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Items: 23

1.

A Spontaneous Ring-Opening Reaction Leads to a Repair-Resistant Thymine Oxidation Product in Genomic DNA.

Sahakyan AB, Mahtey A, Kawasaki F, Balasubramanian S.

Chembiochem. 2019 Aug 6. doi: 10.1002/cbic.201900484. [Epub ahead of print]

PMID:
31386787
2.

Whole genome experimental maps of DNA G-quadruplexes in multiple species.

Marsico G, Chambers VS, Sahakyan AB, McCauley P, Boutell JM, Antonio MD, Balasubramanian S.

Nucleic Acids Res. 2019 May 7;47(8):3862-3874. doi: 10.1093/nar/gkz179.

3.

Structural analysis reveals the formation and role of RNA G-quadruplex structures in human mature microRNAs.

Chan KL, Peng B, Umar MI, Chan CY, Sahakyan AB, Le MTN, Kwok CK.

Chem Commun (Camb). 2018 Sep 25;54(77):10878-10881. doi: 10.1039/c8cc04635b.

PMID:
30204160
4.

Machine learning model for sequence-driven DNA G-quadruplex formation.

Sahakyan AB, Chambers VS, Marsico G, Santner T, Di Antonio M, Balasubramanian S.

Sci Rep. 2017 Nov 6;7(1):14535. doi: 10.1038/s41598-017-14017-4.

5.

G-quadruplex structures within the 3' UTR of LINE-1 elements stimulate retrotransposition.

Sahakyan AB, Murat P, Mayer C, Balasubramanian S.

Nat Struct Mol Biol. 2017 Mar;24(3):243-247. doi: 10.1038/nsmb.3367. Epub 2017 Jan 30.

PMID:
28134931
6.

Single genome retrieval of context-dependent variability in mutation rates for human germline.

Sahakyan AB, Balasubramanian S.

BMC Genomics. 2017 Jan 13;18(1):81. doi: 10.1186/s12864-016-3440-5.

7.

rG4-seq reveals widespread formation of G-quadruplex structures in the human transcriptome.

Kwok CK, Marsico G, Sahakyan AB, Chambers VS, Balasubramanian S.

Nat Methods. 2016 Oct;13(10):841-4. doi: 10.1038/nmeth.3965. Epub 2016 Aug 29.

PMID:
27571552
8.

Structural Analysis using SHALiPE to Reveal RNA G-Quadruplex Formation in Human Precursor MicroRNA.

Kwok CK, Sahakyan AB, Balasubramanian S.

Angew Chem Int Ed Engl. 2016 Jul 25;55(31):8958-61. doi: 10.1002/anie.201603562. Epub 2016 Jun 29.

9.

Long genes and genes with multiple splice variants are enriched in pathways linked to cancer and other multigenic diseases.

Sahakyan AB, Balasubramanian S.

BMC Genomics. 2016 Mar 12;17:225. doi: 10.1186/s12864-016-2582-9.

10.

Selective Chemical Labeling of Natural T Modifications in DNA.

Hardisty RE, Kawasaki F, Sahakyan AB, Balasubramanian S.

J Am Chem Soc. 2015 Jul 29;137(29):9270-2. doi: 10.1021/jacs.5b03730. Epub 2015 May 12.

11.

Cyclophilin A catalyzes proline isomerization by an electrostatic handle mechanism.

Camilloni C, Sahakyan AB, Holliday MJ, Isern NG, Zhang F, Eisenmesser EZ, Vendruscolo M.

Proc Natl Acad Sci U S A. 2014 Jul 15;111(28):10203-8. doi: 10.1073/pnas.1404220111. Epub 2014 Jun 30.

12.

ALMOST: an all atom molecular simulation toolkit for protein structure determination.

Fu B, Sahakyan AB, Camilloni C, Tartaglia GG, Paci E, Caflisch A, Vendruscolo M, Cavalli A.

J Comput Chem. 2014 May 30;35(14):1101-5. doi: 10.1002/jcc.23588. Epub 2014 Mar 27.

PMID:
24676684
13.

A conformational ensemble derived using NMR methyl chemical shifts reveals a mechanical clamping transition that gates the binding of the HU protein to DNA.

Kannan A, Camilloni C, Sahakyan AB, Cavalli A, Vendruscolo M.

J Am Chem Soc. 2014 Feb 12;136(6):2204-7. doi: 10.1021/ja4105396. Epub 2014 Feb 4.

PMID:
24517490
14.

A geometrical parametrization of C1'-C5' RNA ribose chemical shifts calculated by density functional theory.

Suardíaz R, Sahakyan AB, Vendruscolo M.

J Chem Phys. 2013 Jul 21;139(3):034101. doi: 10.1063/1.4811498.

PMID:
23883004
15.

Analysis of the contributions of ring current and electric field effects to the chemical shifts of RNA bases.

Sahakyan AB, Vendruscolo M.

J Phys Chem B. 2013 Feb 21;117(7):1989-98. doi: 10.1021/jp3057306. Epub 2013 Feb 11.

PMID:
23398371
16.

Protein structure validation using side-chain chemical shifts.

Sahakyan AB, Cavalli A, Vranken WF, Vendruscolo M.

J Phys Chem B. 2012 Apr 26;116(16):4754-9. doi: 10.1021/jp2122054. Epub 2012 Apr 15.

PMID:
22455760
17.

Using side-chain aromatic proton chemical shifts for a quantitative analysis of protein structures.

Sahakyan AB, Vranken WF, Cavalli A, Vendruscolo M.

Angew Chem Int Ed Engl. 2011 Oct 4;50(41):9620-3. doi: 10.1002/anie.201101641. Epub 2011 Sep 2. No abstract available.

PMID:
21887824
18.

Structure-based prediction of methyl chemical shifts in proteins.

Sahakyan AB, Vranken WF, Cavalli A, Vendruscolo M.

J Biomol NMR. 2011 Aug;50(4):331-46. doi: 10.1007/s10858-011-9524-2. Epub 2011 Jul 12.

PMID:
21748266
19.

Electric field effects on one-bond indirect spin-spin coupling constants and possible biomolecular perspectives.

Sahakyan AB, Shahkhatuni AG, Shahkhatuni AA, Panosyan HA.

J Phys Chem A. 2008 Apr 24;112(16):3576-86. doi: 10.1021/jp800670y. Epub 2008 Mar 26.

PMID:
18363392
20.

Supraorbital artery myocutaneous island flap for forehead defect reconstruction.

Gevorgyan A, Yaghjyan GV, Shamakhyan HV, Danielyan AM, Sahakyan AB.

J Craniofac Surg. 2008 Mar;19(2):513-6. doi: 10.1097/SCS.0b013e31806900fa.

PMID:
18362735
21.

Dielectric permittivity and temperature effects on spin-spin couplings studied on acetonitrile.

Sahakyan AB, Shahkhatuni AA, Shahkhatuni AG, Panosyan HA.

Magn Reson Chem. 2008 Jan;46(1):63-8.

PMID:
18098231
22.

Torsion sensitivity in NMR of aligned molecules: study on various substituted biphenyls.

Sahakyan AB, Shahkhatuni AG, Shahkhatuni AA, Panosyan HA.

Magn Reson Chem. 2008 Feb;46(2):144-9.

PMID:
18095265
23.

Assessment of solvent effects: do weak alignment media affect the structure of the solute?

Shahkhatuni AA, Shahkhatuni AG, Panosyan HA, Sahakyan AB, Byeon IJ, Gronenborn AM.

Magn Reson Chem. 2007 Jul;45(7):557-63.

PMID:
17534883

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