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Items: 1 to 50 of 56

1.

[3D Genomics].

Razin SV, Ulianov SV, Gavrilov AA.

Mol Biol (Mosk). 2019 Nov-Dec;53(6):911-923. doi: 10.1134/S0026898419060156. Review. Russian.

PMID:
31876272
2.

Polyelectrolyte Microgels at a Liquid-Liquid Interface: Swelling and Long-Range Ordering.

Gavrilov AA, Richtering W, Potemkin II.

J Phys Chem B. 2019 Oct 10;123(40):8590-8598. doi: 10.1021/acs.jpcb.9b07725. Epub 2019 Sep 26.

PMID:
31525049
3.

C-TALE, a new cost-effective method for targeted enrichment of Hi-C/3C-seq libraries.

Golov AK, Ulianov SV, Luzhin AV, Kalabusheva EP, Kantidze OL, Flyamer IM, Razin SV, Gavrilov AA.

Methods. 2020 Jan 1;170:48-60. doi: 10.1016/j.ymeth.2019.06.022. Epub 2019 Jun 26.

PMID:
31252062
4.

Phase Behavior of Melts of Diblock-Copolymers with One Charged Block.

Gavrilov AA, Chertovich AV, Potemkin II.

Polymers (Basel). 2019 Jun 10;11(6). pii: E1027. doi: 10.3390/polym11061027.

5.

CRISPR/Cas9-generated mouse model of Duchenne muscular dystrophy recapitulating a newly identified large 430 kb deletion in the human DMD gene.

Egorova TV, Zotova ED, Reshetov DA, Polikarpova AV, Vassilieva SG, Vlodavets DV, Gavrilov AA, Ulianov SV, Buchman VL, Deykin AV.

Dis Model Mech. 2019 Apr 25;12(4). pii: dmm037655. doi: 10.1242/dmm.037655.

6.

Nuclear lamina integrity is required for proper spatial organization of chromatin in Drosophila.

Ulianov SV, Doronin SA, Khrameeva EE, Kos PI, Luzhin AV, Starikov SS, Galitsyna AA, Nenasheva VV, Ilyin AA, Flyamer IM, Mikhaleva EA, Logacheva MD, Gelfand MS, Chertovich AV, Gavrilov AA, Razin SV, Shevelyov YY.

Nat Commun. 2019 Mar 12;10(1):1176. doi: 10.1038/s41467-019-09185-y.

7.

Quantitative differences in TAD border strength underly the TAD hierarchy in Drosophila chromosomes.

Luzhin AV, Flyamer IM, Khrameeva EE, Ulianov SV, Razin SV, Gavrilov AA.

J Cell Biochem. 2019 Mar;120(3):4494-4503. doi: 10.1002/jcb.27737. Epub 2018 Sep 27.

PMID:
30260021
8.

Adaptive structure of gels and microgels with sliding cross-links: enhanced softness, stretchability and permeability.

Gavrilov AA, Potemkin II.

Soft Matter. 2018 Jun 20;14(24):5098-5105. doi: 10.1039/c8sm00192h.

PMID:
29873660
9.

Shell-corona microgels from double interpenetrating networks.

Rudyak VY, Gavrilov AA, Kozhunova EY, Chertovich AV.

Soft Matter. 2018 Apr 18;14(15):2777-2781. doi: 10.1039/c8sm00170g.

PMID:
29633777
10.

Structural-Functional Domains of the Eukaryotic Genome.

Razin SV, Gavrilov AA.

Biochemistry (Mosc). 2018 Apr;83(4):302-312. doi: 10.1134/S0006297918040028. Review.

11.

Effect of counterion excluded volume on the conformational behavior of polyelectrolyte chains.

Gordievskaya YD, Gavrilov AA, Kramarenko EY.

Soft Matter. 2018 Feb 21;14(8):1474-1481. doi: 10.1039/c7sm02335a.

PMID:
29399691
12.

Activation of the alpha-globin gene expression correlates with dramatic upregulation of nearby non-globin genes and changes in local and large-scale chromatin spatial structure.

Ulianov SV, Galitsyna AA, Flyamer IM, Golov AK, Khrameeva EE, Imakaev MV, Abdennur NA, Gelfand MS, Gavrilov AA, Razin SV.

Epigenetics Chromatin. 2017 Jul 11;10(1):35. doi: 10.1186/s13072-017-0142-4.

13.

Evolution of the Genome 3D Organization: Comparison of Fused and Segregated Globin Gene Clusters.

Kovina AP, Petrova NV, Gushchanskaya ES, Dolgushin KV, Gerasimov ES, Galitsyna AA, Penin AA, Flyamer IM, Ioudinkova ES, Gavrilov AA, Vassetzky YS, Ulianov SV, Iarovaia OV, Razin SV.

Mol Biol Evol. 2017 Jun 1;34(6):1492-1504. doi: 10.1093/molbev/msx100.

PMID:
28333290
14.

Copolymerization on Selective Substrates: Experimental Test and Computer Simulations.

Kozhunova EY, Gavrilov AA, Zaremski MY, Chertovich AV.

Langmuir. 2017 Apr 11;33(14):3548-3555. doi: 10.1021/acs.langmuir.7b00406. Epub 2017 Mar 28.

PMID:
28326788
15.

Dissipative particle dynamics for systems with high density of charges: Implementation of electrostatic interactions.

Gavrilov AA, Chertovich AV, Kramarenko EY.

J Chem Phys. 2016 Nov 7;145(17):174101.

PMID:
27825212
16.

Single-cell genome-wide studies give new insight into nongenetic cell-to-cell variability in animals.

Golov AK, Razin SV, Gavrilov AA.

Histochem Cell Biol. 2016 Sep;146(3):239-54. doi: 10.1007/s00418-016-1466-z. Epub 2016 Jul 13. Review.

PMID:
27412014
17.

Unraveling the mechanisms of chromatin fibril packaging.

Gavrilov AA, Shevelyov YY, Ulianov SV, Khrameeva EE, Kos P, Chertovich A, Razin SV.

Nucleus. 2016 May 3;7(3):319-24. doi: 10.1080/19491034.2016.1190896.

18.

Topologically-associating domains: gene warehouses adapted to serve transcriptional regulation.

Razin SV, Gavrilov AA, Vassetzky YS, Ulianov SV.

Transcription. 2016 May 26;7(3):84-90. doi: 10.1080/21541264.2016.1181489. Epub 2016 Apr 25. Review.

19.

Distinct Patterns of Colocalization of the CCND1 and CMYC Genes With Their Potential Translocation Partner IGH at Successive Stages of B-Cell Differentiation.

Sklyar I, Iarovaia OV, Gavrilov AA, Pichugin A, Germini D, Tsfasman T, Caron G, Fest T, Lipinski M, Razin SV, Vassetzky YS.

J Cell Biochem. 2016 Jul;117(7):1506-10. doi: 10.1002/jcb.25516. Epub 2016 Mar 6.

20.

Active chromatin and transcription play a key role in chromosome partitioning into topologically associating domains.

Ulianov SV, Khrameeva EE, Gavrilov AA, Flyamer IM, Kos P, Mikhaleva EA, Penin AA, Logacheva MD, Imakaev MV, Chertovich A, Gelfand MS, Shevelyov YY, Razin SV.

Genome Res. 2016 Jan;26(1):70-84. doi: 10.1101/gr.196006.115. Epub 2015 Oct 30.

21.

The Role of Crowding Forces in Juxtaposing β-Globin Gene Domain Remote Regulatory Elements in Mouse Erythroid Cells.

Golov AK, Gavrilov AA, Razin SV.

PLoS One. 2015 Oct 5;10(10):e0139855. doi: 10.1371/journal.pone.0139855. eCollection 2015.

22.

[Regulatory elements of the eukaryotic genome controlling transcription].

Razin SV, Gavrilov AA, Ulyanov SV.

Mol Biol (Mosk). 2015 Mar-Apr;49(2):212-23. Review. Russian.

23.

Multiblock copolymers prepared by patterned modification: Analytical theory and computer simulations.

Govorun EN, Gavrilov AA, Chertovich AV.

J Chem Phys. 2015 May 28;142(20):204903. doi: 10.1063/1.4921685.

PMID:
26026461
24.

Anomalous diffusion in fractal globules.

Tamm MV, Nazarov LI, Gavrilov AA, Chertovich AV.

Phys Rev Lett. 2015 May 1;114(17):178102. Epub 2015 Apr 30.

PMID:
25978267
25.

[Compartmentalization of the cell nucleus and spatial organization of the genome].

Gavrilov AA, Razin SV.

Mol Biol (Mosk). 2015 Jan-Feb;49(1):26-45. Review. Russian.

26.

[Spatial organization of house-keeping genes in interphase nuclei].

Gushchanskaia ES, Artemov AA, Ul'ianov SV, Penin AA, Logacheva MD, Razin SV, Gavrilov AA.

Mol Biol (Mosk). 2014 Nov-Dec;48(6):1008-18. Russian.

27.

[Spatial organization of interphase chromosomes and the role of chromatin fiber dynamycs in the positioning of genome elements].

Gushchanskaya ES, Gavrilov AA, Razin SV.

Mol Biol (Mosk). 2014 May-Jun;48(3):386-94. Review. Russian.

28.

Nuclear compartments, genome folding, and enhancer-promoter communication.

Ulianov SV, Gavrilov AA, Razin SV.

Int Rev Cell Mol Biol. 2015;315:183-244. doi: 10.1016/bs.ircmb.2014.11.004. Epub 2015 Feb 9. Review.

PMID:
25708464
29.

The clustering of CpG islands may constitute an important determinant of the 3D organization of interphase chromosomes.

Gushchanskaya ES, Artemov AV, Ulyanov SV, Logacheva MD, Penin AA, Kotova ES, Akopov SB, Nikolaev LG, Iarovaia OV, Sverdlov ED, Gavrilov AA, Razin SV.

Epigenetics. 2014 Jul;9(7):951-63. doi: 10.4161/epi.28794. Epub 2014 Apr 15.

30.

Chromatin without the 30-nm fiber: constrained disorder instead of hierarchical folding.

Razin SV, Gavrilov AA.

Epigenetics. 2014 May;9(5):653-7. doi: 10.4161/epi.28297. Epub 2014 Feb 21. Review.

31.

Quantitative analysis of genomic element interactions by molecular colony technique.

Gavrilov AA, Chetverina HV, Chermnykh ES, Razin SV, Chetverin AB.

Nucleic Acids Res. 2014 Mar;42(5):e36. doi: 10.1093/nar/gkt1322. Epub 2013 Dec 24.

32.

Phase diagrams of block copolymer melts by dissipative particle dynamics simulations.

Gavrilov AA, Kudryavtsev YV, Chertovich AV.

J Chem Phys. 2013 Dec 14;139(22):224901. doi: 10.1063/1.4837215.

PMID:
24329087
33.

Communication of genome regulatory elements in a folded chromosome.

Razin SV, Gavrilov AA, Ioudinkova ES, Iarovaia OV.

FEBS Lett. 2013 Jun 27;587(13):1840-7. doi: 10.1016/j.febslet.2013.04.027. Epub 2013 May 4. Review.

34.

Actual ligation frequencies in the chromosome conformation capture procedure.

Gavrilov AA, Golov AK, Razin SV.

PLoS One. 2013;8(3):e60403. doi: 10.1371/journal.pone.0060403. Epub 2013 Mar 26.

35.

Disclosure of a structural milieu for the proximity ligation reveals the elusive nature of an active chromatin hub.

Gavrilov AA, Gushchanskaya ES, Strelkova O, Zhironkina O, Kireev II, Iarovaia OV, Razin SV.

Nucleic Acids Res. 2013 Apr 1;41(6):3563-75. doi: 10.1093/nar/gkt067. Epub 2013 Feb 8.

36.

Domains of α- and β-globin genes in the context of the structural-functional organization of the eukaryotic genome.

Razin SV, Ulianov SV, Ioudinkova ES, Gushchanskaya ES, Gavrilov AA, Iarovaia OV.

Biochemistry (Mosc). 2012 Dec;77(13):1409-23. doi: 10.1134/S0006297912130019. Review.

37.

[The chicken beta-globin genes: a model system for studying transcription regulation at the level of genomic domains].

Ul'ianov SV, Gavrilov AA.

Mol Biol (Mosk). 2012 Sep-Oct;46(5):683-98. Review. Russian.

PMID:
23156668
38.

Spatial organization of the chicken beta-globin gene domain in erythroid cells of embryonic and adult lineages.

Ulianov SV, Gavrilov AA, Razin SV.

Epigenetics Chromatin. 2012 Sep 7;5(1):16. doi: 10.1186/1756-8935-5-16.

39.

Identification of c-Myb Target Genes in K562 Cells Reveals a Role for c-Myb as a Master Regulator.

Lorenzo PI, Brendeford EM, Gilfillan S, Gavrilov AA, Leedsak M, Razin SV, Eskeland R, Sæther T, Gabrielsen OS.

Genes Cancer. 2011 Aug;2(8):805-17. doi: 10.1177/1947601911428224.

40.

The inactivation of the π gene in chicken erythroblasts of adult lineage is not mediated by packaging of the embryonic part of the α-globin gene domain into a repressive heterochromatin-like structure.

Ioudinkova ES, Ulianov SV, Bunina D, Iarovaia OV, Gavrilov AA, Razin SV.

Epigenetics. 2011 Dec;6(12):1481-8. doi: 10.4161/epi.6.12.18215.

PMID:
22139578
41.

[Patterns of the histone modifications across the chicken alpha-globin genes domain].

Iudinkova ES, Bunina DA, Ul'ianov SV, Gavrilov AA, Razin SV.

Mol Biol (Mosk). 2011 Jul-Aug;45(4):662-7. Russian.

PMID:
21954598
42.

Transcription factories in the context of the nuclear and genome organization.

Razin SV, Gavrilov AA, Pichugin A, Lipinski M, Iarovaia OV, Vassetzky YS.

Nucleic Acids Res. 2011 Nov;39(21):9085-92. doi: 10.1093/nar/gkr683. Epub 2011 Aug 31. Review.

43.

Transcription factories and spatial organization of eukaryotic genomes.

Razin SV, Gavrilov AA, Yarovaya OV.

Biochemistry (Mosc). 2010 Nov;75(11):1307-15. Review.

PMID:
21314597
44.

[Expansion of the functional domain of chicken alpha-globin genes].

Filonenko ES, Gavrilov AA, Razin SV, Iarovaia OV.

Genetika. 2010 Sep;46(9):1164-7. Russian.

PMID:
21061608
45.

Mapping of the nuclear matrix-bound chromatin hubs by a new M3C experimental procedure.

Gavrilov AA, Zukher IS, Philonenko ES, Razin SV, Iarovaia OV.

Nucleic Acids Res. 2010 Dec;38(22):8051-60. doi: 10.1093/nar/gkq712. Epub 2010 Aug 12.

46.

TMEM8 - a non-globin gene entrapped in the globin web.

Philonenko ES, Klochkov DB, Borunova VV, Gavrilov AA, Razin SV, Iarovaia OV.

Nucleic Acids Res. 2009 Dec;37(22):7394-406. doi: 10.1093/nar/gkp838.

47.
48.

Early replication timing of the chicken alpha-globin gene domain correlates with its open chromatin state in cells of different lineages.

Klochkov DB, Gavrilov AA, Vassetzky YS, Razin SV.

Genomics. 2009 May;93(5):481-6. doi: 10.1016/j.ygeno.2009.01.001. Epub 2009 Jan 31.

49.

Study of spatial organization of chicken alpha-globin gene domain by 3C technique.

Gavrilov AA, Razin SV.

Biochemistry (Mosc). 2008 Nov;73(11):1192-9.

50.

Spatial configuration of the chicken alpha-globin gene domain: immature and active chromatin hubs.

Gavrilov AA, Razin SV.

Nucleic Acids Res. 2008 Aug;36(14):4629-40. doi: 10.1093/nar/gkn429. Epub 2008 Jul 11.

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