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Items: 1 to 50 of 100

1.

Genome-wide significant regions in 43 Utah high-risk families implicate multiple genes involved in risk for completed suicide.

Coon H, Darlington TM, DiBlasi E, Callor WB, Ferris E, Fraser A, Yu Z, William N, Das SC, Crowell SE, Chen D, Anderson JS, Klein M, Jerominski L, Cannon D, Shabalin A, Docherty A, Williams M, Smith KR, Keeshin B, Bakian AV, Christensen E, Li QS, Camp NJ, Gray D.

Mol Psychiatry. 2018 Oct 23. doi: 10.1038/s41380-018-0282-3. [Epub ahead of print]

PMID:
30353169
2.

Polygenic risk scoring and prediction of mental health outcomes.

Anderson JS, Shade J, DiBlasi E, Shabalin AA, Docherty AR.

Curr Opin Psychol. 2018 Sep 20;27:77-81. doi: 10.1016/j.copsyc.2018.09.002. [Epub ahead of print] Review.

PMID:
30339992
3.

A Whole Methylome Study of Ethanol Exposure in Brain and Blood: An Exploration of the Utility of Peripheral Blood as Proxy Tissue for Brain in Alcohol Methylation Studies.

Clark SL, Costin BN, Chan RF, Johnson AW, Xie L, Jurmain JL, Kumar G, Shabalin AA, Pandey AK, Aberg KA, Miles MF, van den Oord E.

Alcohol Clin Exp Res. 2018 Dec;42(12):2360-2368. doi: 10.1111/acer.13905. Epub 2018 Nov 11.

PMID:
30320886
4.

Methylome-wide association findings for major depressive disorder overlap in blood and brain and replicate in independent brain samples.

Aberg KA, Dean B, Shabalin AA, Chan RF, Han LKM, Zhao M, van Grootheest G, Xie LY, Milaneschi Y, Clark SL, Turecki G, Penninx BWJH, van den Oord EJCG.

Mol Psychiatry. 2018 Sep 21. doi: 10.1038/s41380-018-0247-6. [Epub ahead of print]

PMID:
30242228
5.

Convergence of evidence from a methylome-wide CpG-SNP association study and GWAS of major depressive disorder.

Aberg KA, Shabalin AA, Chan RF, Zhao M, Kumar G, van Grootheest G, Clark SL, Xie LY, Milaneschi Y, Penninx BWJH, van den Oord EJCG.

Transl Psychiatry. 2018 Aug 22;8(1):162. doi: 10.1038/s41398-018-0205-8.

6.

Unravelling the structural rearrangement of polymer colloidal crystals under dry sintering conditions.

Zozulya AV, Zaluzhnyy IA, Mukharamova N, Lazarev S, Meijer JM, Kurta RP, Shabalin A, Sprung M, Petukhov AV, Vartanyants IA.

Soft Matter. 2018 Sep 7;14(33):6849-6856. doi: 10.1039/c8sm01412d. Epub 2018 Aug 10.

PMID:
30095841
7.

Building a schizophrenia genetic network: transcription factor 4 regulates genes involved in neuronal development and schizophrenia risk.

Xia H, Jahr FM, Kim NK, Xie L, Shabalin AA, Bryois J, Sweet DH, Kronfol MM, Palasuberniam P, McRae M, Riley BP, Sullivan PF, van den Oord EJ, McClay JL.

Hum Mol Genet. 2018 Sep 15;27(18):3246-3256. doi: 10.1093/hmg/ddy222.

PMID:
29905862
8.

Enhancing Psychosis-Spectrum Nosology Through an International Data Sharing Initiative.

Docherty AR, Fonseca-Pedrero E, Debbané M, Chan RCK, Linscott RJ, Jonas KG, Cicero DC, Green MJ, Simms LJ, Mason O, Watson D, Ettinger U, Waszczuk M, Rapp A, Grant P, Kotov R, DeYoung CG, Ruggero CJ, Eaton NR, Krueger RF, Patrick C, Hopwood C, O'Neill FA, Zald DH, Conway CC, Adkins DE, Waldman ID, van Os J, Sullivan PF, Anderson JS, Shabalin AA, Sponheim SR, Taylor SF, Grazioplene RG, Bacanu SA, Bigdeli TB, Haenschel C, Malaspina D, Gooding DC, Nicodemus K, Schultze-Lutter F, Barrantes-Vidal N, Mohr C, Carpenter WT, Cohen AS.

Schizophr Bull. 2018 Oct 15;44(suppl_2):S460-S467. doi: 10.1093/schbul/sby059.

PMID:
29788473
9.

Epigenetic Aging in Major Depressive Disorder.

Han LKM, Aghajani M, Clark SL, Chan RF, Hattab MW, Shabalin AA, Zhao M, Kumar G, Xie LY, Jansen R, Milaneschi Y, Dean B, Aberg KA, van den Oord EJCG, Penninx BWJH.

Am J Psychiatry. 2018 Aug 1;175(8):774-782. doi: 10.1176/appi.ajp.2018.17060595. Epub 2018 Apr 16.

PMID:
29656664
10.

RaMWAS: fast methylome-wide association study pipeline for enrichment platforms.

Shabalin AA, Hattab MW, Clark SL, Chan RF, Kumar G, Aberg KA, van den Oord EJCG.

Bioinformatics. 2018 Jul 1;34(13):2283-2285. doi: 10.1093/bioinformatics/bty069.

PMID:
29447401
11.

Methyl-CpG-Binding Domain Sequencing: MBD-seq.

Aberg KA, Chan RF, Xie L, Shabalin AA, van den Oord EJCG.

Methods Mol Biol. 2018;1708:171-189. doi: 10.1007/978-1-4939-7481-8_10.

PMID:
29224145
12.

Ptychographic X-Ray Imaging of Colloidal Crystals.

Lazarev S, Besedin I, Zozulya AV, Meijer JM, Dzhigaev D, Gorobtsov OY, Kurta RP, Rose M, Shabalin AG, Sulyanova EA, Zaluzhnyy I, Menushenkov AP, Sprung M, Petukhov AV, Vartanyants IA.

Small. 2018 Jan;14(3). doi: 10.1002/smll.201702575. Epub 2017 Nov 24.

PMID:
29171683
13.

Estimation of cis-eQTL effect sizes using a log of linear model.

Palowitch J, Shabalin A, Zhou YH, Nobel AB, Wright FA.

Biometrics. 2018 Jun;74(2):616-625. doi: 10.1111/biom.12810. Epub 2017 Oct 26.

14.

An empirical Bayes approach for multiple tissue eQTL analysis.

Li G, Shabalin AA, Rusyn I, Wright FA, Nobel AB.

Biostatistics. 2018 Jul 1;19(3):391-406. doi: 10.1093/biostatistics/kxx048.

PMID:
29029013
15.

A MBD-seq protocol for large-scale methylome-wide studies with (very) low amounts of DNA.

Aberg KA, Chan RF, Shabalin AA, Zhao M, Turecki G, Staunstrup NH, Starnawska A, Mors O, Xie LY, van den Oord EJ.

Epigenetics. 2017 Sep;12(9):743-750. doi: 10.1080/15592294.2017.1335849. Epub 2017 Nov 6.

16.

Substitution of fluorine in M[C6F5BF3] with organolithium compounds: distinctions between O- and N-nucleophiles.

Shabalin AY, Adonin NY, Bardin VV.

Beilstein J Org Chem. 2017 Apr 12;13:703-713. doi: 10.3762/bjoc.13.69. eCollection 2017.

17.

Structural studies of the bond-orientational order and hexatic-smectic transition in liquid crystals of various compositions.

Zaluzhnyy IA, Kurta RP, Sulyanova EA, Gorobtsov OY, Shabalin AG, Zozulya AV, Menushenkov AP, Sprung M, Krówczyński A, Górecka E, Ostrovskii BI, Vartanyants IA.

Soft Matter. 2017 May 3;13(17):3240-3252. doi: 10.1039/c7sm00343a.

PMID:
28402369
18.

Enrichment methods provide a feasible approach to comprehensive and adequately powered investigations of the brain methylome.

Chan RF, Shabalin AA, Xie LY, Adkins DE, Zhao M, Turecki G, Clark SL, Aberg KA, van den Oord EJCG.

Nucleic Acids Res. 2017 Jun 20;45(11):e97. doi: 10.1093/nar/gkx143.

19.

X-ray Bragg Ptychography on a Single InGaN/GaN Core-Shell Nanowire.

Dzhigaev D, Stankevič T, Bi Z, Lazarev S, Rose M, Shabalin A, Reinhardt J, Mikkelsen A, Samuelson L, Falkenberg G, Feidenhans'l R, Vartanyants IA.

ACS Nano. 2017 Jul 25;11(7):6605-6611. doi: 10.1021/acsnano.6b08122. Epub 2017 Mar 20.

PMID:
28264155
20.

Deep Sequencing of 71 Candidate Genes to Characterize Variation Associated with Alcohol Dependence.

Clark SL, McClay JL, Adkins DE, Kumar G, Aberg KA, Nerella S, Xie L, Collins AL, Crowley JJ, Quackenbush CR, Hilliard CE, Shabalin AA, Vrieze SI, Peterson RE, Copeland WE, Silberg JL, McGue M, Maes H, Iacono WG, Sullivan PF, Costello EJ, van den Oord EJ.

Alcohol Clin Exp Res. 2017 Apr;41(4):711-718. doi: 10.1111/acer.13352. Epub 2017 Mar 24.

21.

Correcting for cell-type effects in DNA methylation studies: reference-based method outperforms latent variable approaches in empirical studies.

Hattab MW, Shabalin AA, Clark SL, Zhao M, Kumar G, Chan RF, Xie LY, Jansen R, Han LK, Magnusson PK, van Grootheest G, Hultman CM, Penninx BW, Aberg KA, van den Oord EJ.

Genome Biol. 2017 Jan 30;18(1):24. doi: 10.1186/s13059-017-1148-8.

22.

Erratum: Hanbury Brown-Twiss Interferometry at a Free-Electron Laser [Phys. Rev. Lett. 111, 034802 (2013)].

Singer A, Lorenz U, Sorgenfrei F, Gerasimova N, Gulden J, Yefanov OM, Kurta RP, Shabalin A, Dronyak R, Treusch R, Kocharyan V, Weckert E, Wurth W, Vartanyants IA.

Phys Rev Lett. 2016 Dec 2;117(23):239903. Epub 2016 Dec 2.

PMID:
27982658
23.

Revealing Three-Dimensional Structure of an Individual Colloidal Crystal Grain by Coherent X-Ray Diffractive Imaging.

Shabalin AG, Meijer JM, Dronyak R, Yefanov OM, Singer A, Kurta RP, Lorenz U, Gorobtsov OY, Dzhigaev D, Kalbfleisch S, Gulden J, Zozulya AV, Sprung M, Petukhov AV, Vartanyants IA.

Phys Rev Lett. 2016 Sep 23;117(13):138002. Epub 2016 Sep 22.

PMID:
27715114
24.

High density methylation QTL analysis in human blood via next-generation sequencing of the methylated genomic DNA fraction.

McClay JL, Shabalin AA, Dozmorov MG, Adkins DE, Kumar G, Nerella S, Clark SL, Bergen SE; Swedish Schizophrenia Consortium, Hultman CM, Magnusson PK, Sullivan PF, Aberg KA, van den Oord EJ.

Genome Biol. 2015 Dec 23;16:291. doi: 10.1186/s13059-015-0842-7.

25.

A Whole Methylome CpG-SNP Association Study of Psychosis in Blood and Brain Tissue.

van den Oord EJ, Clark SL, Xie LY, Shabalin AA, Dozmorov MG, Kumar G; Swedish Schizophrenia Consortium, Vladimirov VI, Magnusson PK, Aberg KA.

Schizophr Bull. 2016 Jul;42(4):1018-26. doi: 10.1093/schbul/sbv182. Epub 2015 Dec 9.

26.

An integrated map of structural variation in 2,504 human genomes.

Sudmant PH, Rausch T, Gardner EJ, Handsaker RE, Abyzov A, Huddleston J, Zhang Y, Ye K, Jun G, Fritz MH, Konkel MK, Malhotra A, Stütz AM, Shi X, Casale FP, Chen J, Hormozdiari F, Dayama G, Chen K, Malig M, Chaisson MJP, Walter K, Meiers S, Kashin S, Garrison E, Auton A, Lam HYK, Mu XJ, Alkan C, Antaki D, Bae T, Cerveira E, Chines P, Chong Z, Clarke L, Dal E, Ding L, Emery S, Fan X, Gujral M, Kahveci F, Kidd JM, Kong Y, Lameijer EW, McCarthy S, Flicek P, Gibbs RA, Marth G, Mason CE, Menelaou A, Muzny DM, Nelson BJ, Noor A, Parrish NF, Pendleton M, Quitadamo A, Raeder B, Schadt EE, Romanovitch M, Schlattl A, Sebra R, Shabalin AA, Untergasser A, Walker JA, Wang M, Yu F, Zhang C, Zhang J, Zheng-Bradley X, Zhou W, Zichner T, Sebat J, Batzer MA, McCarroll SA; 1000 Genomes Project Consortium, Mills RE, Gerstein MB, Bashir A, Stegle O, Devine SE, Lee C, Eichler EE, Korbel JO.

Nature. 2015 Oct 1;526(7571):75-81. doi: 10.1038/nature15394.

27.

Deep Sequencing of Three Loci Implicated in Large-Scale Genome-Wide Association Study Smoking Meta-Analyses.

Clark SL, McClay JL, Adkins DE, Aberg KA, Kumar G, Nerella S, Xie L, Collins AL, Crowley JJ, Quakenbush CR, Hillard CE, Gao G, Shabalin AA, Peterson RE, Copeland WE, Silberg JL, Maes H, Sullivan PF, Costello EJ, van den Oord EJ.

Nicotine Tob Res. 2016 May;18(5):626-31. doi: 10.1093/ntr/ntv166. Epub 2015 Aug 17.

28.

Combined Whole Methylome and Genomewide Association Study Implicates CNTN4 in Alcohol Use.

Clark SL, Aberg KA, Nerella S, Kumar G, McClay JL, Chen W, Xie LY, Harada A, Shabalin AA, Gao G, Bergen SE, Hultman CM, Magnusson PK, Sullivan PF, van den Oord EJ.

Alcohol Clin Exp Res. 2015 Aug;39(8):1396-405. doi: 10.1111/acer.12790. Epub 2015 Jul 4.

30.

Spatially resolved x-ray studies of liquid crystals with strongly developed bond-orientational order.

Zaluzhnyy IA, Kurta RP, Sulyanova EA, Gorobtsov OY, Shabalin AG, Zozulya AV, Menushenkov AP, Sprung M, Ostrovskii BI, Vartanyants IA.

Phys Rev E Stat Nonlin Soft Matter Phys. 2015 Apr;91(4):042506. Epub 2015 Apr 17.

PMID:
25974515
31.

Water window ptychographic imaging with characterized coherent X-rays.

Rose M, Skopintsev P, Dzhigaev D, Gorobtsov O, Senkbeil T, von Gundlach A, Gorniak T, Shabalin A, Viefhaus J, Rosenhahn A, Vartanyants I.

J Synchrotron Radiat. 2015 May;22(3):819-27. doi: 10.1107/S1600577515005524. Epub 2015 Apr 23.

32.

Candidate gene methylation studies are at high risk of erroneous conclusions.

Shabalin AA, Aberg KA, van den Oord EJ.

Epigenomics. 2015;7(1):13-5. doi: 10.2217/epi.14.70. No abstract available.

33.

Structural evolution of colloidal crystal films in the process of melting revealed by Bragg peak analysis.

Sulyanova EA, Shabalin A, Zozulya AV, Meijer JM, Dzhigaev D, Gorobtsov O, Kurta RP, Lazarev S, Lorenz U, Singer A, Yefanov O, Zaluzhnyy I, Besedin I, Sprung M, Petukhov AV, Vartanyants IA.

Langmuir. 2015 May 19;31(19):5274-83. doi: 10.1021/la504652z. Epub 2015 Jan 27.

PMID:
25594683
34.
35.

Refinement of schizophrenia GWAS loci using methylome-wide association data.

Kumar G, Clark SL, McClay JL, Shabalin AA, Adkins DE, Xie L, Chan R, Nerella S, Kim Y, Sullivan PF, Hultman CM, Magnusson PK, Aberg KA, van den Oord EJ.

Hum Genet. 2015 Jan;134(1):77-87. doi: 10.1007/s00439-014-1494-5. Epub 2014 Oct 7.

36.

Quantitative trait locus mapping methods for diversity outbred mice.

Gatti DM, Svenson KL, Shabalin A, Wu LY, Valdar W, Simecek P, Goodwin N, Cheng R, Pomp D, Palmer A, Chesler EJ, Broman KW, Churchill GA.

G3 (Bethesda). 2014 Sep 18;4(9):1623-33. doi: 10.1534/g3.114.013748.

37.

Intensity interferometry of single x-ray pulses from a synchrotron storage ring.

Singer A, Lorenz U, Marras A, Klyuev A, Becker J, Schlage K, Skopintsev P, Gorobtsov O, Shabalin A, Wille HC, Franz H, Graafsma H, Vartanyants IA.

Phys Rev Lett. 2014 Aug 8;113(6):064801. Epub 2014 Aug 6.

PMID:
25148330
38.

Characterization of spatial coherence of synchrotron radiation with non-redundant arrays of apertures.

Skopintsev P, Singer A, Bach J, Müller L, Beyersdorff B, Schleitzer S, Gorobtsov O, Shabalin A, Kurta RP, Dzhigaev D, Yefanov OM, Glaser L, Sakdinawat A, Grübel G, Frömter R, Oepen HP, Viefhaus J, Vartanyants IA.

J Synchrotron Radiat. 2014 Jul;21(Pt 4):722-8. doi: 10.1107/S1600577514006857. Epub 2014 May 13.

PMID:
24971966
39.

Heritability and genomics of gene expression in peripheral blood.

Wright FA, Sullivan PF, Brooks AI, Zou F, Sun W, Xia K, Madar V, Jansen R, Chung W, Zhou YH, Abdellaoui A, Batista S, Butler C, Chen G, Chen TH, D'Ambrosio D, Gallins P, Ha MJ, Hottenga JJ, Huang S, Kattenberg M, Kochar J, Middeldorp CM, Qu A, Shabalin A, Tischfield J, Todd L, Tzeng JY, van Grootheest G, Vink JM, Wang Q, Wang W, Wang W, Willemsen G, Smit JH, de Geus EJ, Yin Z, Penninx BW, Boomsma DI.

Nat Genet. 2014 May;46(5):430-7. doi: 10.1038/ng.2951. Epub 2014 Apr 13.

40.

X-ray cross-correlation analysis of liquid crystal membranes in the vicinity of the hexatic-smectic phase transition.

Kurta RP, Ostrovskii BI, Singer A, Gorobtsov OY, Shabalin A, Dzhigaev D, Yefanov OM, Zozulya AV, Sprung M, Vartanyants IA.

Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Oct;88(4):044501. Epub 2013 Oct 14.

PMID:
24229307
41.

In situ X-ray crystallographic study of the structural evolution of colloidal crystals upon heating.

Zozulya AV, Meijer JM, Shabalin A, Ricci A, Westermeier F, Kurta RP, Lorenz U, Singer A, Yefanov O, Petukhov AV, Sprung M, Vartanyants IA.

J Appl Crystallogr. 2013 Aug 1;46(Pt 4):903-907. Epub 2013 Jun 7.

42.

Hanbury Brown-Twiss interferometry at a free-electron laser.

Singer A, Lorenz U, Sorgenfrei F, Gerasimova N, Gulden J, Yefanov OM, Kurta RP, Shabalin A, Dronyak R, Treusch R, Kocharyan V, Weckert E, Wurth W, Vartanyants IA.

Phys Rev Lett. 2013 Jul 19;111(3):034802. Epub 2013 Jul 17. Erratum in: Phys Rev Lett. 2016 Dec 2;117(23 ):239903.

PMID:
23909331
43.

Resolving the polymorphism-in-probe problem is critical for correct interpretation of expression QTL studies.

Ramasamy A, Trabzuni D, Gibbs JR, Dillman A, Hernandez DG, Arepalli S, Walker R, Smith C, Ilori GP, Shabalin AA, Li Y, Singleton AB, Cookson MR; NABEC, Hardy J; UKBEC, Ryten M, Weale ME.

Nucleic Acids Res. 2013 Apr;41(7):e88. doi: 10.1093/nar/gkt069. Epub 2013 Feb 21.

44.

Matrix eQTL: ultra fast eQTL analysis via large matrix operations.

Shabalin AA.

Bioinformatics. 2012 May 15;28(10):1353-8. doi: 10.1093/bioinformatics/bts163. Epub 2012 Apr 6.

45.

Computational tools for discovery and interpretation of expression quantitative trait loci.

Wright FA, Shabalin AA, Rusyn I.

Pharmacogenomics. 2012 Feb;13(3):343-52. doi: 10.2217/pgs.11.185. Review.

46.

seeQTL: a searchable database for human eQTLs.

Xia K, Shabalin AA, Huang S, Madar V, Zhou YH, Wang W, Zou F, Sun W, Sullivan PF, Wright FA.

Bioinformatics. 2012 Feb 1;28(3):451-2. doi: 10.1093/bioinformatics/btr678. Epub 2011 Dec 13.

47.

Basal-like Breast cancer DNA copy number losses identify genes involved in genomic instability, response to therapy, and patient survival.

Weigman VJ, Chao HH, Shabalin AA, He X, Parker JS, Nordgard SH, Grushko T, Huo D, Nwachukwu C, Nobel A, Kristensen VN, Børresen-Dale AL, Olopade OI, Perou CM.

Breast Cancer Res Treat. 2012 Jun;133(3):865-80. doi: 10.1007/s10549-011-1846-y. Epub 2011 Nov 3.

48.

Sex-specific gene expression in the BXD mouse liver.

Gatti DM, Zhao N, Chesler EJ, Bradford BU, Shabalin AA, Yordanova R, Lu L, Rusyn I.

Physiol Genomics. 2010 Aug;42(3):456-68. doi: 10.1152/physiolgenomics.00110.2009. Epub 2010 Jun 15.

49.

The Set2/Rpd3S pathway suppresses cryptic transcription without regard to gene length or transcription frequency.

Lickwar CR, Rao B, Shabalin AA, Nobel AB, Strahl BD, Lieb JD.

PLoS One. 2009;4(3):e4886. doi: 10.1371/journal.pone.0004886. Epub 2009 Mar 19.

50.

FastMap: fast eQTL mapping in homozygous populations.

Gatti DM, Shabalin AA, Lam TC, Wright FA, Rusyn I, Nobel AB.

Bioinformatics. 2009 Feb 15;25(4):482-9. doi: 10.1093/bioinformatics/btn648. Epub 2008 Dec 17.

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