Roger A. Jones

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Bibliography of publications issued by Unesco or under its auspices. The first twenty-five years: 1946 to 1971: Paris. UNESCO. 1973. 385 p.

Roger A. Jones, 1975 .

Structures of HIV-1 RT–DNA complexes before and after incorporation of the anti-AIDS drug tenofovir

Roger A. Jones, A. D. Clark, G. Wang, 2004, Nature Structural &Molecular Biology.

Solution structure of the biologically relevant G-quadruplex element in the human c-MYC promoter. Implications for G-quadruplex stabilization.

Roger A. Jones, Danzhou Yang, A. Ambrus, 2005, Biochemistry.

Aminoglycoside antibiotics induce bacterial biofilm formation

Michael J. MacCoss, Roger A. Jones, Zhaoying Zhang, 2005, Nature.

Structural basis of RNA folding and recognition in an AMP–RNA aptamer complex

Roger A. Jones, D. Patel, F. Jiang, 1996, Nature.

Use of 13C tags with specifically 15N‐labeled DNA and RNA

Roger A. Jones, B. Gaffney, J. Abad, 1999 .

High yield protection of purine ribonucleosides for phosphoramidite RNA synthesis

Roger A. Jones, B. Gaffney, J. Abad, 1997 .

Peroxynitrite-induced reactions of synthetic oligo 2'-deoxynucleotides and DNA containing guanine: formation and stability of a 5-guanidino-4-nitroimidazole lesion.

Roger A. Jones, S. Tannenbaum, F. Gu, 2002, Biochemistry.

Synthesis of Capped RNA using a DMT Group as a Purification Handle

Roger A. Jones, B. Gaffney, Elizabeth Veliath, 2014, Nucleosides, nucleotides & nucleic acids.

One-flask synthesis of dinucleoside tetra- and pentaphosphates.

Roger A. Jones, B. Gaffney, Q. Han, 2006, Organic letters.

Endogenous 5-methylcytosine protects neighboring guanines from N7 and O6-methylation and O6-pyridyloxobutylation by the tobacco carcinogen 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone.

Roger A. Jones, N. Tretyakova, A. Shallop, 2004, Biochemistry.

Synthesis of 6-substituted 2′-deoxyguanosine derivatives using trifluoroacetic anhydride in pyridine

Roger A. Jones, B. Gaffney, F. Reza, 1990 .

Large-scale oligonucleotide synthesis by the H-phosphonate method

Roger A. Jones, B. Gaffney, 1988 .

Synthesis and 15N NMR of d[CGT(15N6)ACG] and d[CGT(CGT)(15N1)ACG]

Roger A. Jones, Xiolian Gao, 1987 .

Synthesis of O-6-alkylated deoxyguanosine nucleosides

Roger A. Jones, B. Gaffney, 1982 .

A new strategy for the protection of deoxyguanosine during oligonucleotide synthesis

Roger A. Jones, B. Gaffney, 1982 .

Formation of 13C-, 15N-, and 18O-labeled guanidinohydantoin from guanosine oxidation with singlet oxygen. Implications for structure and mechanism.

Roger A. Jones, C. Burrows, J. Muller, 2003, Journal of the American Chemical Society.

Formation of diastereomeric benzo[a]pyrene diol epoxide-guanine adducts in p53 gene-derived DNA sequences.

Roger A. Jones, N. Tretyakova, B. Matter, 2004, Chemical research in toxicology.

Editorial: NAR Awards 2012

Roger A. Jones, S. Strobel, 2012, Nucleic Acids Research.

Polymorphism of the signaling molecule c-di-GMP.

Roger A. Jones, B. Gaffney, Seho Kim, 2006, Journal of the American Chemical Society.

Nitrogen-15-labeled oligodeoxynucleotides. 7. Use of nitrogen-15 NMR to probe hydrogen bonding in an O6MeG.cntdot.C base pair

Roger A. Jones, B. Gaffney, B. Goswami, 1993 .

Nitrogen-15-labeled oligodeoxynucleotides. Characterization by 15N NMR of d[CGTACG] containing 15N6- or 15N1-labeled deoxyadenosine

Roger A. Jones, Xiaoliang Gao, 1987 .

Structural basis for molecular discrimination by a 3',3'-cGAMP sensing riboswitch.

Roger A. Jones, D. Patel, A. Ren, 2015, Cell reports.

Transient protection. 2. One-flask synthesis of 6-O-[(4-nitrophenyl)ethyl]-2'-deoxyguanosine nucleosides

Roger A. Jones, B. Gaffney, Xiaoliang Gao, 1986 .

K-ras gene sequence effects on the formation of 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone (NNK)-DNA adducts.

Roger A. Jones, N. Tretyakova, A. Shallop, 2003, Chemical research in toxicology.

Human telomeric sequence forms a hybrid-type intramolecular G-quadruplex structure with mixed parallel/antiparallel strands in potassium solution

Roger A. Jones, Danzhou Yang, A. Ambrus, 2006, Nucleic acids research.

Structure of the intramolecular human telomeric G-quadruplex in potassium solution: a novel adenine triple formation

Roger A. Jones, Danzhou Yang, C. Punchihewa, 2007, Nucleic acids research.

NMR solution structure of the major G-quadruplex structure formed in the human BCL2 promoter region

Roger A. Jones, Danzhou Yang, L. Hurley, 2006, Nucleic acids research.

Use of a 13C Atom To Differentiate Two 15N-Labeled Nucleosides. Syntheses of [15NH2]-Adenosine, [1,NH2-15N2]- and [2-13C-1,NH2-15N2]-Guanosine, and [1,7,NH2-15N3]- and [2-13C-1,7,NH2-15N3]-2‘-Deoxyguanosine

Roger A. Jones, Hong Zhao, A. Shallop, 1997 .

Synthesis and Characterization of C8 Analogs of c-di-GMP

Roger A. Jones, B. Gaffney, Seho Kim, 2011, Nucleosides, nucleotides & nucleic acids.

Use of Both Direct and Indirect 13C Tags for Probing Nitrogen Interactions in Hairpin Ribozyme Models by 15N NMR

Roger A. Jones, B. Gaffney, A. Shallop, 2004, Nucleosides, nucleotides & nucleic acids.

High-performance liquid chromatography of the oligonucleotides

Roger A. Jones, R. Hartwick, J. Crowther, 1981 .

Structure of the Hybrid-2 type intramolecular human telomeric G-quadruplex in K+ solution: insights into structure polymorphism of the human telomeric sequence

Roger A. Jones, Danzhou Yang, C. Punchihewa, 2007, Nucleic acids research.

An intramolecular G-quadruplex structure with mixed parallel/antiparallel G-strands formed in the human BCL-2 promoter region in solution.

Roger A. Jones, Thomas S. Dexheimer, Danzhou Yang, 2006, Journal of the American Chemical Society.

Detection of DNA adducts derived from the reactive metabolite of furan, cis-2-butene-1,4-dial.

Roger A. Jones, L. Peterson, Michael C. Byrns, 2006, Chemical research in toxicology.

Evaluation of a chemically defined model for the attachment of 3,4-dichloroaniline to humus

Roger A. Jones, R. Jones, R. Bartha, 1982, Bulletin of environmental contamination and toxicology.

The influence of the purine 2-amino group on DNA conformation and stability. II: Synthesis and physical characterization of d[CGT(2-NH2)ACG], d[CGU(2-NH2)ACG], and d[CGT(2-NH2)AT(2-NH2)ACG]

Roger A. Jones, B. Gaffney, L. Marky, 1984 .

Regioselective 2′‐Silylation of Purine Ribonucleosides for Phosphoramidite RNA Synthesis

Roger A. Jones, B. Gaffney, 2023, Current Protocols.

Transient silylation of the guanosine O6 and amino groups facilitates N-acylation.

Roger A. Jones, B. Gaffney, Yupeng Fan, 2004, Organic letters.

Regioselective 2′‐Silylation of Purine Ribonucleosides for Phosphoramidite RNA Synthesis

Roger A. Jones, Barbara L. Gaffney, 2001, Current Protocols in Nucleic Acid Chemistry.

Aminoglycoside complexation with a DNA.RNA hybrid duplex: the thermodynamics of recognition and inhibition of RNA processing enzymes.

Roger A. Jones, B. Gaffney, D. S. Pilch, 2003, Journal of the American Chemical Society.

6-O-(Pentafluorophenyl)-2'-deoxyguanosine: a versatile synthon for nucleoside and oligonucleotide synthesis

Roger A. Jones, B. Gaffney, P. Kung, 1992 .

One-Flask Syntheses of 6-Thioguanosine and 2′-Deoxy-6-Thioguanosine

Roger A. Jones, P. Kung, 1991 .

High-Yield Protection of Purine Ribonucleosides for H-Phosphonate RNA Synthesis

Roger A. Jones, B. Gaffney, J. Abad, 1997 .

Structure-Function Analysis of STING Activation by c[G(2′,5′)pA(3′,5′)p] and Targeting by Antiviral DMXAA

Roger A. Jones, M. Ascano, T. Tuschl, 2013, Cell.

Cyclic [G(2′,5′)pA(3′,5′)p] Is the Metazoan Second Messenger Produced by DNA-Activated Cyclic GMP-AMP Synthase

Roger A. Jones, M. Ascano, T. Tuschl, 2013, Cell.

Differential analogue binding by two classes of c-di-GMP riboswitches.

Roger A. Jones, S. Strobel, B. Gaffney, 2011, Journal of the American Chemical Society.

One-flask syntheses of c-di-GMP and the [Rp,Rp] and [Rp,Sp] thiophosphate analogues.

Roger A. Jones, B. Gaffney, Elizabeth Veliath, 2010, Organic letters.

Thiophosphate Analogs of c-di-GMP: Impact on Polymorphism

Roger A. Jones, B. Gaffney, Seho Kim, 2009, Nucleosides, nucleotides & nucleic acids.

c-di-GMP displays a monovalent metal ion-dependent polymorphism.

Roger A. Jones, B. Gaffney, Zhaoying Zhang, 2004, Journal of the American Chemical Society.

Synthesis of cyclic dinucleotides by an H-phosphonate method in solution

Roger A. Jones, Fan‐Wen Zeng, 1996 .

H-phosphonate oligonucleotide synthesis on a polyethylen glycol/polystyrene copolymer

Roger A. Jones, B. Gaffney, Hetian Gao, 1991 .

Roger A. Jones, M. Robins, R. Mengel, 1977 .

Roger A. Jones, M. Robins, R. Mengel, 1973 .

Synthesis of c-di-GMP analogs with thiourea, urea, carbodiimide, and guanidinium linkages.

Roger A. Jones, B. Gaffney, 2014, Organic letters.

Nitrogen-15-labeled deoxynucleosides. 2. Synthesis of 7-15N-labeled deoxyadenosine, deoxyguanosine, and related deoxynucleosides

Roger A. Jones, B. Gaffney, P. Kung, 1990 .

Structural basis of HIV-1 resistance to AZT by excision

Roger A. Jones, A. D. Clark, S. Sarafianos, 2010, Nature Structural &Molecular Biology.

Structural Basis for the Role of the K65R Mutation in HIV-1 Reverse Transcriptase Polymerization, Excision Antagonism, and Tenofovir Resistance*

Roger A. Jones, A. D. Clark, S. Tuske, 2009, The Journal of Biological Chemistry.

Synthesis of Guanosine and Deoxyguanosine Phosphoramidites with Cross-Linkable Thioalkyl Tethers for Direct Incorporation into RNA and DNA

Roger A. Jones, B. Gaffney, Xiaorong Hou, 2009, Nucleosides, nucleotides & nucleic acids.

Roger A. Jones, M. Robins, 1974 .

Roger A. Jones, M. Robins, R. Mengel, 1973 .

Roger A. Jones, M. Robins, R. Mengel, 1977 .

Oxidative Conversion of N-Dimethylformamidine Nucleosides to N-Cyano Nucleosides.

Roger A. Jones, B. Mullah, Hong Zhao, 1995 .

Syntheses of [1,7-15N2]- and [1,7,NH2-15N3]Adenosine and 2‘-Deoxyadenosine via an N1-Alkoxy-Mediated Dimroth Rearrangement

Roger A. Jones, Hong Zhao, A. Shallop, 1998 .

Syntheses of [6,7-15N]-Adenosine, [6,7-15N]-2'-Deoxyadenosine, and [7-15N]-Hypoxanthine

Roger A. Jones, Alex R. Pagano, W. M. Lajewski, 1995 .

Nitrogen-15-labeled oligodeoxynucleotides. 8. Use of 15N NMR to probe Hoogsteen hydrogen bonding at guanine and adenine N7 atoms of a DNA triplex

Roger A. Jones, B. Gaffney, P. Kung, 1995 .

Nitrogen-15-labeled oligodeoxynucleotides. 6. Use of nitrogen-15 NMR to probe binding of netropsin and distamycin to {d[CGCGAATTCGCG]}2

Roger A. Jones, B. Gaffney, Chuan Wang, 1993 .

Nitrogen-15-labeled oligodeoxynucleotides. 5. Use of 15N NMR to probe H-bonding in an O6MeG.cntdot.T base pair

Roger A. Jones, B. Gaffney, B. Goswami, 1993 .

Nitrogen-15-Labeled Oligodeoxynucleotides. 4. Tetraplex Formation of d[G(15N7)GTTTTTGG] and d[T(15N7)GGGT] Monitored by 1H Detected 15N NMR

Roger A. Jones, B. Gaffney, Chuan Wang, 1992 .

Nitrogen-15-labeled oligodeoxynucleotides. 3. Protonation of the adenine N1 in the A.cntdot.C and A.cntdot.G mispairs of the duplexes {d[CG(15N1)AGAATTCCCG]}2 and {d[CGGGAATTC(15N1)ACG]}2

Roger A. Jones, B. Gaffney, Chuan Wang, 1991 .

Oxidative conversion of N-dimethylformamidine nucleosides to N-cyano nucleosides

Roger A. Jones, B. Mullah, Hong Zhao, 1995 .

Modulation of RNA Metal Binding by Flanking Bases: 15N NMR Evaluation of GC, Tandem GU, and Tandem GA Sites

Roger A. Jones, B. Gaffney, A. Shallop, 2009, Nucleosides, nucleotides & nucleic acids.

Syntheses of Specifically 15N‐Labeled Adenosine and Guanosine

Roger A. Jones, B. Gaffney, 2002, Current Protocols in Nucleic Acid Chemistry.

Structure Determination of the Top‐Loop of the Conserved 3′‐Terminal Secondary Structure in the Genome of Flaviviruses

Roger A. Jones, P. Herdewijn, N. Dyubankova, 2010, Chembiochem : a European journal of chemical biology.

15N NMR of RNA Fragments Containing Specifically Labeled Tandem GA Pairs

Roger A. Jones, B. Gaffney, Xiaohu Zhang, 1998 .

15N NMR OF A SPECIFICALLY LABELED RNA FRAGMENT CONTAINING INTRAHELICAL GU WOBBLE PAIRS

Roger A. Jones, B. Gaffney, Xiaohu Zhang, 1997 .

Nitrogen-15-labeled deoxynucleosides. 4. Synthesis of [1-15N] and [2-15N]-labeled 2'-deoxyguanosines

Roger A. Jones, B. Goswami, 1991 .

Nitrogen-15 labeled deoxynucleosides. Synthesis of 15N6-and 15N1-deoxyadenosines from deoxyadenosine

Roger A. Jones, Xiaoliang Gao, 1987 .

A universal allyl linker for solid-phase synthesis

Roger A. Jones, Xiaohu Zhang, 1996 .

Preparation of DNA and RNA Fragments Containing Guanine N2‐Thioalkyl Tethers

Roger A. Jones, B. Gaffney, Xiaorong Hou, 2010, Current protocols in nucleic acid chemistry.

Nitrogen-15-labeled deoxynucleosides. 3. Synthesis of [3-15N]-2'-deoxyadenosine

Roger A. Jones, Youngsook Rhee, 1990 .

Syntheses of Specifically 15N‐Labeled Adenosine and Guanosine

Roger A. Jones, B. Gaffney, 2022, Current protocols.

H-phosphonate DNA synthesis without amino protection

Roger A. Jones, P. Kung, 1992 .

Synthesis and utility of a DNA phosphorylating agent based on 2-(triphenylsilyl)ethanol

Roger A. Jones, Cl Chan, J. Celebuski, 1992 .

Differential binding of Mg2+, Zn2+, and Cd2+ at two sites in a hammerhead ribozyme motif, determined by 15N NMR.

Roger A. Jones, B. Gaffney, Gang Wang, 2004, Journal of the American Chemical Society.

15N-Multilabeled Adenine and Guanine Nucleosides. Syntheses of [1,3,NH(2)-(15)N(3)]- and [2-(13)C-1,3,NH(2)-(15)N(3)]-Labeled Adenosine, Guanosine, 2'-Deoxyadenosine, and 2'-Deoxyguanosine.

Roger A. Jones, B. Gaffney, J. Abad, 1999, The Journal of organic chemistry.

Use of 13C as an indirect tag in 15N specifically labeled nucleosides. Syntheses of [8-13C-1,7,NH2-15N3]adenosine, -guanosine, and their deoxy analogues.

Roger A. Jones, B. Gaffney, A. Shallop, 2003, The Journal of organic chemistry.

Mapping Structurally Defined Guanine Oxidation Products along DNA Duplexes: Influence of Local Sequence Context and Endogenous Cytosine Methylation

Roger A. Jones, N. Tretyakova, R. Shanley, 2014, Journal of the American Chemical Society.

Influence of C-5 substituted cytosine and related nucleoside analogs on the formation of benzo[a]pyrene diol epoxide-dG adducts at CG base pairs of DNA

Roger A. Jones, D. York, Delshanee Kotandeniya, 2011, Nucleic acids research.

Sequence distribution of acetaldehyde-derived N2-ethyl-dG adducts along duplex DNA.

Roger A. Jones, N. Tretyakova, R. Guza, 2007, Chemical research in toxicology.

Structure of a two-G-tetrad intramolecular G-quadruplex formed by a variant human telomeric sequence in K+ solution: insights into the interconversion of human telomeric G-quadruplex structures

Roger A. Jones, Danzhou Yang, J. Dai, 2009, Nucleic acids research.

Mapping three guanine oxidation products along DNA following exposure to three types of reactive oxygen species

Roger A. Jones, N. Tretyakova, B. Matter, 2018, Free radical biology & medicine.

Identification of c-di-GMP derivatives resistant to an EAL domain phosphodiesterase.

Roger A. Jones, S. Strobel, B. Gaffney, 2013, Biochemistry.

CRISPR-Cas III-A Csm6 CARF Domain Is a Ring Nuclease Triggering Stepwise cA4 Cleavage with ApA>p Formation Terminating RNase Activity.

Roger A. Jones, D. Patel, O. Ouerfelli, 2019, Molecular cell.

A glutamate‐alanine‐leucine (EAL) domain protein of Salmonella controls bacterial survival in mice, antioxidant defence and killing of macrophages: role of cyclic diGMP

Roger A. Jones, M. MacCoss, B. Gaffney, 2005, Molecular microbiology.

Synthesis of Boranoate, Selenoate, and Thioate Analogs of AZTp(4)A and Ap(4)A.

Roger A. Jones, S. Sarafianos, B. Gaffney, 2009, Tetrahedron.

Bombyx mori single repeat telomeric DMA sequence forms a G-quadruplex capped by base triads

Roger A. Jones, D. Patel, S. Bouaziz, 1997, Nature Structural Biology.

Formation of benzo[a]pyrene diol epoxide-DNA adducts at specific guanines within K-ras and p53 gene sequences: stable isotope-labeling mass spectrometry approach.

Roger A. Jones, N. Tretyakova, A. Shallop, 2002, Biochemistry.

Formation of Benzo( a)pyrene Diol Epoxide- Adducts at CG Base Pairs: Effects of C-5 Cytosine Substituents and Related Structural Analogs

Roger A. Jones, N. Tretyakova, R. Jankowiak, 2010 .

Stable isotope labeling-mass spectrometry analysis of methyl- and pyridyloxobutyl-guanine adducts of 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone in p53-derived DNA sequences.

Roger A. Jones, N. Tretyakova, M. Rajesh, 2005, Biochemistry.

Crystal structure of a mispaired dodecamer, d(CGAGAATTC(O6Me)GCG)2, containing a carcinogenic O6-methylguanine

Roger A. Jones, H. Berman, B. Gaffney, 1994 .

Active site contacts in the purine nucleoside phosphorylase--hypoxanthine complex by NMR and ab initio calculations.

Roger A. Jones, V. Schramm, S. Cahill, 2004, Biochemistry.

Interstrand and intrastrand DNA-DNA cross-linking by 1,2,3,4-diepoxybutane: role of stereochemistry.

Roger A. Jones, C. Anderson, Rachel L Loeber, 2005, Journal of the American Chemical Society.

Second Messenger cA4 Formation within the Composite Csm1 Palm Pocket of Type III-A CRISPR-Cas Csm Complex and Its Release Path.

Roger A. Jones, D. Patel, G. Sukenick, 2019, Molecular cell.

TOTAL SYNTHESIS OF A BACTERIAL GENE I: CHEMICAL SYNTHESIS OF OLIGONUCLEOTIDES AND USE OF HIGH-PRESSURE LIQUID CHROMATOGRAPHY

Roger A. Jones, H. Khorana, E. Brown, 1978 .

Nuclease-Resistant c-di-AMP Derivatives That Differentially Recognize RNA and Protein Receptors.

Roger A. Jones, S. Strobel, B. Gaffney, 2016, Biochemistry.

Synthesis of Biotinylated c-di-Gmp And c-di-Amp using Click Conjugation

Roger A. Jones, B. Gaffney, N. D. Stebbins, 2013, Nucleosides, nucleotides & nucleic acids.

USE OF SILYL ETHERS AS FLUORIDE SCAVENGERS IN RNA SYNTHESIS

Roger A. Jones, Q. Song, 1999 .

Preparation of DNA and RNA Fragments Containing Guanine N2‐Thioalkyl Tethers

Roger A. Jones, B. Gaffney, Xiaorong Hou, 2023, Current protocols.

A dimeric DNA interface stabilized by stacked A.(G.G.G.G).A hexads and coordinated monovalent cations.

Roger A. Jones, D. Patel, T. Hermann, 2000, Journal of molecular biology.

Arabinose- and xylose-modified analogs of 2',3'-cGAMP act as STING agonists.

Roger A. Jones, T. Tuschl, D. Patel, 2023, Cell chemical biology.

Influence of dangling thymidine residues on the stability and structure of two DNA duplexes.

Roger A. Jones, M. Senior, K. Breslauer, 1988, Biochemistry.

Cyclic [G(2′,5′)pA(3′,5′)p] Is the Metazoan Second Messenger Produced by DNA-Activated Cyclic GMP-AMP Synthase

Roger A. Jones, M. Ascano, T. Tuschl, 2013, Cell.

Drug targeting of HIV-1 RNA.DNA hybrid structures: thermodynamics of recognition and impact on reverse transcriptase-mediated ribonuclease H activity and viral replication.

Roger A. Jones, B. Gaffney, D. S. Pilch, 2004, Biochemistry.

One‐Flask Synthesis of Cyclic Diguanosine Monophosphate (c‐di‐GMP)

Roger A. Jones, B. Gaffney, 2023, Current protocols.

One‐Flask Synthesis of Cyclic Diguanosine Monophosphate (c‐di‐GMP)

Roger A. Jones, B. Gaffney, 2012, Current protocols in nucleic acid chemistry.

Structure Determination of the Top‐Loop of the Conserved 3′‐Terminal Secondary Structure in the Genome of Flaviviruses

Roger A. Jones, P. Herdewijn, N. Dyubankova, 2010, Chembiochem : a European journal of chemical biology.

Modulation of RNA Metal Binding by Flanking Bases: 15N NMR Evaluation of GC, Tandem GU, and Tandem GA Sites

Roger A. Jones, B. Gaffney, Q. Han, 2009, Nucleosides, nucleotides & nucleic acids.