Danith Ly - Publications

Carnegie Mellon University, Pittsburgh, PA 
Organic Chemistry, Biochemistry

51 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
2019 Hsieh WC, Shaikh AY, Perera JDR, Thadke SA, Ly DH. Synthesis of (R)- and (S)-Fmoc-Protected Diethylene Glycol Gamma PNA Monomers with High Optical Purity. The Journal of Organic Chemistry. PMID 30608165 DOI: 10.1021/acs.joc.8b02714  0.88
2018 Yu Z, Hsieh WC, Asamitsu S, Hashiya K, Bando T, Ly DH, Sugiyama H. Orthogonal γPNA dimerization domains empower DNA binders with cooperativity and versatility mimicking that of transcription factor pairs. Chemistry (Weinheim An Der Bergstrasse, Germany). PMID 30003621 DOI: 10.1002/chem.201801961  0.88
2018 Ricciardi AS, Bahal R, Farrelly JS, Quijano E, Bianchi AH, Luks VL, Putman R, López-Giráldez F, Coşkun S, Song E, Liu Y, Hsieh WC, Ly DH, Stitelman DH, Glazer PM, et al. In utero nanoparticle delivery for site-specific genome editing. Nature Communications. 9: 2481. PMID 29946143 DOI: 10.1038/s41467-018-04894-2  1
2018 Thadke S, Perera JDR, Hridya VM, Bhatt K, Shaikh AY, Hsieh WC, Chen MD, Gayathri C, Gil RR, Rule GS, Mukherjee A, Thornton CA, Ly DH. Design of Bivalent Nucleic Acid Ligands for Recognition of RNA-Repeated Expansion Associated with Huntington's Disease. Biochemistry. PMID 29562132 DOI: 10.1021/acs.biochem.8b00062  0.88
2018 Hsieh WC, Bahal R, Thadke S, Bhatt K, Sobczak K, Thornton CA, Ly DH. Design of 'Mini' Nucleic Acid Probe for Cooperative Binding of RNA-Repeated Transcript Associated with Myotonic Dystrophy Type 1. Biochemistry. PMID 29334465 DOI: 10.1021/acs.biochem.7b01239  1
2018 Ly DH, Bahal R, Manna A, Hsieh WC, Thadke SA, Sureshkumar G. RNA-Templated Concatenation of Triplet Nucleic Acid Probe. Chembiochem : a European Journal of Chemical Biology. PMID 29323790 DOI: 10.1002/cbic.201700574  1
2017 Gupta A, Quijano E, Liu Y, Bahal R, Scanlon SE, Song E, Hsieh WC, Braddock DE, Ly DH, Saltzman WM, Glazer PM. Anti-tumor Activity of miniPEG-γ-Modified PNAs to Inhibit MicroRNA-210 for Cancer Therapy. Molecular Therapy. Nucleic Acids. 9: 111-119. PMID 29246289 DOI: 10.1016/j.omtn.2017.09.001  1
2016 Bahal R, Ali McNeer N, Quijano E, Liu Y, Sulkowski P, Turchick A, Lu YC, Bhunia DC, Manna A, Greiner DL, Brehm MA, Cheng CJ, López-Giráldez F, Ricciardi A, Beloor J, ... ... Ly DH, et al. In vivo correction of anaemia in β-thalassemic mice by γPNA-mediated gene editing with nanoparticle delivery. Nature Communications. 7: 13304. PMID 27782131 DOI: 10.1038/ncomms13304  1
2016 Roy S, Ly D, Castro CD, Li NS, Hawk AJ, Altman JD, Meredith SC, Piccirilli JA, Moody DB, Adams EJ. Molecular Analysis of Lipid-Reactive Vδ1 γδ T Cells Identified by CD1c Tetramers. Journal of Immunology (Baltimore, Md. : 1950). PMID 26755823 DOI: 10.4049/jimmunol.1502202  1
2015 Manna A, Rapireddy S, Sureshkumar G, Ly DH. Synthesis of optically pure γPNA monomers: a comparative study. Tetrahedron. 71: 3507-3514. PMID 30792557 DOI: 10.1016/j.tet.2015.03.052  1
2015 Sacui I, Hsieh WC, Manna A, Sahu B, Ly DH. Gamma Peptide Nucleic Acids: As Orthogonal Nucleic Acid Recognition Codes for Organizing Molecular Self-Assembly. Journal of the American Chemical Society. 137: 8603-10. PMID 26079820 DOI: 10.1021/jacs.5b04566  1
2014 Roy S, Ly D, Li NS, Altman JD, Piccirilli JA, Moody DB, Adams EJ. Molecular basis of mycobacterial lipid antigen presentation by CD1c and its recognition by αβ T cells. Proceedings of the National Academy of Sciences of the United States of America. 111: E4648-57. PMID 25298532 DOI: 10.1073/pnas.1408549111  1
2014 Bahal R, Quijano E, McNeer NA, Liu Y, Bhunia DC, Lopez-Giraldez F, Fields RJ, Saltzman WM, Ly DH, Glazer PM. Single-stranded γPNAs for in vivo site-specific genome editing via Watson-Crick recognition. Current Gene Therapy. 14: 331-42. PMID 25174576  1
2014 Pham HH, Murphy CT, Sureshkumar G, Ly DH, Opresko PL, Armitage BA. Cooperative hybridization of γPNA miniprobes to a repeating sequence motif and application to telomere analysis. Organic & Biomolecular Chemistry. 12: 7345-54. PMID 25115693 DOI: 10.1039/c4ob00953c  1
2014 Manna A, Rapireddy S, Bahal R, Ly DH. MiniPEG-γPNA. Methods in Molecular Biology (Clifton, N.J.). 1050: 1-12. PMID 24297346 DOI: 10.1007/978-1-62703-553-8_1  1
2013 Bahal R, McNeer NA, Ly DH, Saltzman WM, Glazer PM. Nanoparticle for delivery of antisense γPNA oligomers targeting CCR5. Artificial Dna, Pna & Xna. 4: 49-57. PMID 23954968 DOI: 10.4161/adna.25628  1
2013 Gupta A, Lee LL, Roy S, Tanious FA, Wilson WD, Ly DH, Armitage BA. Strand invasion of DNA quadruplexes by PNA: comparison of homologous and complementary hybridization. Chembiochem : a European Journal of Chemical Biology. 14: 1476-84. PMID 23868291 DOI: 10.1002/cbic.201300263  1
2013 Delgado E, Bahal R, Yang J, Lee JM, Ly DH, Monga SP. β-Catenin knockdown in liver tumor cells by a cell permeable gamma guanidine-based peptide nucleic acid. Current Cancer Drug Targets. 13: 867-78. PMID 23822752 DOI: 10.2174/15680096113139990081  1
2013 Goldman JM, Zhang LA, Manna A, Armitage BA, Ly DH, Schneider JW. High affinity γPNA sandwich hybridization assay for rapid detection of short nucleic acid targets with single mismatch discrimination. Biomacromolecules. 14: 2253-61. PMID 23777445 DOI: 10.1021/bm400388a  1
2013 Ly D, Kasmar AG, Cheng TY, de Jong A, Huang S, Roy S, Bhatt A, van Summeren RP, Altman JD, Jacobs WR, Adams EJ, Minnaard AJ, Porcelli SA, Moody DB. CD1c tetramers detect ex vivo T cell responses to processed phosphomycoketide antigens. The Journal of Experimental Medicine. 210: 729-41. PMID 23530121 DOI: 10.1084/jem.20120624  1
2013 Thomas SM, Sahu B, Rapireddy S, Bahal R, Wheeler SE, Procopio EM, Kim J, Joyce SC, Contrucci S, Wang Y, Chiosea SI, Lathrop KL, Watkins S, Grandis JR, Armitage BA, ... Ly DH, et al. Antitumor effects of EGFR antisense guanidine-based peptide nucleic acids in cancer models. Acs Chemical Biology. 8: 345-52. PMID 23113581 DOI: 10.1021/cb3003946  1
2012 Sen M, Thomas SM, Kim S, Yeh JI, Ferris RL, Johnson JT, Duvvuri U, Lee J, Sahu N, Joyce S, Freilino ML, Shi H, Li C, Ly D, Rapireddy S, et al. First-in-human trial of a STAT3 decoy oligonucleotide in head and neck tumors: implications for cancer therapy. Cancer Discovery. 2: 694-705. PMID 22719020 DOI: 10.1158/2159-8290.CD-12-0191  1
2012 Wierzbinski E, de Leon A, Yin X, Balaeff A, Davis KL, Rapireddy S, Reppireddy S, Venkatramani R, Keinan S, Ly DH, Madrid M, Beratan DN, Achim C, Waldeck DH. Effect of backbone flexibility on charge transfer rates in peptide nucleic acid duplexes. Journal of the American Chemical Society. 134: 9335-42. PMID 22548314 DOI: 10.1021/ja301677z  1
2012 Singer A, Rapireddy S, Ly DH, Meller A. Electronic barcoding of a viral gene at the single-molecule level. Nano Letters. 12: 1722-8. PMID 22352964 DOI: 10.1021/nl300372a  1
2012 Rapireddy S, Nhon L, Meehan RE, Franks J, Stolz DB, Tran D, Selsted ME, Ly DH. RTD-1mimic containing γPNA scaffold exhibits broad-spectrum antibacterial activities. Journal of the American Chemical Society. 134: 4041-4. PMID 22332599 DOI: 10.1021/ja211867j  1
2012 Bahal R, Sahu B, Rapireddy S, Lee CM, Ly DH. Sequence-unrestricted, Watson-Crick recognition of double helical B-DNA by (R)-miniPEG-γPNAs. Chembiochem : a European Journal of Chemical Biology. 13: 56-60. PMID 22135012 DOI: 10.1002/cbic.201100646  1
2011 Bezer S, Rapireddy S, Skorik YA, Ly DH, Achim C. Coordination-driven inversion of handedness in ligand-modified PNA. Inorganic Chemistry. 50: 11929-37. PMID 22059624 DOI: 10.1021/ic200855p  1
2011 Crawford MJ, Rapireddy S, Bahal R, Sacui I, Ly DH. Effect of Steric Constraint at the γ-Backbone Position on the Conformations and Hybridization Properties of PNAs. Journal of Nucleic Acids. 2011: 652702. PMID 21776375 DOI: 10.4061/2011/652702  1
2011 Roy S, Zanotti KJ, Murphy CT, Tanious FA, Wilson WD, Ly DH, Armitage BA. Kinetic discrimination in recognition of DNA quadruplex targets by guanine-rich heteroquadruplex-forming PNA probes. Chemical Communications (Cambridge, England). 47: 8524-6. PMID 21717030 DOI: 10.1039/c1cc12805a  1
2011 Sahu B, Sacui I, Rapireddy S, Zanotti KJ, Bahal R, Armitage BA, Ly DH. Synthesis and characterization of conformationally preorganized, (R)-diethylene glycol-containing γ-peptide nucleic acids with superior hybridization properties and water solubility. The Journal of Organic Chemistry. 76: 5614-27. PMID 21619025 DOI: 10.1021/jo200482d  1
2011 Rapireddy S, Bahal R, Ly DH. Strand invasion of mixed-sequence, double-helical B-DNA by γ-peptide nucleic acids containing G-clamp nucleobases under physiological conditions. Biochemistry. 50: 3913-8. PMID 21476606 DOI: 10.1021/bi2002554  1
2010 Kuhn H, Sahu B, Rapireddy S, Ly DH, Frank-Kamenetskii MD. Sequence specificity at targeting double-stranded DNA with a γ-PNA oligomer modified with guanidinium G-clamp nucleobases. Artificial Dna, Pna & Xna. 1: 45-53. PMID 21687526 DOI: 10.4161/adna.1.1.12444  1
2010 Yeh JI, Shivachev B, Rapireddy S, Crawford MJ, Gil RR, Du S, Madrid M, Ly DH. Crystal structure of chiral gammaPNA with complementary DNA strand: insights into the stability and specificity of recognition and conformational preorganization. Journal of the American Chemical Society. 132: 10717-27. PMID 20681704 DOI: 10.1021/ja907225d  1
2010 He W, Crawford MJ, Rapireddy S, Madrid M, Gil RR, Ly DH, Achim C. The structure of a gamma-modified peptide nucleic acid duplex. Molecular Biosystems. 6: 1619-29. PMID 20386807 DOI: 10.1039/c002254c  1
2009 Lusvarghi S, Murphy CT, Roy S, Tanious FA, Sacui I, Wilson WD, Ly DH, Armitage BA. Loop and backbone modifications of peptide nucleic acid improve g-quadruplex binding selectivity. Journal of the American Chemical Society. 131: 18415-24. PMID 19947597 DOI: 10.1021/ja907250j  1
2009 He G, Rapireddy S, Bahal R, Sahu B, Ly DH. Strand invasion of extended, mixed-sequence B-DNA by gammaPNAs. Journal of the American Chemical Society. 131: 12088-90. PMID 19663424 DOI: 10.1021/ja900228j  1
2009 Sahu B, Chenna V, Lathrop KL, Thomas SM, Zon G, Livak KJ, Ly DH. Synthesis of conformationally preorganized and cell-permeable guanidine-based gamma-peptide nucleic acids (gammaGPNAs). The Journal of Organic Chemistry. 74: 1509-16. PMID 19161276 DOI: 10.1021/jo802211n  1
2008 Chenna V, Rapireddy S, Sahu B, Ausin C, Pedroso E, Ly DH. A simple cytosine to G-clamp nucleobase substitution enables chiral gamma-PNAs to invade mixed-sequence double-helical B-form DNA. Chembiochem : a European Journal of Chemical Biology. 9: 2388-91. PMID 18816545 DOI: 10.1002/cbic.200800441  1
2007 Rapireddy S, He G, Roy S, Armitage BA, Ly DH. Strand invasion of mixed-sequence B-DNA by acridine-linked, gamma-peptide nucleic acid (gamma-PNA). Journal of the American Chemical Society. 129: 15596-600. PMID 18027941 DOI: 10.1021/ja074886j  1
2007 Roy S, Tanious FA, Wilson WD, Ly DH, Armitage BA. High-affinity homologous peptide nucleic acid probes for targeting a quadruplex-forming sequence from a MYC promoter element. Biochemistry. 46: 10433-43. PMID 17718513 DOI: 10.1021/bi700854r  1
2006 Dragulescu-Andrasi A, Rapireddy S, He G, Bhattacharya B, Hyldig-Nielsen JJ, Zon G, Ly DH. Cell-permeable peptide nucleic acid designed to bind to the 5'-untranslated region of E-cadherin transcript induces potent and sequence-specific antisense effects. Journal of the American Chemical Society. 128: 16104-12. PMID 17165763 DOI: 10.1021/ja063383v  1
2006 Dragulescu-Andrasi A, Rapireddy S, Frezza BM, Gayathri C, Gil RR, Ly DH. A simple gamma-backbone modification preorganizes peptide nucleic acid into a helical structure. Journal of the American Chemical Society. 128: 10258-67. PMID 16881656 DOI: 10.1021/ja0625576  1
2006 Zhou P, Dragulescu-Andrasi A, Bhattacharya B, O'Keefe H, Vatta P, Hyldig-Nielsen JJ, Ly DH. Synthesis of cell-permeable peptide nucleic acids and characterization of their hybridization and uptake properties. Bioorganic & Medicinal Chemistry Letters. 16: 4931-5. PMID 16809033 DOI: 10.1016/j.bmcl.2006.06.052  1
2005 Dragulescu-Andrasi A, Zhou P, He G, Ly DH. Cell-permeable GPNA with appropriate backbone stereochemistry and spacing binds sequence-specifically to RNA. Chemical Communications (Cambridge, England). 244-6. PMID 15724200 DOI: 10.1039/b412522c  1
2003 Zhou P, Wang M, Du L, Fisher GW, Waggoner A, Ly DH. Novel binding and efficient cellular uptake of guanidine-based peptide nucleic acids (GPNA). Journal of the American Chemical Society. 125: 6878-9. PMID 12783535 DOI: 10.1021/ja029665m  1
2003 Zhou P, Ly DH. Embryonic stem cells: a perfect marriage between gene regulation and regenerative medicine. Current Topics in Medicinal Chemistry. 3: 725-37. PMID 12570861  1
2000 Simbulan-Rosenthal CM, Ly DH, Rosenthal DS, Konopka G, Luo R, Wang ZQ, Schultz PG, Smulson ME. Misregulation of gene expression in primary fibroblasts lacking poly(ADP-ribose) polymerase. Proceedings of the National Academy of Sciences of the United States of America. 97: 11274-9. PMID 11016956 DOI: 10.1073/pnas.200285797  0.48
2000 Ly DH, Lockhart DJ, Lerner RA, Schultz PG. Mitotic misregulation and human aging. Science (New York, N.Y.). 287: 2486-92. PMID 10741968 DOI: 10.1126/science.287.5462.2486  0.48
1998 Armitage B, Ly D, Koch T, Frydenlund H, Orum H, Schuster GB. Hairpin-forming peptide nucleic acid oligomers. Biochemistry. 37: 9417-25. PMID 9649324 DOI: 10.1021/bi9729458  1
1997 Armitage B, Ly D, Koch T, Frydenlund H, Orum H, Batz HG, Schuster GB. Peptide nucleic acid-DNA duplexes: long range hole migration from an internally linked anthraquinone. Proceedings of the National Academy of Sciences of the United States of America. 94: 12320-5. PMID 9356447 DOI: 10.1073/pnas.94.23.12320  0.56
1997 Breslin DT, Yu C, Ly D, Schuster GB. Structural modification changes the DNA binding mode of cation-substituted anthraquinone photonucleases: association by intercalation or minor groove binding determines the DNA cleavage efficiency. Biochemistry. 36: 10463-73. PMID 9265626 DOI: 10.1021/bi9702750  1
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