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Items: 20

1.

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.

2.

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
3.

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.

4.

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
5.

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.

PMID:
27355429
6.

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.

7.

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.

8.

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.

9.

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
10.

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
11.

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
12.

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
13.

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
14.

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
15.

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
16.

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
17.

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
18.

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
19.

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
20.

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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