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Publications of Amanda Hargrove    :chronological  alphabetical  combined  bibtex listing:

Books

  1. Hargrove, AE, Preface, vol. 623 (January, 2019), pp. xv-xvii, ISBN 9780128168318 [doi]

Journal Articles

  1. Bailey, MA; Martyr, JG; Hargrove, AE; Fitzgerald, MC, Stability-Based Proteomics for Investigation of Structured RNA-Protein Interactions., Analytical chemistry (February, 2024) [doi]  [abs]
  2. Hymon, D; Martins, J; Richter, C; Sreeramulu, S; Wacker, A; Ferner, J; Patwardhan, NN; Hargrove, AE; Schwalbe, H, NMR <sup>1</sup>H,<sup>19</sup>F-based screening of the four stem-looped structure 5_SL1-SL4 located in the 5'-untranslated region of SARS-CoV 2 RNA., RSC medicinal chemistry, vol. 15 no. 1 (January, 2024), pp. 165-177, Royal Society of Chemistry (RSC) [doi]  [abs]
  3. Vögele, J; Hymon, D; Martins, J; Ferner, J; Jonker, HRA; Hargrove, AE; Weigand, JE; Wacker, A; Schwalbe, H; Wöhnert, J; Duchardt-Ferner, E, High-resolution structure of stem-loop 4 from the 5'-UTR of SARS-CoV-2 solved by solution state NMR., Nucleic acids research, vol. 51 no. 20 (November, 2023), pp. 11318-11331 [doi]  [abs]
  4. Bagnolini, G; Luu, TB; Hargrove, AE, Recognizing the power of machine learning and other computational methods to accelerate progress in small molecule targeting of RNA., RNA (New York, N.Y.), vol. 29 no. 4 (April, 2023), pp. 473-488, Cold Spring Harbor Laboratory [doi]  [abs]
  5. Davila-Calderon, J; Li, M-L; Penumutchu, SR; Haddad, C; Malcolm, L; Hargrove, AE; Brewer, G; Tolbert, BS, Enterovirus Evolution Reveals the Mechanism of an RNA-Targeted Antiviral and Determinants of Viral Replication, in Cold Spring Harbor Laboratory, vol. 10 no. 7 (February, 2023), pp. eadg3060, American Association for the Advancement of Science (AAAS) [doi]  [abs]
  6. Zafferani, M; Martyr, JG; Muralidharan, D; Montalvan, NI; Cai, Z; Hargrove, AE, Multiassay Profiling of a Focused Small Molecule Library Reveals Predictive Bidirectional Modulation of the lncRNA MALAT1 Triplex Stability In Vitro., ACS chemical biology, vol. 17 no. 9 (September, 2022), pp. 2437-2447 [doi]  [abs]
  7. Zafferani, M; Muralidharan, D; Montalvan, NI; Hargrove, AE, RT-qPCR as a screening platform for mutational and small molecule impacts on structural stability of RNA tertiary structures., RSC chemical biology, vol. 3 no. 7 (July, 2022), pp. 905-915 [doi]  [abs]
  8. Donlic, A; Swanson, EG; Chiu, L-Y; Wicks, SL; Juru, AU; Cai, Z; Kassam, K; Laudeman, C; Sanaba, BG; Sugarman, A; Han, E; Tolbert, BS; Hargrove, AE, R-BIND 2.0: An Updated Database of Bioactive RNA-Targeting Small Molecules and Associated RNA Secondary Structures., ACS chemical biology, vol. 17 no. 6 (June, 2022), pp. 1556-1566 [doi]  [abs]
  9. Cai, Z; Zafferani, M; Akande, OM; Hargrove, AE, Quantitative Structure-Activity Relationship (QSAR) Study Predicts Small-Molecule Binding to RNA Structure., Journal of medicinal chemistry, vol. 65 no. 10 (May, 2022), pp. 7262-7277 [doi]  [abs]
  10. Haddad, C; Tolbert, BS; Hargrove, AE; Brewer, G; Li, ML, The Discovery of Antivirals and Targets for SARS-CoV-2 and EV-A71, FASEB journal : official publication of the Federation of American Societies for Experimental Biology, vol. 36 (May, 2022) [doi]  [abs]
  11. Cai, Z; Zafferani, M; Akande, O; Hargrove, A, Quantitative Structure Activity Relationship (QSAR) study predicts small molecule binding to RNA structure (December, 2021) [doi]  [abs]
  12. Cable, J; Heard, E; Hirose, T; Prasanth, KV; Chen, L-L; Henninger, JE; Quinodoz, SA; Spector, DL; Diermeier, SD; Porman, AM; Kumar, D; Feinberg, MW; Shen, X; Unfried, JP; Johnson, R; Chen, C-K; Wilusz, JE; Lempradl, A; McGeary, SE; Wahba, L; Pyle, AM; Hargrove, AE; Simon, MD; Marcia, M; Przanowska, RK; Chang, HY; Jaffrey, SR; Contreras, LM; Chen, Q; Shi, J; Mendell, JT; He, L; Song, E; Rinn, JL; Lalwani, MK; Kalem, MC; Chuong, EB; Maquat, LE; Liu, X, Noncoding RNAs: biology and applications-a Keystone Symposia report., Annals of the New York Academy of Sciences, vol. 1506 no. 1 (December, 2021), pp. 118-141 [doi]  [abs]
  13. Zafferani, M; Haddad, C; Luo, L; Davila-Calderon, J; Chiu, L-Y; Mugisha, CS; Monaghan, AG; Kennedy, AA; Yesselman, JD; Gifford, RJ; Tai, AW; Kutluay, SB; Li, M-L; Brewer, G; Tolbert, BS; Hargrove, AE, Amilorides inhibit SARS-CoV-2 replication in vitro by targeting RNA structures., Science advances, vol. 7 no. 48 (November, 2021), pp. eabl6096, American Association for the Advancement of Science (AAAS) [doi]  [abs]
  14. Cai, Z; Zafferani, M; Hargrove, A, Ensemble learning-based quantitative structure-activity relationship platform predicts binding behavior of RNA-targeted small molecules (July, 2021) [doi]  [abs]
  15. Zafferani, M; Hargrove, AE, Small molecule targeting of biologically relevant RNA tertiary and quaternary structures., Cell chemical biology, vol. 28 no. 5 (May, 2021), pp. 594-609, Elsevier BV [doi]  [abs]
  16. Falese, JP; Donlic, A; Hargrove, AE, Targeting RNA with small molecules: from fundamental principles towards the clinic., Chemical Society reviews, vol. 50 no. 4 (March, 2021), pp. 2224-2243 [doi]  [abs]
  17. Umuhire Juru, A; Hargrove, AE, Frameworks for targeting RNA with small molecules., The Journal of biological chemistry, vol. 296 (January, 2021), pp. 100191 [doi]  [abs]
  18. Falese, J; McFadden, E; D’Inzeo, C; Hargrove, A, Structural analysis of the lncRNA SChLAP1 reveals protein binding interfaces and a conformationally heterogenous retroviral insertion (2021) [doi]  [abs]
  19. Martina, Z; Christina, H; Le, L; Jesse, D-C; Liang, Y-C; Christian, SM; Monaghan, AG; Kennedy, AA; Yesselman, JD; Gifford, RR; Tai, AW; Kutluay, SB; Li, M-L; Brewer, G; Tolbert, BS; Hargrove, AE, Amilorides inhibit SARS-CoV-2 replication in vitro by targeting RNA structures., bioRxiv (December, 2020) [doi]  [abs]
  20. Hargrove, AE, Small molecule-RNA targeting: starting with the fundamentals., Chemical communications (Cambridge, England), vol. 56 no. 94 (November, 2020), pp. 14744-14756 [doi]  [abs]
  21. Davila-Calderon, J; Patwardhan, NN; Chiu, L-Y; Sugarman, A; Cai, Z; Penutmutchu, SR; Li, M-L; Brewer, G; Hargrove, AE; Tolbert, BS, IRES-targeting small molecule inhibits enterovirus 71 replication via allosteric stabilization of a ternary complex., Nature communications, vol. 11 no. 1 (September, 2020), pp. 4775, Springer Science and Business Media LLC [doi]  [abs]
  22. Donlic, A; Zafferani, M; Padroni, G; Puri, M; Hargrove, AE, Regulation of MALAT1 triple helix stability and in vitro degradation by diphenylfurans., Nucleic acids research, vol. 48 no. 14 (August, 2020), pp. 7653-7664 [doi]  [abs]
  23. Padroni, G; Patwardhan, NN; Schapira, M; Hargrove, AE, Systematic analysis of the interactions driving small molecule-RNA recognition., RSC medicinal chemistry, vol. 11 no. 7 (July, 2020), pp. 802-813 [doi]  [abs]
  24. Umuhire Juru, A; Cai, Z; Jan, A; Hargrove, AE, Template-guided selection of RNA ligands using imine-based dynamic combinatorial chemistry., Chemical communications (Cambridge, England), vol. 56 no. 24 (March, 2020), pp. 3555-3558 [doi]  [abs]
  25. Ganser, LR; Kelly, ML; Patwardhan, NN; Hargrove, AE; Al-Hashimi, HM, Demonstration that Small Molecules can Bind and Stabilize Low-abundance Short-lived RNA Excited Conformational States., J Mol Biol, vol. 432 no. 4 (February, 2020), pp. 1297-1304 [doi]  [abs]
  26. Hargrove, AE, The next 20 years of Medicinal Research Reviews., Medicinal research reviews, vol. 40 no. 1 (January, 2020), pp. 7-8 [doi]
  27. Davila-Calderon, J; Patwardhan, N; Chiu, L-Y; Sugarman, A; Cai, Z; Penutmutchu, S; Li, M-L; Brewer, G; Hargrove, A; Tolbert, B, Small Molecule Targeting IRES Domain Inhibits Enterovirus 71 Replication via an Allosteric Mechanism that Stabilizes a Ternary Complex (2020) [doi]  [abs]
  28. Morgan, BS; Sanaba, BG; Donlic, A; Karloff, DB; Forte, JE; Zhang, Y; Hargrove, AE, R-BIND: An Interactive Database for Exploring and Developing RNA-Targeted Chemical Probes., ACS chemical biology, vol. 14 no. 12 (December, 2019), pp. 2691-2700 [doi]  [abs]
  29. Patwardhan, NN; Cai, Z; Umuhire Juru, A; Hargrove, AE, Driving factors in amiloride recognition of HIV RNA targets., Organic & biomolecular chemistry, vol. 17 no. 42 (October, 2019), pp. 9313-9320 [doi]  [abs]
  30. Wicks, SL; Hargrove, AE, Fluorescent indicator displacement assays to identify and characterize small molecule interactions with RNA., Methods (San Diego, Calif.), vol. 167 (September, 2019), pp. 3-14 [doi]  [abs]
  31. Umuhire Juru, A; Patwardhan, NN; Hargrove, AE, Understanding the Contributions of Conformational Changes, Thermodynamics, and Kinetics of RNA-Small Molecule Interactions., ACS chemical biology, vol. 14 no. 5 (May, 2019), pp. 824-838 [doi]  [abs]
  32. Donlic, A; Morgan, BS; Xu, JL; Liu, A; Roble, C; Hargrove, AE, Corrigendum: Discovery of Small Molecule Ligands for MALAT1 by Tuning an RNA-Binding Scaffold., Angewandte Chemie (International ed. in English), vol. 58 no. 17 (April, 2019), pp. 5482 [doi]  [abs]
  33. Eubanks, CS; Zhao, B; Patwardhan, NN; Thompson, RD; Zhang, Q; Hargrove, AE, Visualizing RNA Conformational Changes via Pattern Recognition of RNA by Small Molecules., Journal of the American Chemical Society, vol. 141 no. 14 (April, 2019), pp. 5692-5698 [doi]  [abs]
  34. Patwardhan, NN; Cai, Z; Newson, CN; Hargrove, AE, Fluorescent peptide displacement as a general assay for screening small molecule libraries against RNA., Organic & biomolecular chemistry, vol. 17 no. 7 (February, 2019), pp. 1778-1786 [doi]  [abs]
  35. Eubanks, CS; Hargrove, AE, RNA Structural Differentiation: Opportunities with Pattern Recognition., Biochemistry, vol. 58 no. 4 (January, 2019), pp. 199-213 [doi]  [abs]
  36. Donlic, A; Morgan, BS; Xu, JL; Liu, A; Roble, C; Hargrove, AE, Discovery of Small Molecule Ligands for MALAT1 by Tuning an RNA-Binding Scaffold., Angewandte Chemie (International ed. in English), vol. 57 no. 40 (October, 2018), pp. 13242-13247 [doi]  [abs]
  37. Donlic, A; Morgan, BS; Xu, JL; Liu, A; Roble, C; Hargrove, AE, Discovery of Small Molecule Ligands for MALAT1 by Tuning an RNA‐Binding Scaffold, Angewandte Chemie, vol. 130 no. 40 (October, 2018), pp. 13426-13431, Wiley [doi]  [abs]
  38. Morgan, BS; Forte, JE; Hargrove, AE, Insights into the development of chemical probes for RNA., Nucleic acids research, vol. 46 no. 16 (September, 2018), pp. 8025-8037 [doi]  [abs]
  39. Donlic, A; Hargrove, AE, Targeting RNA in mammalian systems with small molecules., Wiley interdisciplinary reviews. RNA, vol. 9 no. 4 (July, 2018), pp. e1477 [doi]  [abs]
  40. Eubanks, CS; Hargrove, AE, Sensing the impact of environment on small molecule differentiation of RNA sequences., Chemical communications (Cambridge, England), vol. 53 no. 100 (December, 2017), pp. 13363-13366 [doi]  [abs]
  41. Morgan, BS; Forte, JE; Culver, RN; Zhang, Y; Hargrove, AE, Discovery of Key Physicochemical, Structural, and Spatial Properties of RNA-Targeted Bioactive Ligands., Angewandte Chemie (International ed. in English), vol. 56 no. 43 (October, 2017), pp. 13498-13502, Wiley [doi]  [abs]
  42. Patwardhan, NN; Ganser, LR; Kapral, GJ; Eubanks, CS; Lee, J; Sathyamoorthy, B; Al-Hashimi, HM; Hargrove, AE, Amiloride as a new RNA-binding scaffold with activity against HIV-1 TAR., Medchemcomm, vol. 8 no. 5 (May, 2017), pp. 1022-1036 [doi]  [abs]
  43. Eubanks, CS; Forte, JE; Kapral, GJ; Hargrove, AE, Small Molecule-Based Pattern Recognition To Classify RNA Structure., Journal of the American Chemical Society, vol. 139 no. 1 (January, 2017), pp. 409-416 [doi]  [abs]
  44. McFadden, EJ; Hargrove, AE, Biochemical Methods To Investigate lncRNA and the Influence of lncRNA:Protein Complexes on Chromatin., Biochemistry, vol. 55 no. 11 (March, 2016), pp. 1615-1630, ISSN 0006-2960 [doi]  [abs]
  45. Burg, JM; Link, JE; Morgan, BS; Heller, FJ; Hargrove, AE; McCafferty, DG, KDM1 class flavin-dependent protein lysine demethylases., Biopolymers, vol. 104 no. 4 (July, 2015), pp. 213-246, ISSN 0006-3525 [doi]  [abs]
  46. Morgan, BS; Hargrove, AE, Synthetic receptors for oligonucleotides and nucleic acids, Monographs in Supramolecular Chemistry, vol. 2015-January no. 14 (January, 2015), pp. 253-325, ISSN 1368-8642
  47. Hargrove, AE; Martinez, TF; Hare, AA; Kurmis, AA; Phillips, JW; Sud, S; Pienta, KJ; Dervan, PB, Tumor Repression of VCaP Xenografts by a Pyrrole-Imidazole Polyamide., edited by Agoulnik, IU, PloS one, vol. 10 no. 11 (January, 2015), pp. e0143161 [doi]  [abs]
  48. Nickols, NG; Szablowski, JO; Hargrove, AE; Li, BC; Raskatov, JA; Dervan, PB, Activity of a Py-Im polyamide targeted to the estrogen response element., Molecular cancer therapeutics, vol. 12 no. 5 (May, 2013), pp. 675-684, ISSN 1535-7163 [doi]  [abs]
  49. Raskatov, JA; Nickols, NG; Hargrove, AE; Marinov, GK; Wold, B; Dervan, PB, Gene expression changes in a tumor xenograft by a pyrrole-imidazole polyamide., Proceedings of the National Academy of Sciences of the United States of America, vol. 109 no. 40 (October, 2012), pp. 16041-16045, ISSN 0027-8424 [doi]  [abs]
  50. Hargrove, AE; Raskatov, JA; Meier, JL; Montgomery, DC; Dervan, PB, Characterization and solubilization of pyrrole-imidazole polyamide aggregates., Journal of medicinal chemistry, vol. 55 no. 11 (June, 2012), pp. 5425-5432, ISSN 0022-2623 [doi]  [abs]
  51. Raskatov, JA; Hargrove, AE; So, AY; Dervan, PB, Pharmacokinetics of Py-Im polyamides depend on architecture: cyclic versus linear., Journal of the American Chemical Society, vol. 134 no. 18 (May, 2012), pp. 7995-7999, ISSN 0002-7863 [doi]  [abs]
  52. Hargrove, AE; Nieto, S; Zhang, T; Sessler, JL; Anslyn, EV, Artificial receptors for the recognition of phosphorylated molecules., Chemical reviews, vol. 111 no. 11 (November, 2011), pp. 6603-6782, ISSN 0009-2665 [doi]
  53. Hargrove, AE; Ellington, AD; Anslyn, EV; Sessler, JL, Chemical functionalization of oligodeoxynucleotides with multiple boronic acids for the polyvalent binding of saccharides., Bioconjugate chemistry, vol. 22 no. 3 (March, 2011), pp. 388-396, ISSN 1043-1802 [doi]  [abs]
  54. Hargrove, AE; Reyes, RN; Riddington, I; Anslyn, EV; Sessler, JL, Boronic acid porphyrin receptor for ginsenoside sensing., Organic letters, vol. 12 no. 21 (November, 2010), pp. 4804-4807, ISSN 1523-7060 [doi]  [abs]
  55. Hargrove, AE; Zhong, Z; Sessler, JL; Anslyn, EV, Algorithms for the determination of binding constants and enantiomeric excess in complex host : guest equilibria using optical measurements., New journal of chemistry = Nouveau journal de chimie, vol. 34 no. 2 (January, 2010), pp. 348-354, Royal Society of Chemistry (RSC), ISSN 1144-0546 [doi]  [abs]
  56. Collins, BE; Sorey, S; Hargrove, AE; Shabbir, SH; Lynch, VM; Anslyn, EV, Probing intramolecular B-N interactions in ortho-aminomethyl arylboronic acids., The Journal of organic chemistry, vol. 74 no. 11 (June, 2009), pp. 4055-4060, American Chemical Society (ACS), ISSN 0022-3263 [doi]  [abs]
  57. Pikulski, M; Hargrove, A; Shabbir, SH; Anslyn, EV; Brodbelt, JS, Sequencing and characterization of oligosaccharides using infrared multiphoton dissociation and boronic acid derivatization in a quadrupole ion trap., Journal of the American Society for Mass Spectrometry, vol. 18 no. 12 (December, 2007), pp. 2094-2106, ISSN 1044-0305 [doi]  [abs]
  58. Spence, JD; Hargrove, AE; Crampton, HL; Thomas, DW, Porphyrenediynes: synthesis and cyclization of meso-enediynylporphyrins, Tetrahedron Letters, vol. 48 no. 4 (January, 2007), pp. 725-728, Elsevier BV, ISSN 0040-4039 [doi]  [abs]
  59. Sessler, JL; Lee, JT; Ou, Z; Köhler, T; Hargrove, AE; Cho, WS; Lynch, V; Kadish, KM, Chemical and electrochemical oxidation of N-alkyl cyclo[n]-pyrroles, Journal of Porphyrins and Phthalocyanines, vol. 10 no. 12 (January, 2006), pp. 1329-1336, World Scientific Pub Co Pte Lt, ISSN 1088-4246 [doi]  [abs]

Chapter in Book

  1. Hay, EGS; Cai, Z; Hargrove, AE, Chemical matter that binds RNA, in RNA as a Drug Target: The Next Frontier for Medicinal Chemistry (July, 2024), pp. 93-117 [doi]  [abs]
  2. Zewde, B; Atoyebi, O; Zvonkina, IJ; Thomspon, T; Hargrove, A; Scott, A; Raghavan, D, Biopolymer Nanocomposites and Their Applications, in World Scientific Series in Nanoscience and Nanotechnology, vol. 20 (January, 2020), pp. 45-108 [doi]  [abs]
  3. Hargrove, AE, RNA Recognition, in RNA RECOGNITION, edited by Hargrove, AE, vol. 623 (January, 2019), pp. XV-XVII, ACADEMIC PRESS LTD-ELSEVIER SCIENCE LTD
  4. Padroni, G; Eubanks, CS; Hargrove, AE, Differentiation and classification of RNA motifs using small molecule-based pattern recognition., in Methods in Enzymology, vol. 623 (January, 2019), pp. 101-130 [doi]  [abs]
  5. Hargrove, AE, Preface., vol. 623 (2019), pp. xv-xvii [doi]
  6. Morgan, BS; Hargrove, AE, Chapter 7. Synthetic Receptors for Oligonucleotides and Nucleic Acids, in Monographs in Supramolecular Chemistry (2015), pp. 253-325, Royal Society of Chemistry, ISBN 9781849739719 [doi]
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