biophysical Research Communications. 199: 489-96. PMID 8135790 DOI: 10.1006/Bbrc.1994.1255 |
0.332 |
|
| 1994 |
Benner SA, Jenny TF, Cohen MA, Gonnet GH. Predicting the conformation of proteins from sequences. Progress and future progress. Advances in Enzyme Regulation. 34: 269-353. PMID 7942279 DOI: 10.1016/0065-2571(94)90021-3 |
0.329 |
|
| 1994 |
Voegel JJ, Benner SA. Nonstandard hydrogen bonding in duplex oligonucleotides. The base pair between an acceptor-donor-donor pyrimidine analog and a donor-acceptor-acceptor purine analog Journal of the American Chemical Society. 116: 6929-6230. DOI: 10.1021/Ja00094A055 |
0.305 |
|
| 1994 |
Heeb NV, Benner SA. Guanosine derivatives bearing an N2-3-imidazolepropionic acid Tetrahedron Letters. 35: 3045-3048. DOI: 10.1016/S0040-4039(00)76823-7 |
0.309 |
|
| 1993 |
Benner SA, Cohen MA, Gonnet GH. Empirical and structural models for insertions and deletions in the divergent evolution of proteins. Journal of Molecular Biology. 229: 1065-82. PMID 8445636 DOI: 10.1006/Jmbi.1993.1105 |
0.332 |
|
| 1993 |
Johnsson K, Allemann RK, Widmer H, Benner SA. Synthesis, structure and activity of artificial, rationally designed catalytic polypeptides Nature. 365: 530-532. PMID 8413606 DOI: 10.1038/365530A0 |
0.696 |
|
| 1993 |
Switzer CY, Moroney SE, Benner SA. Enzymatic recognition of the base pair between isocytidine and isoguanosine. Biochemistry. 32: 10489-96. PMID 7691174 DOI: 10.1021/Bi00090A027 |
0.661 |
|
| 1993 |
Benner SA, Cohen MA, Gerloff D. Predicted secondary structure for the Src homology 3 domain. Journal of Molecular Biology. 229: 295-305. PMID 7679147 DOI: 10.1006/Jmbi.1993.1035 |
0.307 |
|
| 1993 |
Benner SA, Cohen MA, Gonnet GH, Berkowitz DB, Johnsson KP. 2 Reading the Palimpsest: Contemporary Biochemical Data and the RNA World Cold Spring Harbor Monograph Archive. 24: 27-70. DOI: 10.1101/087969380.24.27 |
0.612 |
|
| 1993 |
Voegel JJ, von Krosigk U, Benner SA. Synthesis and tautomeric equilibrium of 6-amino-5-benzyl-3-methylpyrazin-2-one. An acceptor-donor-donor nucleoside base analog The Journal of Organic Chemistry. 58: 7542-7547. DOI: 10.1021/Jo00078A038 |
0.349 |
|
| 1993 |
Arslan T, Herradon B, Schweizer BW, Benner SA. Determination of the absolute configuration of dimethyl (2S,3S)-2-allyl-3-hydroxyglutarate: A chiral building block for preparing branched-chain nucleoside analogues Helvetica Chimica Acta. 76: 2969-2975. DOI: 10.1002/Hlca.19930760821 |
0.717 |
|
| 1993 |
Voegel JJ, Altorfer MM, Benner SA. The Donor-Acceptor-Acceptor Purine Analog: Transformation of 5-aza-7-deaza-1H-isoguanine (=4-aminoimidazo-[1,2-a]-1,3,5-triazin-2(1H)-one) to 2?-deoxy-5-aza-7-deaza-isoguanosine using purine nucleoside phosphorylase Helvetica Chimica Acta. 76: 2061-2069. DOI: 10.1002/Hlca.19930760520 |
0.302 |
|
| 1993 |
Jenny TF, Benner SA. Carbocyclic Analogs of Nucleosides. Part 4. Preparation of enantiomerically pure analogs of purine nucleosides for the synthesis of sulfone-linked oligonucleotide analogs Helvetica Chimica Acta. 76: 826-841. DOI: 10.1002/Hlca.19930760207 |
0.313 |
|
| 1992 |
Gonnet GH, Cohen MA, Benner SA. Exhaustive matching of the entire protein sequence database. Science (New York, N.Y.). 256: 1443-5. PMID 1604319 DOI: 10.1126/Science.1604319 |
0.312 |
|
| 1992 |
Bain JD, Switzer C, Chamberlin AR, Benner SA. Ribosome-mediated incorporation of a non-standard amino acid into a peptide through expansion of the genetic code. Nature. 356: 537-9. PMID 1560827 DOI: 10.1038/356537A0 |
0.663 |
|
| 1991 |
Weinhold EG, Glasfeld A, Ellington AD, Benner SA. Structural determinants of stereospecificity in yeast alcohol dehydrogenase. Proceedings of the National Academy of Sciences of the United States of America. 88: 8420-4. PMID 1924300 DOI: 10.1073/Pnas.88.19.8420 |
0.726 |
|
| 1991 |
Benner SA, Gerloff D. Patterns of divergence in homologous proteins as indicators of secondary and tertiary structure: A prediction of the structure of the catalytic domain of protein kinases Advances in Enzyme Regulation. 31: 121-181. PMID 1877385 DOI: 10.1016/0065-2571(91)90012-B |
0.303 |
|
| 1991 |
Allemann RK, Presnell SR, Benner SA. A hybrid of bovine pancreatic ribonuclease and human angiogenin: An external loop as a module controlling substrate specificity? Protein Engineering, Design and Selection. 4: 831-835. PMID 1798706 DOI: 10.1093/Protein/4.7.831 |
0.589 |
|
| 1991 |
Piccirilli JA, Moroney SE, Benner SA. A C-nucleotide base pair: methylpseudouridine-directed incorporation of formycin triphosphate into RNA catalyzed by T7 RNA polymerase. Biochemistry. 30: 10350-6. PMID 1718418 DOI: 10.1021/Bi00106A037 |
0.583 |
|
| 1991 |
Green R, Szostak JW, Benner SA, Rich A, Usman N. Synthesis of RNA containing inosine: analysis of the sequence requirements for the 5' splice site of the Tetrahymena group I intron. Nucleic Acids Research. 19: 4161-6. PMID 1714564 DOI: 10.1093/Nar/19.15.4161 |
0.529 |
|
| 1991 |
Piccirilli JA, Krauch T, MacPherson LJ, Benner SA. A Direct Route to 3-(D-Ribofuranosyl)pyridine Nucleosides Helvetica Chimica Acta. 74: 397-406. DOI: 10.1002/Hlca.19910740217 |
0.513 |
|
| 1990 |
Glasfeld A, Leanz GF, Benner SA. The stereospecificities of seven dehydrogenases from Acholeplasma laidlawii. The simplest historical model that explains dehydrogenase stereospecificity. The Journal of Biological Chemistry. 265: 11692-9. PMID 2365693 |
0.664 |
|
| 1990 |
Stackhouse J, Presnell SR, McGeehan GM, Nambiar KP, Benner SA. The ribonuclease from an extinct bovid ruminant Febs Letters. 262: 104-106. PMID 2318301 DOI: 10.1016/0014-5793(90)80164-E |
0.308 |
|
| 1990 |
Schein CH, Haugg M, Benner SA. Interferon-γ activates the cleavage of double-stranded RNA by bovine seminal ribonuclease Febs Letters. 270: 229-232. PMID 2121524 DOI: 10.1016/0014-5793(90)81275-S |
0.31 |
|
| 1990 |
Piccirilli JA, Krauch T, Moroney SE, Benner SA. Enzymatic incorporation of a new base pair into DNA and RNA extends the genetic alphabet. Nature. 343: 33-7. PMID 1688644 DOI: 10.1038/343033A0 |
0.603 |
|
| 1989 |
Benner S, Ellington AD. Interpreting the behavior of enzymes: purpose or pedigree? Crc Critical Reviews in Biochemistry. 23: 369-426. PMID 3067974 DOI: 10.3109/10409238809082549 |
0.497 |
|
| 1989 |
Glasfeld A, Benner SA. The stereospecificity of the ferrous-ion-dependent alcohol dehydrogenase from Zymomonas mobilis. European Journal of Biochemistry / Febs. 180: 373-5. PMID 2924772 DOI: 10.1111/J.1432-1033.1989.Tb14658.X |
0.667 |
|
| 1989 |
Benner SA. Patterns of divergence in homologous proteins as indicators of tertiary and quaternary structure Advances in Enzyme Regulation. 28. PMID 2624173 DOI: 10.1016/0065-2571(89)90073-3 |
0.302 |
|
| 1989 |
Benner SA, Allemann RK. The return of pancreatic ribonucleases Trends in Biochemical Sciences. 14: 396-397. PMID 2479128 DOI: 10.1016/0968-0004(89)90282-X |
0.551 |
|
| 1989 |
Benner SA, Ellington AD, Tauer A. Modern metabolism as a palimpsest of the RNA world Proceedings of the National Academy of Sciences of the United States of America. 86: 7054-7058. PMID 2476811 DOI: 10.1073/Pnas.86.18.7054 |
0.509 |
|
| 1989 |
Switzer C, Moroney SE, Benner SA. Enzymatic incorporation of a new base pair into DNA and RNA Journal of the American Chemical Society. 111: 8322-8323. DOI: 10.1021/Ja00203A067 |
0.668 |
|
| 1988 |
Benner SA, Ellington AD. Return of the 'last ribo-organism' [7] Nature. 332: 688-689. PMID 2451785 DOI: 10.1038/332688B0 |
0.42 |
|
| 1988 |
Presnell SR, Benner SA. The design of syntetic genes Nucleic Acids Research. 16: 1693-1702. PMID 2451218 DOI: 10.1093/Nar/16.5.1693 |
0.313 |
|
| 1988 |
Allemann RK, Hung R, Benner SA. Stereochemical profile of the dehydrogenases of Drosophila melanogaster Journal of the American Chemical Society. 110: 5555-5560. DOI: 10.1021/Ja00224A046 |
0.548 |
|
| 1988 |
Glasfeld A, Zbinden P, Dobler M, Benner SA, Dunitz JD. Crystal structures of two simple N-substituted dihydronicotinamides: Possible implications for stereoelectronic arguments in enzymology Journal of the American Chemical Society. 110: 5152-5157. DOI: 10.1021/Ja00223A040 |
0.673 |
|
| 1987 |
Berkowitz DB, Benner SA. Anomeric specificity of L-fucose dehydrogenase: a stereochemical imperative in aldopyranose dehydrogenases? Biochemistry. 26: 2606-11. PMID 3607036 DOI: 10.1021/Bi00383A029 |
0.521 |
|
| 1987 |
Ellington AD, Benner SA. Free energy differences between enzyme bound states Journal of Theoretical Biology. 127: 491-506. PMID 3444340 DOI: 10.1016/S0022-5193(87)80145-5 |
0.448 |
|
| 1987 |
Benner SA, Allemann RK, Ellington AD, Ge L, Glasfeld A, Leanz GF, Krauch T, MacPherson LJ, Moroney S, Piccirilli JA. Natural selection, protein engineering, and the last riboorganism: rational model building in biochemistry. Cold Spring Harbor Symposia On Quantitative Biology. 52: 53-63. PMID 2456885 DOI: 10.1101/Sqb.1987.052.01.009 |
0.793 |
|
| 1987 |
Benner SA, Ellington AD. The last ribo-organism [9] Nature. 329: 295-296. PMID 2442624 DOI: 10.1038/329295A0 |
0.418 |
|
| 1987 |
Piccirilli JA, Rozzell JD, Benner SA. The stereospecificity of oxaloacetate decarboxylase: a stereochemical imperative? Journal of the American Chemical Society. 109: 8084-8085. DOI: 10.1021/Ja00260A023 |
0.51 |
|
| 1984 |
Nambiar KP, Stackhouse J, Stauffer DM, Kennedy WP, Eldredge JK, Benner SA. Total synthesis and cloning of a gene coding for the ribonuclease S protein Science. 223: 1299-1301. PMID 6322300 DOI: 10.1126/Science.6322300 |
0.307 |
|
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