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Items: 30

1.

EGFR Ligands Differentially Stabilize Receptor Dimers to Specify Signaling Kinetics.

Freed DM, Bessman NJ, Kiyatkin A, Salazar-Cavazos E, Byrne PO, Moore JO, Valley CC, Ferguson KM, Leahy DJ, Lidke DS, Lemmon MA.

Cell. 2017 Oct 19;171(3):683-695.e18. doi: 10.1016/j.cell.2017.09.017. Epub 2017 Oct 5.

2.

Modeling of Receptor Tyrosine Kinase Signaling: Computational and Experimental Protocols.

Fey D, Aksamitiene E, Kiyatkin A, Kholodenko BN.

Methods Mol Biol. 2017;1636:417-453. doi: 10.1007/978-1-4939-7154-1_27.

PMID:
28730495
3.

Bistability in the Rac1, PAK, and RhoA Signaling Network Drives Actin Cytoskeleton Dynamics and Cell Motility Switches.

Byrne KM, Monsefi N, Dawson JC, Degasperi A, Bukowski-Wills JC, Volinsky N, Dobrzyński M, Birtwistle MR, Tsyganov MA, Kiyatkin A, Kida K, Finch AJ, Carragher NO, Kolch W, Nguyen LK, von Kriegsheim A, Kholodenko BN.

Cell Syst. 2016 Jan 27;2(1):38-48. doi: 10.1016/j.cels.2016.01.003. Epub 2016 Jan 27.

4.

Three-factor models versus time series models: quantifying time-dependencies of interactions between stimuli in cell biology and psychobiology for short longitudinal data.

Frank TD, Kiyatkin A, Cheong A, Kholodenko BN.

Math Med Biol. 2017 Jun 1;34(2):177-191. doi: 10.1093/imammb/dqw001.

PMID:
27079221
5.

The Dark Side of Cell Signaling: Positive Roles for Negative Regulators.

Lemmon MA, Freed DM, Schlessinger J, Kiyatkin A.

Cell. 2016 Mar 10;164(6):1172-1184. doi: 10.1016/j.cell.2016.02.047. Review.

6.

Multistrip Western blotting: a tool for comparative quantitative analysis of multiple proteins.

Aksamitiene E, Hoek JB, Kiyatkin A.

Methods Mol Biol. 2015;1312:197-226. doi: 10.1007/978-1-4939-2694-7_23.

PMID:
26044004
7.

Silence on the relevant literature and errors in implementation.

Bastiaens P, Birtwistle MR, Blüthgen N, Bruggeman FJ, Cho KH, Cosentino C, de la Fuente A, Hoek JB, Kiyatkin A, Klamt S, Kolch W, Legewie S, Mendes P, Naka T, Santra T, Sontag E, Westerhoff HV, Kholodenko BN.

Nat Biotechnol. 2015 Apr;33(4):336-9. doi: 10.1038/nbt.3185. No abstract available.

PMID:
25850052
8.

Kinetochore kinesin CENP-E is a processive bi-directional tracker of dynamic microtubule tips.

Gudimchuk N, Vitre B, Kim Y, Kiyatkin A, Cleveland DW, Ataullakhanov FI, Grishchuk EL.

Nat Cell Biol. 2013 Sep;15(9):1079-1088. doi: 10.1038/ncb2831. Epub 2013 Aug 18.

9.

Immunogenicity, efficacy, safety, and mechanism of action of epitope vaccine (Lu AF20513) for Alzheimer's disease: prelude to a clinical trial.

Davtyan H, Ghochikyan A, Petrushina I, Hovakimyan A, Davtyan A, Poghosyan A, Marleau AM, Movsesyan N, Kiyatkin A, Rasool S, Larsen AK, Madsen PJ, Wegener KM, Ditlevsen DK, Cribbs DH, Pedersen LO, Agadjanyan MG.

J Neurosci. 2013 Mar 13;33(11):4923-34. doi: 10.1523/JNEUROSCI.4672-12.2013.

10.

Refinement of a DNA based Alzheimer's disease epitope vaccine in rabbits.

Ghochikyan A, Davtyan H, Petrushina I, Hovakimyan A, Movsesyan N, Davtyan A, Kiyatkin A, Cribbs DH, Agadjanyan MG.

Hum Vaccin Immunother. 2013 May;9(5):1002-10. doi: 10.4161/hv.23875. Epub 2013 Feb 11.

11.

Emergence of bimodal cell population responses from the interplay between analog single-cell signaling and protein expression noise.

Birtwistle MR, Rauch J, Kiyatkin A, Aksamitiene E, Dobrzyński M, Hoek JB, Kolch W, Ogunnaike BA, Kholodenko BN.

BMC Syst Biol. 2012 Aug 24;6:109. doi: 10.1186/1752-0509-6-109.

12.

Cross-talk between mitogenic Ras/MAPK and survival PI3K/Akt pathways: a fine balance.

Aksamitiene E, Kiyatkin A, Kholodenko BN.

Biochem Soc Trans. 2012 Feb;40(1):139-46. doi: 10.1042/BST20110609. Review.

PMID:
22260680
13.

Prolactin-stimulated activation of ERK1/2 mitogen-activated protein kinases is controlled by PI3-kinase/Rac/PAK signaling pathway in breast cancer cells.

Aksamitiene E, Achanta S, Kolch W, Kholodenko BN, Hoek JB, Kiyatkin A.

Cell Signal. 2011 Nov;23(11):1794-805. doi: 10.1016/j.cellsig.2011.06.014. Epub 2011 Jun 25.

14.

PI3K/Akt-sensitive MEK-independent compensatory circuit of ERK activation in ER-positive PI3K-mutant T47D breast cancer cells.

Aksamitiene E, Kholodenko BN, Kolch W, Hoek JB, Kiyatkin A.

Cell Signal. 2010 Sep;22(9):1369-78. doi: 10.1016/j.cellsig.2010.05.006. Epub 2010 May 12.

15.

Multistrip western blotting to increase quantitative data output.

Kiyatkin A, Aksamitiene E.

Methods Mol Biol. 2009;536:149-61. doi: 10.1007/978-1-59745-542-8_17.

16.

Systems-level interactions between insulin-EGF networks amplify mitogenic signaling.

Borisov N, Aksamitiene E, Kiyatkin A, Legewie S, Berkhout J, Maiwald T, Kaimachnikov NP, Timmer J, Hoek JB, Kholodenko BN.

Mol Syst Biol. 2009;5:256. doi: 10.1038/msb.2009.19. Epub 2009 Apr 7.

17.

Molecular dynamics simulations reveal that Tyr-317 phosphorylation reduces Shc binding affinity for phosphotyrosyl residues of epidermal growth factor receptor.

Suenaga A, Hatakeyama M, Kiyatkin AB, Radhakrishnan R, Taiji M, Kholodenko BN.

Biophys J. 2009 Mar 18;96(6):2278-88. doi: 10.1016/j.bpj.2008.11.018.

18.

Detection of the active components of calf thymus nuclear proteins (TNP), histones that are binding with high affinity to HIV-1 envelope proteins and CD4 molecules.

Mamikonyan G, Kiyatkin A, Movsesyan N, Mkrtichyan M, Ghochikyan A, Petrushina I, Hwang J, Ichim TE, Keledjian H, Agadjanyan MG.

Curr HIV Res. 2008 Jun;6(4):318-26.

PMID:
18691030
19.

Multistrip Western blotting to increase quantitative data output.

Aksamitiene E, Hoek JB, Kholodenko B, Kiyatkin A.

Electrophoresis. 2007 Sep;28(18):3163-73.

20.

Anti-A beta 1-11 antibody binds to different beta-amyloid species, inhibits fibril formation, and disaggregates preformed fibrils but not the most toxic oligomers.

Mamikonyan G, Necula M, Mkrtichyan M, Ghochikyan A, Petrushina I, Movsesyan N, Mina E, Kiyatkin A, Glabe CG, Cribbs DH, Agadjanyan MG.

J Biol Chem. 2007 Aug 3;282(31):22376-86. Epub 2007 Jun 1.

21.

Signal processing at the Ras circuit: what shapes Ras activation patterns?

Markevich NI, Moehren G, Demin OV, Kiyatkin A, Hoek JB, Kholodenko BN.

Syst Biol (Stevenage). 2004 Jun;1(1):104-13.

PMID:
17052120
22.

Scaffolding protein Grb2-associated binder 1 sustains epidermal growth factor-induced mitogenic and survival signaling by multiple positive feedback loops.

Kiyatkin A, Aksamitiene E, Markevich NI, Borisov NM, Hoek JB, Kholodenko BN.

J Biol Chem. 2006 Jul 21;281(29):19925-38. Epub 2006 May 9.

23.

Inferring dynamic architecture of cellular networks using time series of gene expression, protein and metabolite data.

Sontag E, Kiyatkin A, Kholodenko BN.

Bioinformatics. 2004 Aug 12;20(12):1877-86. Epub 2004 Mar 22.

PMID:
15037511
24.

Tyr-317 phosphorylation increases Shc structural rigidity and reduces coupling of domain motions remote from the phosphorylation site as revealed by molecular dynamics simulations.

Suenaga A, Kiyatkin AB, Hatakeyama M, Futatsugi N, Okimoto N, Hirano Y, Narumi T, Kawai A, Susukita R, Koishi T, Furusawa H, Yasuoka K, Takada N, Ohno Y, Taiji M, Ebisuzaki T, Hoek JB, Konagaya A, Kholodenko BN.

J Biol Chem. 2004 Feb 6;279(6):4657-62. Epub 2003 Nov 12.

25.

Immunization with a plant-produced colorectal cancer antigen.

Verch T, Hooper DC, Kiyatkin A, Steplewski Z, Koprowski H.

Cancer Immunol Immunother. 2004 Feb;53(2):92-9. Epub 2003 Oct 18.

PMID:
14566428
26.

Untangling the wires: a strategy to trace functional interactions in signaling and gene networks.

Kholodenko BN, Kiyatkin A, Bruggeman FJ, Sontag E, Westerhoff HV, Hoek JB.

Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12841-6. Epub 2002 Sep 19. Erratum in: Proc Natl Acad Sci U S A 2002 Nov 12;99(23):15245.

27.

Temperature dependence of the epidermal growth factor receptor signaling network can be accounted for by a kinetic model.

Moehren G, Markevich N, Demin O, Kiyatkin A, Goryanin I, Hoek JB, Kholodenko BN.

Biochemistry. 2002 Jan 8;41(1):306-20.

PMID:
11772030
28.
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30.

Crystallization and preliminary X-ray analysis of the cytoplasmic domain of human erythrocyte band 3.

Kiyatkin AB, Natarajan P, Munshi S, Minor W, Johnson JE, Low PS.

Proteins. 1995 Jul;22(3):293-7.

PMID:
7479704

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