| Year |
Citation |
Score |
| 2020 |
Pallan PS, Lybrand TP, Schlegel MK, Harp JM, Jahns H, Manoharan M, Egli M. Incorporating a Thiophosphate Modification into a Common RNA Tetraloop Motif Causes an Unanticipated Stability Boost. Biochemistry. PMID 33275419 DOI: 10.1021/acs.biochem.0c00685 |
0.378 |
|
| 2020 |
Mikami A, Erande N, Matsuda S, Kel'in A, Woods LB, Chickering T, Pallan PS, Schlegel MK, Zlatev I, Egli M, Manoharan M. Synthesis, chirality-dependent conformational and biological properties of siRNAs containing 5'-(R)- and 5'-(S)-C-methyl-guanosine. Nucleic Acids Research. PMID 32990754 DOI: 10.1093/nar/gkaa750 |
0.313 |
|
| 2019 |
Sheehan JH, Smith JA, Pallan PS, Lybrand TP, Egli M. Molecular Dynamics Simulation of Homo-DNA: The Role of Crystal Packing in Duplex Conformation Crystals. 9: 532. DOI: 10.3390/cryst9100532 |
0.475 |
|
| 2017 |
Mutisya D, Hardcastle T, Cheruiyot SK, Pallan PS, Kennedy SD, Egli M, Kelley ML, Smith AVB, Rozners E. Amide linkages mimic phosphates in RNA interactions with proteins and are well tolerated in the guide strand of short interfering RNAs. Nucleic Acids Research. 45: 8142-8155. PMID 28854734 DOI: 10.1093/Nar/Gkx558 |
0.47 |
|
| 2017 |
Peters JP, Kowal EA, Pallan PS, Egli M, Maher LJ. Comparative analysis of inosine-substituted duplex DNA by circular dichroism and X-ray crystallography. Journal of Biomolecular Structure & Dynamics. 1-60. PMID 28818035 DOI: 10.1080/07391102.2017.1369164 |
0.535 |
|
| 2017 |
Schlegel MK, Foster DJ, Kel'in AV, Zlatev I, Bisbe A, Jayaraman M, Lackey JG, Rajeev KG, Charisse K, Harp J, Pallan PS, Maier MA, Egli M, Manoharan M. Chirality Dependent Potency Enhancement and Structural Impact of Glycol Nucleic Acid Modification on siRNA. Journal of the American Chemical Society. PMID 28570818 DOI: 10.1021/Jacs.7B02694 |
0.712 |
|
| 2016 |
Pallan PS, Prakash TP, De Leon AR, Egli M. Limits of RNA 2'-OH Mimicry by Fluorine: Crystal Structure of Bacillus halodurans RNase H Bound to a 2'F-RNA:DNA Hybrid. Biochemistry. PMID 27611889 DOI: 10.1021/Acs.Biochem.6B00849 |
0.713 |
|
| 2016 |
Abeydeera ND, Egli M, Cox N, Mercier K, Conde JN, Pallan PS, Mizurini DM, Sierant M, Hibti FE, Hassell T, Wang T, Liu FW, Liu HM, Martinez C, Sood AK, et al. Evoking picomolar binding in RNA by a single phosphorodithioate linkage. Nucleic Acids Research. PMID 27566147 DOI: 10.1093/Nar/Gkw725 |
0.402 |
|
| 2016 |
Egli M, Pallan PS. Generating Crystallographic Models of DNA Dodecamers from Structures of RNase H:DNA Complexes. Methods in Molecular Biology (Clifton, N.J.). 1320: 111-26. PMID 26227040 DOI: 10.1007/978-1-4939-2763-0_8 |
0.554 |
|
| 2015 |
Szulik MW, Pallan PS, Nocek B, Voehler M, Banerjee S, Brooks S, Joachimiak A, Egli M, Eichman BF, Stone MP. Differential stabilities and sequence-dependent base pair opening dynamics of Watson-Crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosine. Biochemistry. 54: 1294-305. PMID 25632825 DOI: 10.1021/Bi501534X |
0.41 |
|
| 2014 |
Mutisya D, Selvam C, Lunstad BD, Pallan PS, Haas A, Leake D, Egli M, Rozners E. Amides are excellent mimics of phosphate internucleoside linkages and are well tolerated in short interfering RNAs. Nucleic Acids Research. 42: 6542-51. PMID 24813446 DOI: 10.1093/Nar/Gku235 |
0.441 |
|
| 2014 |
Pallan PS, Yang X, Sierant M, Abeydeera ND, Hassell T, Martinez C, Janicka M, Nawrot B, Egli M. Crystal structure, stability and Ago2 affinity of phosphorodithioate-modified RNAs Rsc Advances. 4: 64901-64904. DOI: 10.1039/C4Ra10986D |
0.429 |
|
| 2013 |
Kowal EA, Lad RR, Pallan PS, Dhummakupt E, Wawrzak Z, Egli M, Sturla SJ, Stone MP. Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction. Nucleic Acids Research. 41: 7566-76. PMID 23748954 DOI: 10.1093/Nar/Gkt488 |
0.378 |
|
| 2013 |
Seth PP, Pallan PS, Swayze EE, Egli M. Synthesis, duplex stabilization and structural properties of a fluorinated carbocyclic LNA analogue. Chembiochem : a European Journal of Chemical Biology. 14: 58-62. PMID 23193103 DOI: 10.1002/Cbic.201200669 |
0.591 |
|
| 2013 |
Egli M, Minasov G, Tereshko V, Pallan PS, Teplova M, Inamati GB, Lesnik EA, Owens SR, Ross BS, Prakash TP, Manoharan M. Erratum: Probing the influence of stereoelectronic effects on the biophysical properties of oligonucleotides: Comprehensive analysis of the RNA affinity, nuclease resistance, and crystal structure of ten 2′- O -ribonucleic acid modifications (Biochemistry (2005) 44: 25 (9045-9057) DOI: 10.1021/bi050574m) Biochemistry. 52. DOI: 10.1021/Bi4002166 |
0.437 |
|
| 2012 |
Pallan PS, Allerson CR, Berdeja A, Seth PP, Swayze EE, Prakash TP, Egli M. Structure and nuclease resistance of 2',4'-constrained 2'-O-methoxyethyl (cMOE) and 2'-O-ethyl (cEt) modified DNAs. Chemical Communications (Cambridge, England). 48: 8195-7. PMID 22614180 DOI: 10.1039/C2Cc32286B |
0.663 |
|
| 2012 |
Seth PP, Yu J, Jazayeri A, Pallan PS, Allerson CR, Østergaard ME, Liu F, Herdewijn P, Egli M, Swayze EE. Synthesis and antisense properties of fluoro cyclohexenyl nucleic acid (F-CeNA), a nuclease stable mimic of 2'-fluoro RNA. The Journal of Organic Chemistry. 77: 5074-85. PMID 22591005 DOI: 10.1021/Jo300594B |
0.413 |
|
| 2012 |
Zhao L, Christov PP, Kozekov ID, Pence MG, Pallan PS, Rizzo CJ, Egli M, Guengerich FP. Replication of N2,3-ethenoguanine by DNA polymerases. Angewandte Chemie (International Ed. in English). 51: 5466-9. PMID 22488769 DOI: 10.1002/Anie.201109004 |
0.422 |
|
| 2012 |
Pallan PS, Marquez VE, Egli M. The conformationally constrained N-methanocarba-dT analogue adopts an unexpected C4'-exo sugar pucker in the structure of a DNA hairpin. Biochemistry. 51: 2639-41. PMID 22409313 DOI: 10.1021/Bi300215K |
0.44 |
|
| 2012 |
Pallan PS, Yu J, Allerson CR, Swayze EE, Seth P, Egli M. Insights from crystal structures into the opposite effects on RNA affinity caused by the S- and R-6'-methyl backbone modifications of 3'-fluoro hexitol nucleic acid. Biochemistry. 51: 7-9. PMID 22229409 DOI: 10.1021/Bi201810R |
0.456 |
|
| 2011 |
Kowal EA, Ganguly M, Pallan PS, Marky LA, Gold B, Egli M, Stone MP. Altering the electrostatic potential in the major groove: thermodynamic and structural characterization of 7-deaza-2'-deoxyadenosine:dT base pairing in DNA. The Journal of Physical Chemistry. B. 115: 13925-34. PMID 22059929 DOI: 10.1021/Jp207104W |
0.464 |
|
| 2011 |
Egli M, Pallan PS, Allerson CR, Prakash TP, Berdeja A, Yu J, Lee S, Watt A, Gaus H, Bhat B, Swayze EE, Seth PP. Synthesis, improved antisense activity and structural rationale for the divergent RNA affinities of 3'-fluoro hexitol nucleic acid (FHNA and Ara-FHNA) modified oligonucleotides. Journal of the American Chemical Society. 133: 16642-9. PMID 21919455 DOI: 10.1021/Ja207086X |
0.685 |
|
| 2011 |
Manoharan M, Akinc A, Pandey RK, Qin J, Hadwiger P, John M, Mills K, Charisse K, Maier MA, Nechev L, Greene EM, Pallan PS, Rozners E, Rajeev KG, Egli M. Unique gene-silencing and structural properties of 2'-fluoro-modified siRNAs. Angewandte Chemie (International Ed. in English). 50: 2284-8. PMID 21351337 DOI: 10.1002/Anie.201006519 |
0.646 |
|
| 2011 |
Pallan PS, Greene EM, Jicman PA, Pandey RK, Manoharan M, Rozners E, Egli M. Unexpected origins of the enhanced pairing affinity of 2'-fluoro-modified RNA. Nucleic Acids Research. 39: 3482-95. PMID 21183463 DOI: 10.1093/Nar/Gkq1270 |
0.422 |
|
| 2010 |
Seth PP, Allerson CR, Berdeja A, Siwkowski A, Pallan PS, Gaus H, Prakash TP, Watt AT, Egli M, Swayze EE. An exocyclic methylene group acts as a bioisostere of the 2'-oxygen atom in LNA. Journal of the American Chemical Society. 132: 14942-50. PMID 20886816 DOI: 10.1021/Ja105875E |
0.659 |
|
| 2010 |
Egli M, Pallan PS. The many twists and turns of DNA: template, telomere, tool, and target. Current Opinion in Structural Biology. 20: 262-75. PMID 20381338 DOI: 10.1016/J.Sbi.2010.03.001 |
0.548 |
|
| 2010 |
Egli M, Pallan PS. Crystallographic studies of chemically modified nucleic acids: a backward glance. Chemistry & Biodiversity. 7: 60-89. PMID 20087997 DOI: 10.1002/Cbdv.200900177 |
0.536 |
|
| 2010 |
Kumar V, Pallan PS, Meena M, Ganesh KN. ChemInform Abstract: Pyrrolidine Nucleic Acids: DNA/PNA Oligomers with 2-Hydroxy/Aminomethyl-4-(thymin-1-yl)pyrrolidine-N-acetic Acid. Cheminform. 32: no-no. DOI: 10.1002/CHIN.200134222 |
0.583 |
|
| 2010 |
GANESH KN, KUMAR VA, BARAWKAR DA, RAJEEV KG, PRAKASH TP, PALLAN PS, RANA VS. ChemInform Abstract: Stabilization of DNA Structures Through Nucleobase Modifications and Bisguanidinium Polyamines. Cheminform. 28: no-no. DOI: 10.1002/CHIN.199749246 |
0.742 |
|
| 2009 |
Kolarovic A, Schweizer E, Greene E, Gironda M, Pallan PS, Egli M, Rozners E. Interplay of structure, hydration and thermal stability in formacetal modified oligonucleotides: RNA may tolerate nonionic modifications better than DNA. Journal of the American Chemical Society. 131: 14932-7. PMID 19824732 DOI: 10.1021/Ja904926E |
0.574 |
|
| 2009 |
Pallan PS, Egli M. Pairing geometry of the hydrophobic thymine analogue 2,4-difluorotoluene in duplex DNA as analyzed by X-ray crystallography. Journal of the American Chemical Society. 131: 12548-9. PMID 19685868 DOI: 10.1021/Ja905739J |
0.462 |
|
| 2009 |
Pallan PS, Prakash TP, Li F, Eoff RL, Manoharan M, Egli M. A conformational transition in the structure of a 2'-thiomethyl-modified DNA visualized at high resolution. Chemical Communications (Cambridge, England). 2017-9. PMID 19333476 DOI: 10.1039/B822781K |
0.701 |
|
| 2008 |
Pallan PS, Kreutz C, Bosio S, Micura R, Egli M. Effects of N2,N2-dimethylguanosine on RNA structure and stability: crystal structure of an RNA duplex with tandem m2 2G:A pairs. Rna (New York, N.Y.). 14: 2125-35. PMID 18772248 DOI: 10.1261/Rna.1078508 |
0.428 |
|
| 2008 |
Pallan PS, Egli M. Insights into RNA/DNA hybrid recognition and processing by RNase H from the crystal structure of a non-specific enzyme-dsDNA complex. Cell Cycle (Georgetown, Tex.). 7: 2562-9. PMID 18719385 DOI: 10.4161/Cc.7.16.6461 |
0.554 |
|
| 2008 |
Pallan PS, Ittig D, Héroux A, Wawrzak Z, Leumann CJ, Egli M. Crystal structure of tricyclo-DNA: an unusual compensatory change of two adjacent backbone torsion angles. Chemical Communications (Cambridge, England). 883-5. PMID 18253536 DOI: 10.1039/B716390H |
0.565 |
|
| 2007 |
Irimia A, Eoff RL, Pallan PS, Guengerich FP, Egli M. Structure and activity of Y-class DNA polymerase DPO4 from Sulfolobus solfataricus with templates containing the hydrophobic thymine analog 2,4-difluorotoluene. The Journal of Biological Chemistry. 282: 36421-33. PMID 17951245 DOI: 10.1074/Jbc.M707267200 |
0.536 |
|
| 2007 |
Pallan PS, Lubini P, Bolli M, Egli M. Backbone-base inclination as a fundamental determinant of nucleic acid self- and cross-pairing. Nucleic Acids Research. 35: 6611-24. PMID 17905816 DOI: 10.1093/Nar/Gkm612 |
0.599 |
|
| 2007 |
Li F, Pallan PS, Maier MA, Rajeev KG, Mathieu SL, Kreutz C, Fan Y, Sanghvi J, Micura R, Rozners E, Manoharan M, Egli M. Crystal structure, stability and in vitro RNAi activity of oligoribonucleotides containing the ribo-difluorotoluyl nucleotide: insights into substrate requirements by the human RISC Ago2 enzyme. Nucleic Acids Research. 35: 6424-38. PMID 17881374 DOI: 10.1093/Nar/Gkm664 |
0.674 |
|
| 2007 |
Pallan PS, Egli M. Selenium modification of nucleic acids: preparation of oligonucleotides with incorporated 2'-SeMe-uridine for crystallographic phasing of nucleic acid structures. Nature Protocols. 2: 647-51. PMID 17406626 DOI: 10.1038/Nprot.2007.75 |
0.409 |
|
| 2007 |
Pallan PS, Egli M. Selenium modification of nucleic acids: preparation of phosphoroselenoate derivatives for crystallographic phasing of nucleic acid structures. Nature Protocols. 2: 640-6. PMID 17406625 DOI: 10.1038/Nprot.2007.74 |
0.348 |
|
| 2007 |
Pallan PS, Lubini P, Egli M. A left-handed supramolecular assembly around a right-handed screw axis in the crystal structure of homo-DNA. Chemical Communications (Cambridge, England). 1447-9. PMID 17389988 DOI: 10.1039/B614983A |
0.514 |
|
| 2007 |
Egli M, Pallan PS. Insights from crystallographic studies into the structural and pairing properties of nucleic acid analogs and chemically modified DNA and RNA oligonucleotides. Annual Review of Biophysics and Biomolecular Structure. 36: 281-305. PMID 17288535 DOI: 10.1146/Annurev.Biophys.36.040306.132556 |
0.56 |
|
| 2007 |
Egli M, Lubini P, Pallan PS. The long and winding road to the structure of homo-DNA. Chemical Society Reviews. 36: 31-45. PMID 17173143 DOI: 10.1039/B606807C |
0.578 |
|
| 2006 |
Egli M, Pallan PS, Pattanayek R, Wilds CJ, Lubini P, Minasov G, Dobler M, Leumann CJ, Eschenmoser A. Crystal structure of homo-DNA and nature's choice of pentose over hexose in the genetic system. Journal of the American Chemical Society. 128: 10847-56. PMID 16910680 DOI: 10.1021/Ja062548X |
0.574 |
|
| 2006 |
Pallan PS, von Matt P, Wilds CJ, Altmann KH, Egli M. RNA-Binding affinities and crystal structure of oligonucleotides containing five-atom amide-based backbone structures. Biochemistry. 45: 8048-57. PMID 16800629 DOI: 10.1021/Bi060354O |
0.57 |
|
| 2005 |
Pallan PS, Marshall WS, Harp J, Jewett FC, Wawrzak Z, Brown BA, Rich A, Egli M. Crystal structure of a luteoviral RNA pseudoknot and model for a minimal ribosomal frameshifting motif. Biochemistry. 44: 11315-22. PMID 16114868 DOI: 10.1021/Bi051061I |
0.42 |
|
| 2005 |
Haeberli P, Berger I, Pallan PS, Egli M. Syntheses of 4'-thioribonucleosides and thermodynamic stability and crystal structure of RNA oligomers with incorporated 4'-thiocytosine. Nucleic Acids Research. 33: 3965-3975. PMID 16027443 DOI: 10.1093/Nar/Gki704 |
0.498 |
|
| 2005 |
Egli M, Minasov G, Tereshko V, Pallan PS, Teplova M, Inamati GB, Lesnik EA, Owens SR, Ross BS, Prakash TP, Manoharan M. Probing the influence of stereoelectronic effects on the biophysical properties of oligonucleotides: comprehensive analysis of the RNA affinity, nuclease resistance, and crystal structure of ten 2'-O-ribonucleic acid modifications. Biochemistry. 44: 9045-57. PMID 15966728 DOI: 10.1021/Bi050574M |
0.68 |
|
| 2004 |
Kumar VA, D'costa M, Lonkar PS, Meena, Pallan PS, Ganesh KN. Conformationally restricted cationic polyamide analogs of nucleic acids: Design, synthesis, and DNA/RNA binding studies Pure and Applied Chemistry. 76: 1599-1603. DOI: 10.1351/Pac200476071599 |
0.67 |
|
| 2003 |
Pallan PS, Wilds CJ, Wawrzak Z, Krishnamurthy R, Eschenmoser A, Egli M. Why does TNA cross-pair more strongly with RNA than with DNA? an answer from X-ray analysis. Angewandte Chemie (International Ed. in English). 42: 5893-5. PMID 14673929 DOI: 10.1002/Anie.200352553 |
0.584 |
|
| 2001 |
Kumar V, Pallan PS, Meena M, Ganesh KN. Pyrrolidine nucleic acids: DNA/PNA oligomers with 2-hydroxy/aminomethyl- 4-(thymin-1-yl)pyrrolidine-N-acetic acid. Organic Letters. 3: 1269-72. PMID 11348211 DOI: 10.1021/Ol0069655 |
0.678 |
|
| 1997 |
Ganesh KN, Rajeev KG, Pallan PS, Rana VS, Barawkar DA, Kumar VA. Modulation of DNA Triplex Stability Through Nucleobase Modifications Nucleosides and Nucleotides. 16: 1271-1278. DOI: 10.1080/07328319708006169 |
0.676 |
|
| 1996 |
Pallan PS, Ganesh KN. DNA triple helix stabilization by bisguanidinyl analogues of biogenic polyamines. Biochemical and Biophysical Research Communications. 222: 416-20. PMID 8670220 DOI: 10.1006/Bbrc.1996.0759 |
0.694 |
|
| Show low-probability matches. |