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Detection of Hepatitis C Virus Core Protein in Serum Using Aptamer-Functionalized AFM Chips.

Micromachines

Pleshakova TO, Kaysheva AL, Shumov ID, Ziborov VS, Bayzyanova JM, Konev VA, Uchaikin VF, Archakov AI, Ivanov YD.
PMID: 30781415
Micromachines (Basel). 2019 Feb 15;10(2). doi: 10.3390/mi10020129.

In the present study, we demonstrate atomic force microscopy (AFM)-based detection of hepatitis C virus (HCV) particles in serum samples using a chip with aptamer-functionalized surface (apta-based AFM chip). The target particles, containing core antigen of HCV (HCVcoreAg protein),...

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Pleshakova TO, Kaysheva AL, Shumov ID, et al. Detection of Hepatitis C Virus Core Protein in Serum Using Aptamer-Functionalized AFM Chips. Micromachines (Basel). 2019;10(2)doi: 10.3390/mi10020129.
Pleshakova, T. O., Kaysheva, A. L., Shumov, I. D., Ziborov, V. S., Bayzyanova, J. M., Konev, V. A., Uchaikin, V. F., Archakov, A. I., & Ivanov, Y. D. (2019). Detection of Hepatitis C Virus Core Protein in Serum Using Aptamer-Functionalized AFM Chips. Micromachines, 10(2), . https://doi.org/10.3390/mi10020129
Pleshakova, Tatyana O, et al. "Detection of Hepatitis C Virus Core Protein in Serum Using Aptamer-Functionalized AFM Chips." Micromachines vol. 10,2 (2019). doi: https://doi.org/10.3390/mi10020129
Pleshakova TO, Kaysheva AL, Shumov ID, Ziborov VS, Bayzyanova JM, Konev VA, Uchaikin VF, Archakov AI, Ivanov YD. Detection of Hepatitis C Virus Core Protein in Serum Using Aptamer-Functionalized AFM Chips. Micromachines (Basel). 2019 Feb 15;10(2). doi: 10.3390/mi10020129. PMID: 30781415; PMCID: PMC6413090.
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Dataset of protein species from human liver.

Data in brief

Naryzhny S, Maynskova M, Zgoda V, Archakov A.
PMID: 28540349
Data Brief. 2017 May 04;12:584-588. doi: 10.1016/j.dib.2017.04.051. eCollection 2017 Jun.

This article contains data related to the research article entitled "Zipf׳s law in proteomics" (Naryzhny et al., 2017) [1]. The protein composition in the human liver or hepatocarcinoma (HepG2) cells extracts was estimated using a filter-aided sample preparation (FASP)...

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Naryzhny S, Maynskova M, Zgoda V, et al. Dataset of protein species from human liver. Data Brief. 2017;12:584-588doi: 10.1016/j.dib.2017.04.051.
Naryzhny, S., Maynskova, M., Zgoda, V., & Archakov, A. (2017). Dataset of protein species from human liver. Data in brief, 12584-588. https://doi.org/10.1016/j.dib.2017.04.051
Naryzhny, Stanislav, et al. "Dataset of protein species from human liver." Data in brief vol. 12 (2017): 584-588. doi: https://doi.org/10.1016/j.dib.2017.04.051
Naryzhny S, Maynskova M, Zgoda V, Archakov A. Dataset of protein species from human liver. Data Brief. 2017 May 04;12:584-588. doi: 10.1016/j.dib.2017.04.051. eCollection 2017 Jun. PMID: 28540349; PMCID: PMC5430161.
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The human proteome project: Current state and future direction.

Molecular & cellular proteomics : MCP

Legrain P, Aebersold R, Archakov A, Bairoch A, Bala K, Beretta L, Bergeron J, Borchers C, Corthals GL, Costello CE, Deutsch EW, Domon B, Hancock W, He F, Hochstrasser D, Marko-Varga G, Salekdeh GH, Sechi S, Snyder M, Srivastava S, Uhlen M, Hu CH, Yamamoto T, Paik YK, Omenn GS.
PMID: 21531903
Mol Cell Proteomics. 2011 Apr 29; doi: 10.1074/mcp.O111.009993. Epub 2011 Apr 29.

After successful completion of the Human Genome Project (HGP), HUPO has recently officially launched a global Human Proteome Project (HPP) which is designed to map the entire human protein set. Given the presence of about 30% undisclosed proteins out...

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Legrain P, Aebersold R, Archakov A, et al. The human proteome project: Current state and future direction. Mol Cell Proteomics. 2011;doi: 10.1074/mcp.O111.009993.
Legrain, P., Aebersold, R., Archakov, A., Bairoch, A., Bala, K., Beretta, L., Bergeron, J., Borchers, C., Corthals, G. L., Costello, C. E., Deutsch, E. W., Domon, B., Hancock, W., He, F., Hochstrasser, D., Marko-Varga, G., Salekdeh, G. H., Sechi, S., Snyder, M., Srivastava, S., Uhlen, M., Hu, C. H., Yamamoto, T., Paik, Y. K., & Omenn, G. S. (2011). The human proteome project: Current state and future direction. Molecular & cellular proteomics : MCP, . https://doi.org/10.1074/mcp.O111.009993
Legrain, Pierre, et al. "The human proteome project: Current state and future direction." Molecular & cellular proteomics : MCP vol. (2011). doi: https://doi.org/10.1074/mcp.O111.009993
Legrain P, Aebersold R, Archakov A, Bairoch A, Bala K, Beretta L, Bergeron J, Borchers C, Corthals GL, Costello CE, Deutsch EW, Domon B, Hancock W, He F, Hochstrasser D, Marko-Varga G, Salekdeh GH, Sechi S, Snyder M, Srivastava S, Uhlen M, Hu CH, Yamamoto T, Paik YK, Omenn GS. The human proteome project: Current state and future direction. Mol Cell Proteomics. 2011 Apr 29; doi: 10.1074/mcp.O111.009993. Epub 2011 Apr 29. PMID: 21531903.
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Atomic Force Microscopy Study of Protein-Protein Interactions in the Cytochrome CYP11A1 (P450scc)-Containing Steroid Hydroxylase System.

Nanoscale research letters

Ivanov YD, Frantsuzov PA, Zöllner A, Medvedeva NV, Archakov AI, Reinle W, Bernhardt R.
PMID: 27502676
Nanoscale Res Lett. 2011 Dec;6(1):54. doi: 10.1007/s11671-010-9809-5. Epub 2010 Sep 30.

Atomic force microscopy (AFM) and photon correlation spectroscopy (PCS) were used for monitoring of the procedure for cytochrome CYP11A1 monomerization in solution without phospholipids. It was shown that the incubation of 100 μM CYP11A1 with 12% Emulgen 913 in...

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Ivanov YD, Frantsuzov PA, Zöllner A, et al. Atomic Force Microscopy Study of Protein-Protein Interactions in the Cytochrome CYP11A1 (P450scc)-Containing Steroid Hydroxylase System. Nanoscale Res Lett. 2010;6(1):54doi: 10.1007/s11671-010-9809-5.
Ivanov, Y. D., Frantsuzov, P. A., Zöllner, A., Medvedeva, N. V., Archakov, A. I., Reinle, W., & Bernhardt, R. (2011). Atomic Force Microscopy Study of Protein-Protein Interactions in the Cytochrome CYP11A1 (P450scc)-Containing Steroid Hydroxylase System. Nanoscale research letters, 6(1), 54. https://doi.org/10.1007/s11671-010-9809-5
Ivanov, Y D, et al. "Atomic Force Microscopy Study of Protein-Protein Interactions in the Cytochrome CYP11A1 (P450scc)-Containing Steroid Hydroxylase System." Nanoscale research letters vol. 6,1 (2011): 54. doi: https://doi.org/10.1007/s11671-010-9809-5
Ivanov YD, Frantsuzov PA, Zöllner A, Medvedeva NV, Archakov AI, Reinle W, Bernhardt R. Atomic Force Microscopy Study of Protein-Protein Interactions in the Cytochrome CYP11A1 (P450scc)-Containing Steroid Hydroxylase System. Nanoscale Res Lett. 2011 Dec;6(1):54. doi: 10.1007/s11671-010-9809-5. Epub 2010 Sep 30. PMID: 27502676; PMCID: PMC3212078.
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Mass spectrometric signatures of the blood plasma metabolome for disease diagnostics.

Biomedical reports

Lokhov PG, Balashova EE, Voskresenskaya AA, Trifonova OP, Maslov DL, Archakov AI.
PMID: 26870348
Biomed Rep. 2016 Jan;4(1):122-126. doi: 10.3892/br.2015.548. Epub 2015 Nov 24.

In metabolomics, a large number of small molecules can be detected in a single run. However, metabolomic data do not include the absolute concentrations of each metabolite. Generally, mass spectrometry analyses provide metabolite concentrations that are derived from mass...

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Lokhov PG, Balashova EE, Voskresenskaya AA, et al. Mass spectrometric signatures of the blood plasma metabolome for disease diagnostics. Biomed Rep. 2015;4(1):122-126doi: 10.3892/br.2015.548.
Lokhov, P. G., Balashova, E. E., Voskresenskaya, A. A., Trifonova, O. P., Maslov, D. L., & Archakov, A. I. (2016). Mass spectrometric signatures of the blood plasma metabolome for disease diagnostics. Biomedical reports, 4(1), 122-126. https://doi.org/10.3892/br.2015.548
Lokhov, Petr G, et al. "Mass spectrometric signatures of the blood plasma metabolome for disease diagnostics." Biomedical reports vol. 4,1 (2016): 122-126. doi: https://doi.org/10.3892/br.2015.548
Lokhov PG, Balashova EE, Voskresenskaya AA, Trifonova OP, Maslov DL, Archakov AI. Mass spectrometric signatures of the blood plasma metabolome for disease diagnostics. Biomed Rep. 2016 Jan;4(1):122-126. doi: 10.3892/br.2015.548. Epub 2015 Nov 24. PMID: 26870348; PMCID: PMC4726863.
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Facilitated biosensing via direct electron transfer of myoglobin integrated into diblock copolymer/multi-walled carbon nanotube nanocomposites.

Journal of materials chemistry. B

Shumyantseva VV, Sigolaeva LV, Agafonova LE, Bulko TV, Pergushov DV, Schacher FH, Archakov AI.
PMID: 32262518
J Mater Chem B. 2015 Jul 21;3(27):5467-5477. doi: 10.1039/c5tb00442j. Epub 2015 Jun 10.

Nanocomposite materials were prepared by sequential drop-casting of multi-walled carbon nanotube (MWCNT) suspensions and amphiphilic polybutadiene-block-poly(2-(N,N-dimethylamino)ethyl methacrylate) (PB

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Shumyantseva VV, Sigolaeva LV, Agafonova LE, et al. Facilitated biosensing via direct electron transfer of myoglobin integrated into diblock copolymer/multi-walled carbon nanotube nanocomposites. J Mater Chem B. 2015;3(27):5467-5477doi: 10.1039/c5tb00442j.
Shumyantseva, V. V., Sigolaeva, L. V., Agafonova, L. E., Bulko, T. V., Pergushov, D. V., Schacher, F. H., & Archakov, A. I. (2015). Facilitated biosensing via direct electron transfer of myoglobin integrated into diblock copolymer/multi-walled carbon nanotube nanocomposites. Journal of materials chemistry. B, 3(27), 5467-5477. https://doi.org/10.1039/c5tb00442j
Shumyantseva, Victoria V, et al. "Facilitated biosensing via direct electron transfer of myoglobin integrated into diblock copolymer/multi-walled carbon nanotube nanocomposites." Journal of materials chemistry. B vol. 3,27 (2015): 5467-5477. doi: https://doi.org/10.1039/c5tb00442j
Shumyantseva VV, Sigolaeva LV, Agafonova LE, Bulko TV, Pergushov DV, Schacher FH, Archakov AI. Facilitated biosensing via direct electron transfer of myoglobin integrated into diblock copolymer/multi-walled carbon nanotube nanocomposites. J Mater Chem B. 2015 Jul 21;3(27):5467-5477. doi: 10.1039/c5tb00442j. Epub 2015 Jun 10. PMID: 32262518.
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Optical Monitoring of the Production Quality of Si-Nanoribbon Chips Intended for the Detection of ASD-Associated Oligonucleotides.

Micromachines

Malsagova KA, Pleshakova TO, Popov VP, Kupriyanov IN, Galiullin RA, Kozlov AF, Shumov ID, Kaysheva AL, Tikhonenko FV, Archakov AI, Ivanov YD.
PMID: 33546438
Micromachines (Basel). 2021 Feb 03;12(2). doi: 10.3390/mi12020147.

Gas-phase etching and optical lithography were employed for the fabrication of a silicon nanoribbon chip (Si-NR chip). The quality of the so-fabricated silicon nanoribbons (Si-NRs) was monitored by optical Raman scattering spectroscopy. It was demonstrated that the structures of...

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Malsagova KA, Pleshakova TO, Popov VP, et al. Optical Monitoring of the Production Quality of Si-Nanoribbon Chips Intended for the Detection of ASD-Associated Oligonucleotides. Micromachines (Basel). 2021;12(2)doi: 10.3390/mi12020147.
Malsagova, K. A., Pleshakova, T. O., Popov, V. P., Kupriyanov, I. N., Galiullin, R. A., Kozlov, A. F., Shumov, I. D., Kaysheva, A. L., Tikhonenko, F. V., Archakov, A. I., & Ivanov, Y. D. (2021). Optical Monitoring of the Production Quality of Si-Nanoribbon Chips Intended for the Detection of ASD-Associated Oligonucleotides. Micromachines, 12(2), . https://doi.org/10.3390/mi12020147
Malsagova, Kristina A, et al. "Optical Monitoring of the Production Quality of Si-Nanoribbon Chips Intended for the Detection of ASD-Associated Oligonucleotides." Micromachines vol. 12,2 (2021). doi: https://doi.org/10.3390/mi12020147
Malsagova KA, Pleshakova TO, Popov VP, Kupriyanov IN, Galiullin RA, Kozlov AF, Shumov ID, Kaysheva AL, Tikhonenko FV, Archakov AI, Ivanov YD. Optical Monitoring of the Production Quality of Si-Nanoribbon Chips Intended for the Detection of ASD-Associated Oligonucleotides. Micromachines (Basel). 2021 Feb 03;12(2). doi: 10.3390/mi12020147. PMID: 33546438; PMCID: PMC7913754.
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Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer.

Micromachines

Ivanov YD, Goldaeva KV, Malsagova KA, Pleshakova TO, Galiullin RA, Popov VP, Kushlinskii NE, Alferov AA, Enikeev DV, Potoldykova NV, Archakov AI.
PMID: 34945431
Micromachines (Basel). 2021 Dec 18;12(12). doi: 10.3390/mi12121581.

A nanoribbon biosensor (NRBS) was developed to register synthetic DNAs that simulate and are analogous to miRNA-17-3p associated with colorectal cancer. Using this nanoribbon biosensor, the ability to detect miRNA-17-3p in the blood plasma of a patient diagnosed with...

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Ivanov YD, Goldaeva KV, Malsagova KA, et al. Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer. Micromachines (Basel). 2021;12(12)doi: 10.3390/mi12121581.
Ivanov, Y. D., Goldaeva, K. V., Malsagova, K. A., Pleshakova, T. O., Galiullin, R. A., Popov, V. P., Kushlinskii, N. E., Alferov, A. A., Enikeev, D. V., Potoldykova, N. V., & Archakov, A. I. (2021). Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer. Micromachines, 12(12), . https://doi.org/10.3390/mi12121581
Ivanov, Yuri D, et al. "Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer." Micromachines vol. 12,12 (2021). doi: https://doi.org/10.3390/mi12121581
Ivanov YD, Goldaeva KV, Malsagova KA, Pleshakova TO, Galiullin RA, Popov VP, Kushlinskii NE, Alferov AA, Enikeev DV, Potoldykova NV, Archakov AI. Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer. Micromachines (Basel). 2021 Dec 18;12(12). doi: 10.3390/mi12121581. PMID: 34945431.
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Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer.

Micromachines

Ivanov YD, Goldaeva KV, Malsagova KA, Pleshakova TO, Galiullin RA, Popov VP, Kushlinskii NE, Alferov AA, Enikeev DV, Potoldykova NV, Archakov AI.
PMID: 34945431
Micromachines (Basel). 2021 Dec 18;12(12). doi: 10.3390/mi12121581.

A nanoribbon biosensor (NRBS) was developed to register synthetic DNAs that simulate and are analogous to miRNA-17-3p associated with colorectal cancer. Using this nanoribbon biosensor, the ability to detect miRNA-17-3p in the blood plasma of a patient diagnosed with...

Cite
Ivanov YD, Goldaeva KV, Malsagova KA, et al. Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer. Micromachines (Basel). 2021;12(12)doi: 10.3390/mi12121581.
Ivanov, Y. D., Goldaeva, K. V., Malsagova, K. A., Pleshakova, T. O., Galiullin, R. A., Popov, V. P., Kushlinskii, N. E., Alferov, A. A., Enikeev, D. V., Potoldykova, N. V., & Archakov, A. I. (2021). Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer. Micromachines, 12(12), . https://doi.org/10.3390/mi12121581
Ivanov, Yuri D, et al. "Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer." Micromachines vol. 12,12 (2021). doi: https://doi.org/10.3390/mi12121581
Ivanov YD, Goldaeva KV, Malsagova KA, Pleshakova TO, Galiullin RA, Popov VP, Kushlinskii NE, Alferov AA, Enikeev DV, Potoldykova NV, Archakov AI. Nanoribbon Biosensor in the Detection of miRNAs Associated with Colorectal Cancer. Micromachines (Basel). 2021 Dec 18;12(12). doi: 10.3390/mi12121581. PMID: 34945431; PMCID: PMC8705149.
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One- and Two-Coordinate Detectors in BINP.

Journal of synchrotron radiation

Aulchenko VM, Baru SE, Dubrovin MS, Savinov GA, Shekhtman LI, Titov VM, Velikzhanin YS, Ancharov AI, Gaponov YA, Evdokov OV, Tolochko BP.
PMID: 15263489
J Synchrotron Radiat. 1998 May 01;5:263-7. doi: 10.1107/S0909049598001897. Epub 1998 May 01.

One- and two-coordinate detectors with proportional chambers developed at the Budker Institute of Nuclear Physics (BINP) are presented. The parallax-free 10 MHz one-coordinate OD-3.1 and OD-3.2 detectors are used in synchrotron radiation powder diffraction and SAXS experiments. The two-coordinate...

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Aulchenko VM, Baru SE, Dubrovin MS, et al. One- and Two-Coordinate Detectors in BINP. J Synchrotron Radiat. 1998;5:263-7doi: 10.1107/S0909049598001897.
Aulchenko, V. M., Baru, S. E., Dubrovin, M. S., Savinov, G. A., Shekhtman, L. I., Titov, V. M., Velikzhanin, Y. S., Ancharov, A. I., Gaponov, Y. A., Evdokov, O. V., & Tolochko, B. P. (1998). One- and Two-Coordinate Detectors in BINP. Journal of synchrotron radiation, 5263-7. https://doi.org/10.1107/S0909049598001897
Aulchenko, V M, et al. "One- and Two-Coordinate Detectors in BINP." Journal of synchrotron radiation vol. 5 (1998): 263-7. doi: https://doi.org/10.1107/S0909049598001897
Aulchenko VM, Baru SE, Dubrovin MS, Savinov GA, Shekhtman LI, Titov VM, Velikzhanin YS, Ancharov AI, Gaponov YA, Evdokov OV, Tolochko BP. One- and Two-Coordinate Detectors in BINP. J Synchrotron Radiat. 1998 May 01;5:263-7. doi: 10.1107/S0909049598001897. Epub 1998 May 01. PMID: 15263489.
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Phase diagram and high-pressure boundary of hydrate formation in the ethane-water system.

The journal of physical chemistry. B

Kurnosov AV, Ogienko AG, Goryainov SV, Larionov EG, Manakov AY, Lihacheva AY, Aladko EY, Zhurko FV, Voronin VI, Berger IF, Ancharov AI.
PMID: 17064141
J Phys Chem B. 2006 Nov 02;110(43):21788-92. doi: 10.1021/jp0636726.

Dissociation temperatures of gas hydrate formed in the ethane-water system were studied at pressures up to 1500 MPa. In situ neutron diffraction analysis and X-ray diffraction analysis in a diamond anvil cell showed that the gas hydrate formed in...

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Kurnosov AV, Ogienko AG, Goryainov SV, et al. Phase diagram and high-pressure boundary of hydrate formation in the ethane-water system. J Phys Chem B. 2006;110(43):21788-92doi: 10.1021/jp0636726.
Kurnosov, A. V., Ogienko, A. G., Goryainov, S. V., Larionov, E. G., Manakov, A. Y., Lihacheva, A. Y., Aladko, E. Y., Zhurko, F. V., Voronin, V. I., Berger, I. F., & Ancharov, A. I. (2006). Phase diagram and high-pressure boundary of hydrate formation in the ethane-water system. The journal of physical chemistry. B, 110(43), 21788-92. https://doi.org/10.1021/jp0636726
Kurnosov, Alexander V, et al. "Phase diagram and high-pressure boundary of hydrate formation in the ethane-water system." The journal of physical chemistry. B vol. 110,43 (2006): 21788-92. doi: https://doi.org/10.1021/jp0636726
Kurnosov AV, Ogienko AG, Goryainov SV, Larionov EG, Manakov AY, Lihacheva AY, Aladko EY, Zhurko FV, Voronin VI, Berger IF, Ancharov AI. Phase diagram and high-pressure boundary of hydrate formation in the ethane-water system. J Phys Chem B. 2006 Nov 02;110(43):21788-92. doi: 10.1021/jp0636726. PMID: 17064141.
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Acute phase serum amyloid A in ovarian cancer as an important component of proteome diagnostic profiling.

Proteomics. Clinical applications

Moshkovskii SA, Vlasova MA, Pyatnitskiy MA, Tikhonova OV, Safarova MR, Makarov OV, Archakov AI.
PMID: 21136614
Proteomics Clin Appl. 2007 Jan;1(1):107-17. doi: 10.1002/prca.200600229. Epub 2006 Dec 13.

In the context of serum amyloid A (SAA) identification as ovarian cancer marker derived by SELDI-MS, its serum levels were measured by immunoassay in different stages of ovarian cancer, in benign gynecological tumors, and in healthy controls. In addition,...

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Moshkovskii SA, Vlasova MA, Pyatnitskiy MA, et al. Acute phase serum amyloid A in ovarian cancer as an important component of proteome diagnostic profiling. Proteomics Clin Appl. 2006;1(1):107-17doi: 10.1002/prca.200600229.
Moshkovskii, S. A., Vlasova, M. A., Pyatnitskiy, M. A., Tikhonova, O. V., Safarova, M. R., Makarov, O. V., & Archakov, A. I. (2007). Acute phase serum amyloid A in ovarian cancer as an important component of proteome diagnostic profiling. Proteomics. Clinical applications, 1(1), 107-17. https://doi.org/10.1002/prca.200600229
Moshkovskii, Sergei A, et al. "Acute phase serum amyloid A in ovarian cancer as an important component of proteome diagnostic profiling." Proteomics. Clinical applications vol. 1,1 (2007): 107-17. doi: https://doi.org/10.1002/prca.200600229
Moshkovskii SA, Vlasova MA, Pyatnitskiy MA, Tikhonova OV, Safarova MR, Makarov OV, Archakov AI. Acute phase serum amyloid A in ovarian cancer as an important component of proteome diagnostic profiling. Proteomics Clin Appl. 2007 Jan;1(1):107-17. doi: 10.1002/prca.200600229. Epub 2006 Dec 13. PMID: 21136614.
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