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Brent M. Znosko - Publications

Affiliations: 
Integrated and Applied Sciences Saint Louis University, St. Louis, MO, United States 
Area:
Physical Chemistry, Biochemistry
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47 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
2023 Sieg JP, Arteaga SJ, Znosko BM, Bevilacqua PC. MeltR software provides facile determination of nucleic acid thermodynamics. Biophysical Reports. 3: 100101. PMID 37006960 DOI: 10.1016/j.bpr.2023.100101  0.349
2023 Saon M, Kirkpatrick CC, Znosko BM. Identification and characterization of RNA pentaloop sequence families. Nar Genomics and Bioinformatics. 5: lqac102. PMID 36632613 DOI: 10.1093/nargab/lqac102  0.385
2022 Arteaga SJ, Adams MS, Meyer NL, Richardson KE, Hoener S, Znosko BM. Thermodynamic Determination of RNA Duplex Stability in Magnesium Solutions. Biophysical Journal. PMID 36540026 DOI: 10.1016/j.bpj.2022.12.025  0.527
2022 Saon MS, Znosko BM. Thermodynamic characterization of naturally occurring RNA pentaloops. Rna (New York, N.Y.). 28: 832-841. PMID 35318243 DOI: 10.1261/rna.078915.121  0.56
2020 Hopfinger MC, Kirkpatrick CC, Znosko BM. Predictions and analyses of RNA nearest neighbor parameters for modified nucleotides. Nucleic Acids Research. PMID 32810273 DOI: 10.1093/Nar/Gkaa654  0.548
2020 Richardson KE, Kirkpatrick CC, Znosko BM. RNA CoSSMos 2.0: an improved searchable database of secondary structure motifs in RNA three-dimensional structures. Database : the Journal of Biological Databases and Curation. 2020. PMID 31950189 DOI: 10.1093/Database/Baz153  0.567
2019 Richardson KE, Adams MS, Kirkpatrick CC, Gohara DW, Znosko BM. Identification and Characterization of New RNA Tetraloop Sequence Families. Biochemistry. PMID 31714066 DOI: 10.1021/Acs.Biochem.9B00535  0.572
2019 Ferreira I, Jolley EA, Znosko BM, Weber G. Replacing salt correction factors with optimized RNA nearest-neighbour enthalpy and entropy parameters. Chemical Physics. 521: 69-76. PMID 31598030 DOI: 10.1016/J.Chemphys.2019.01.016  0.467
2019 Adams MS, Znosko BM. Thermodynamic characterization and nearest neighbor parameters for RNA duplexes under molecular crowding conditions. Nucleic Acids Research. PMID 30698818 DOI: 10.1093/Nar/Gkz019  0.639
2019 Lisowiec-Wachnicka J, Znosko BM, Pasternak A. Contribution of 3'T and 3'TT overhangs to the thermodynamic stability of model siRNA duplexes. Biophysical Chemistry. 246: 35-39. PMID 30660935 DOI: 10.1016/J.Bpc.2018.12.006  0.538
2018 Wright DJ, Force CR, Znosko BM. Stability of RNA duplexes containing inosine·cytosine pairs. Nucleic Acids Research. PMID 30365006 DOI: 10.1093/Nar/Gky907  0.626
2018 Jolley EA, Hardebeck LKE, Ren Y, Adams MS, Lewis M, Znosko BM. The effects of varying the substituent and DNA sequence on the stability of 4-substituted DNA-naphthalimide complexes. Biophysical Chemistry. 239: 29-37. PMID 29804029 DOI: 10.1016/J.Bpc.2018.04.008  0.334
2018 Berger KD, Kennedy SD, Schroeder SJ, Znosko BM, Sun H, Mathews DH, Turner DH. Surprising Sequence Effects on GU Closure of Symmetric 2 × 2 Nucleotide RNA Internal Loops. Biochemistry. PMID 29570276 DOI: 10.1021/Acs.Biochem.7B01306  0.594
2017 Jolley EA, Znosko BM. The loss of a hydrogen bond: Thermodynamic contributions of a non-standard nucleotide. Nucleic Acids Research. 45: 1479-1487. PMID 28180321 DOI: 10.1093/Nar/Gkw830  0.567
2016 Jolley EA, Znosko BM. The loss of a hydrogen bond: Thermodynamic contributions of a non-standard nucleotide. Nucleic Acids Research. PMID 27651449 DOI: 10.1093/nar/gkw830  0.5
2016 Richardson KE, Znosko BM. Nearest-neighbor parameters for 7-deaza-adenosine·uridine base pairs in RNA duplexes. Rna (New York, N.Y.). PMID 27099368 DOI: 10.1261/Rna.055277.115  0.652
2015 Jolley EA, Lewis M, Znosko BM. A Computational Model for Predicting Experimental RNA Nearest-Neighbor Free Energy Rankings: Inosine•Uridine Pairs. Chemical Physics Letters. 639: 157-60. PMID 26525429 DOI: 10.1016/J.Cplett.2015.09.005  0.563
2015 Tomcho JC, Tillman MR, Znosko BM. Improved Model for Predicting the Free Energy Contribution of Dinucleotide Bulges to RNA Duplex Stability. Biochemistry. 54: 5290-6. PMID 26286708 DOI: 10.1021/Acs.Biochem.5B00474  0.647
2015 Johnson CA, Hudson GA, Hardebeck LK, Jolley EA, Ren Y, Lewis M, Znosko BM. Effect of intercalator substituent and nucleotide sequence on the stability of DNA- and RNA-naphthalimide complexes. Bioorganic & Medicinal Chemistry. 23: 3586-91. PMID 25960324 DOI: 10.1016/J.Bmc.2015.04.030  0.445
2014 Murray MH, Hard JA, Znosko BM. Improved model to predict the free energy contribution of trinucleotide bulges to RNA duplex stability. Biochemistry. 53: 3502-8. PMID 24853497 DOI: 10.1021/bi500204e  0.604
2013 Chen Z, Znosko BM. Effect of sodium ions on RNA duplex stability. Biochemistry. 52: 7477-85. PMID 24106785 DOI: 10.1021/Bi4008275  0.532
2013 Hudson GA, Bloomingdale RJ, Znosko BM. Thermodynamic contribution and nearest-neighbor parameters of pseudouridine-adenosine base pairs in oligoribonucleotides. Rna (New York, N.Y.). 19: 1474-82. PMID 24062573 DOI: 10.1261/Rna.039610.113  0.605
2013 Grohman JK, Gorelick RJ, Lickwar CR, Lieb JD, Bower BD, Znosko BM, Weeks KM. A guanosine-centric mechanism for RNA chaperone function. Science (New York, N.Y.). 340: 190-5. PMID 23470731 DOI: 10.1126/Science.1230715  0.575
2013 Hardebeck LKE, Johnson CA, Hudson GA, Ren Y, Watt M, Kirkpatrick CC, Znosko BM, Lewis M. Predicting DNA-intercalator binding: The development of an arene-arene stacking parameter from SAPT analysis of benzene-substituted benzene complexes Journal of Physical Organic Chemistry. 26: 879-884. DOI: 10.1002/Poc.3184  0.365
2012 Hausmann NZ, Znosko BM. Thermodynamic characterization of RNA 2 × 3 nucleotide internal loops. Biochemistry. 51: 5359-68. PMID 22720720 DOI: 10.1021/Bi3001227  0.645
2012 Vanegas PL, Horwitz TS, Znosko BM. Effects of non-nearest neighbors on the thermodynamic stability of RNA GNRA hairpin tetraloops. Biochemistry. 51: 2192-8. PMID 22329761 DOI: 10.1021/Bi300008J  0.604
2012 Levengood JD, Rollins C, Mishler CH, Johnson CA, Miner G, Rajan P, Znosko BM, Tolbert BS. Solution structure of the HIV-1 exon splicing silencer 3. Journal of Molecular Biology. 415: 680-98. PMID 22154809 DOI: 10.1016/J.Jmb.2011.11.034  0.428
2012 Vanegas PL, Hudson GA, Davis AR, Kelly SC, Kirkpatrick CC, Znosko BM. RNA CoSSMos: Characterization of Secondary Structure Motifs--a searchable database of secondary structure motifs in RNA three-dimensional structures. Nucleic Acids Research. 40: D439-44. PMID 22127861 DOI: 10.1093/Nar/Gkr943  0.698
2012 Johnson CA, Bloomingdale RJ, Ponnusamy VE, Tillinghast CA, Znosko BM, Lewis M. Reply to "comment on 'computational model for predicting experimental RNA and DNA nearest-neighbor free energy rankings'", Journal of Physical Chemistry B. 116: 8333-8334. DOI: 10.1021/Jp303191V  0.539
2011 Johnson CA, Bloomingdale RJ, Ponnusamy VE, Tillinghast CA, Znosko BM, Lewis M. Computational model for predicting experimental RNA and DNA nearest-neighbor free energy rankings. The Journal of Physical Chemistry. B. 115: 9244-51. PMID 21619071 DOI: 10.1021/Jp2012733  0.529
2011 Davis AR, Kirkpatrick CC, Znosko BM. Structural characterization of naturally occurring RNA single mismatches. Nucleic Acids Research. 39: 1081-94. PMID 20876693 DOI: 10.1093/Nar/Gkq793  0.707
2010 Thulasi P, Pandya LK, Znosko BM. Thermodynamic characterization of RNA triloops. Biochemistry. 49: 9058-62. PMID 20843054 DOI: 10.1021/Bi101164S  0.576
2010 Davis AR, Znosko BM. Positional and neighboring base pair effects on the thermodynamic stability of RNA single mismatches. Biochemistry. 49: 8669-79. PMID 20681613 DOI: 10.1021/Bi100146Z  0.72
2010 Sheehy JP, Davis AR, Znosko BM. Thermodynamic characterization of naturally occurring RNA tetraloops. Rna (New York, N.Y.). 16: 417-29. PMID 20047989 DOI: 10.1261/Rna.1773110  0.719
2009 Christiansen ME, Znosko BM. Thermodynamic characterization of tandem mismatches found in naturally occurring RNA. Nucleic Acids Research. 37: 4696-706. PMID 19509311 DOI: 10.1093/Nar/Gkp465  0.552
2008 Davis AR, Znosko BM. Thermodynamic characterization of naturally occurring RNA single mismatches with G-U nearest neighbors. Biochemistry. 47: 10178-87. PMID 18754680 DOI: 10.1021/Bi800471Z  0.683
2008 Christiansen ME, Znosko BM. Thermodynamic characterization of the complete set of sequence symmetric tandem mismatches in RNA and an improved model for predicting the free energy contribution of sequence asymmetric tandem mismatches. Biochemistry. 47: 4329-36. PMID 18330995 DOI: 10.1021/Bi7020876  0.613
2007 Badhwar J, Karri S, Cass CK, Wunderlich EL, Znosko BM. Thermodynamic characterization of RNA duplexes containing naturally occurring 1 x 2 nucleotide internal loops. Biochemistry. 46: 14715-24. PMID 18020450 DOI: 10.1021/Bi701024W  0.562
2007 Davis AR, Znosko BM. Thermodynamic characterization of single mismatches found in naturally occurring RNA. Biochemistry. 46: 13425-36. PMID 17958380 DOI: 10.1021/Bi701311C  0.734
2007 Wright DJ, Rice JL, Yanker DM, Znosko BM. Nearest neighbor parameters for inosine x uridine pairs in RNA duplexes. Biochemistry. 46: 4625-34. PMID 17378583 DOI: 10.1021/Bi0616910  0.471
2005 Chen G, Znosko BM, Kennedy SD, Krugh TR, Turner DH. Solution structure of an RNA internal loop with three consecutive sheared GA pairs. Biochemistry. 44: 2845-56. PMID 15723528 DOI: 10.1021/Bi048079Y  0.498
2004 Znosko BM, Kennedy SD, Wille PC, Krugh TR, Turner DH. Structural features and thermodynamics of the J4/5 loop from the Candida albicans and Candida dubliniensis group I introns. Biochemistry. 43: 15822-37. PMID 15595837 DOI: 10.1021/Bi049256Y  0.432
2004 Chen G, Znosko BM, Jiao X, Turner DH. Factors affecting thermodynamic stabilities of RNA 3 x 3 internal loops. Biochemistry. 43: 12865-76. PMID 15461459 DOI: 10.1021/Bi049168D  0.474
2003 Znosko BM, Barnes TW, Krugh TR, Turner DH. NMR studies of DNA single strands and DNA:RNA hybrids with and without 1-propynylation at C5 of oligopyrimidines. Journal of the American Chemical Society. 125: 6090-7. PMID 12785839 DOI: 10.1021/Ja021285D  0.431
2002 Znosko BM, Burkard ME, Krugh TR, Turner DH. Molecular recognition in purine-rich internal loops: thermodynamic, structural, and dynamic consequences of purine for adenine substitutions in 5'(rGGCAAGCCU)2. Biochemistry. 41: 14978-87. PMID 12475247 DOI: 10.1021/Bi0203278  0.384
2002 Znosko BM, Burkard ME, Schroeder SJ, Krugh TR, Turner DH. Sheared Aanti.Aanti base pairs in a destabilizing 2 x 2 internal loop: the NMR structure of 5'(rGGCAAGCCU)2. Biochemistry. 41: 14969-77. PMID 12475246 DOI: 10.1021/Bi020326F  0.385
2002 Znosko BM, Silvestri SB, Volkman H, Boswell B, Serra MJ. Thermodynamic parameters for an expanded nearest-neighbor model for the formation of RNA duplexes with single nucleotide bulges. Biochemistry. 41: 10406-17. PMID 12173927 DOI: 10.1021/Bi025781Q  0.591
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