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Items: 1 to 50 of 128

1.

[Comparative Analysis of the Performance of Mascot and IdentiPy Algorithms on a Benchmark Dataset Obtained by Tandem Mass Spectrometry Analysis of Testicular Biopsies].

Lisitsa AV, Petushkova NA, Levitsky LI, Zgoda VG, Larina OV, Kisrieva YS, Frankevich VE, Gamidov SI.

Mol Biol (Mosk). 2019 Jan-Feb;53(1):166-176. doi: 10.1134/S0026898419010099. Russian.

PMID:
30895964
2.

Profiling and comparison of toxicant metabolites in hair and urine using a mass spectrometry-based metabolomic data processing method.

Shih CL, Wu HY, Liao PM, Hsu JY, Tsao CY, Zgoda VG, Liao PC.

Anal Chim Acta. 2019 Apr 4;1052:84-95. doi: 10.1016/j.aca.2018.11.009. Epub 2018 Nov 13.

PMID:
30685045
3.

[Quantitative proteomics of human blood exosomes].

Shushkova NA, Vavilov NE, Novikova SE, Farafonova TE, Tikhonova OV, Liao PC, Zgoda VG.

Biomed Khim. 2018 Nov;64(6):496-504. doi: 10.18097/PBMC20186406496. Russian.

PMID:
30632977
4.

Phytohormone treatment induces generation of cryptic peptides with antimicrobial activity in the Moss Physcomitrella patens.

Fesenko I, Azarkina R, Kirov I, Kniazev A, Filippova A, Grafskaia E, Lazarev V, Zgoda V, Butenko I, Bukato O, Lyapina I, Nazarenko D, Elansky S, Mamaeva A, Ivanov V, Govorun V.

BMC Plant Biol. 2019 Jan 7;19(1):9. doi: 10.1186/s12870-018-1611-z.

5.

Salicylic acid influences the protease activity and posttranslation modifications of the secreted peptides in the moss Physcomitrella patens.

Filippova A, Lyapina I, Kirov I, Zgoda V, Belogurov A, Kudriaeva A, Ivanov V, Fesenko I.

J Pept Sci. 2019 Feb;25(2):e3138. doi: 10.1002/psc.3138. Epub 2018 Dec 21.

PMID:
30575224
6.

Proteomics Analysis Reveals That Caspase-Like and Metacaspase-Like Activities Are Dispensable for Activation of Proteases Involved in Early Response to Biotic Stress in Triticum aestivum L.

Balakireva AV, Deviatkin AA, Zgoda VG, Kartashov MI, Zhemchuzhina NS, Dzhavakhiya VG, Golovin AV, Zamyatnin AA Jr.

Int J Mol Sci. 2018 Dec 11;19(12). pii: E3991. doi: 10.3390/ijms19123991.

7.

200+ Protein Concentrations in Healthy Human Blood Plasma: Targeted Quantitative SRM SIS Screening of Chromosomes 18, 13, Y and the Mitochondrial Chromosome Encoded Proteome.

Kopylov AT, Ponomarenko EA, Ilgisonis EV, Pyatnitskiy MA, Lisitsa AV, Poverennaya EV, Kiseleva OI, Farafonova TE, Tikhonova OV, Zavialova MG, Novikova S, Moshkovskii SA, Radko SP, Morukov BV, Grigoriev AI, Paik YK, Salekdeh GH, Urbani A, Zgoda VG, Archakov AI.

J Proteome Res. 2018 Nov 27. doi: 10.1021/acs.jproteome.8b00391. [Epub ahead of print]

PMID:
30480452
8.

Proteomic profiling data of HEK293 proteins bound to human recombinant renalases-1 and -2.

Fedchenko VI, Kopylov AT, Buneeva OA, Kaloshin AA, Zgoda VG, Medvedev AE.

Data Brief. 2018 Oct 30;21:1477-1482. doi: 10.1016/j.dib.2018.10.137. eCollection 2018 Dec.

9.

Effect of Silver Nanoparticles on Protein Composition of Rat Liver Microsomal Fraction.

Shipelin VA, Kudan PV, Zgoda VG, Gmoshinskii IV, Khotimchenko SA.

Bull Exp Biol Med. 2018 Nov;166(1):80-85. doi: 10.1007/s10517-018-4293-5. Epub 2018 Nov 18.

PMID:
30450525
10.

Increased Sensitivity of Mass Spectrometry by Alkaline Two-Dimensional Liquid Chromatography: Deep Cover of the Human Proteome in Gene-Centric Mode.

Ilgisonis EV, Kopylov AT, Ponomarenko EA, Poverennaya EV, Tikhonova OV, Farafonova TE, Novikova S, Lisitsa AV, Zgoda VG, Archakov AI.

J Proteome Res. 2018 Nov 19. doi: 10.1021/acs.jproteome.8b00754. [Epub ahead of print]

PMID:
30354151
11.

Proteogenomics of Adenosine-to-Inosine RNA Editing in the Fruit Fly.

Kuznetsova KG, Kliuchnikova AA, Ilina IU, Chernobrovkin AL, Novikova SE, Farafonova TE, Karpov DS, Ivanov MV, Goncharov AO, Ilgisonis EV, Voronko OE, Nasaev SS, Zgoda VG, Zubarev RA, Gorshkov MV, Moshkovskii SA.

J Proteome Res. 2018 Nov 2;17(11):3889-3903. doi: 10.1021/acs.jproteome.8b00553. Epub 2018 Oct 17.

PMID:
30298734
12.

Next Steps on in Silico 2DE Analyses of Chromosome 18 Proteoforms.

Naryzhny SN, Zorina ES, Kopylov AT, Zgoda VG, Kleyst OA, Archakov AI.

J Proteome Res. 2018 Oct 2. doi: 10.1021/acs.jproteome.8b00386. [Epub ahead of print]

PMID:
30238754
13.

[Quantitative targeted screening of proteins associated with lung adenocarcinoma cancer by the method of selected reaction monitoring].

Kopylov AT, Tikhonova OV, Farafonova TE, Novikova SE, Shushkova NA, Shevchenko VE, Liao PC, Archakov AI, Zgoda VG.

Biomed Khim. 2018 Aug;64(4):368-375. doi: 10.18097/PBMC20186404368. Russian.

PMID:
30135285
14.

[The effect of deprenyl and isatin administration to mice on the proteomic profile of liver isatin-binding proteins].

Buneeva OA, Kopylov AT, Zgoda VG, Medvedev AE.

Biomed Khim. 2018 Aug;64(4):354-359. doi: 10.18097/PBMC20186404354. Russian.

PMID:
30135283
15.

Proteomic Profiling of HL-60 Cells during ATRA-Induced Differentiation.

Vakhrushev IV, Novikova SE, Tsvetkova AV, Karalkin PA, Pyatnitskii MA, Zgoda VG, Yarygin KN.

Bull Exp Biol Med. 2018 Aug;165(4):530-543. doi: 10.1007/s10517-018-4210-y. Epub 2018 Aug 18.

PMID:
30121918
16.

The Effect of Neurotoxin MPTP and Neuroprotector Isatin on the Profile of Ubiquitinated Brain Mitochondrial Proteins.

Buneeva O, Kopylov A, Kapitsa I, Ivanova E, Zgoda V, Medvedev A.

Cells. 2018 Jul 31;7(8). pii: E91. doi: 10.3390/cells7080091.

17.

Proteogenomic analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster strains.

Bespyatykh J, Smolyakov A, Guliaev A, Shitikov E, Arapidi G, Butenko I, Dogonadze M, Manicheva O, Ilina E, Zgoda V, Govorun V.

J Proteomics. 2019 Feb 10;192:18-26. doi: 10.1016/j.jprot.2018.07.002. Epub 2018 Jul 24.

PMID:
30009986
18.

Analysis of Blood Plasma Protein Composition in Patients with Cerebral Ischemia.

Kisrieva YS, Petushkova NA, Samenkova NF, Kuznetsova GP, Larina OV, Teryaeva NB, Zgoda VG, Karuzina II, Usachev DU, Belyaev AY.

Bull Exp Biol Med. 2018 May;165(1):22-26. doi: 10.1007/s10517-018-4090-1. Epub 2018 May 24.

PMID:
29797129
19.

A new method for quantitative determination of renalase based on mass spectrometric determination of a proteotypic peptide labelled with stable isotopes.

Kopylov AT, Fedchenko VI, Buneeva OA, Pyatakova NV, Zgoda VG, Medvedev AE.

Rapid Commun Mass Spectrom. 2018 Aug 15;32(15):1263-1270. doi: 10.1002/rcm.8167.

PMID:
29777551
20.

[The analysis of participation of individual proteins in the protein interactome formation].

Florinskaya AV, Ershov PV, Mezentsev YV, Kaluzhskiy LA, Yablokov EO, Buneeva OA, Zgoda VG, Medvedev AE, Ivanov AS.

Biomed Khim. 2018 Mar;64(2):169-174. doi: 10.18097/PBMC20186402169. Russian.

PMID:
29723146
21.

New in the mechanism of one-substrate transketolase reaction.

Solovjeva ON, Kovina MV, Zavialova MG, Zgoda VG, Shcherbinin DS, Kochetov GA.

Biosci Rep. 2018 Mar 2. pii: BSR20180246. doi: 10.1042/BSR20180246. [Epub ahead of print]

PMID:
29500317
22.

[Use of DNA-aptamers for enrichment of low abundant proteins in cellular extracts for quntitative detection by selected reaction monitoring].

Ptitsyn KG, Novikova SE, Kiseleva YY, Moysa AA, Kurbatov LK, Farafonova TE, Radko SP, Zgoda VG, Archakov AI.

Biomed Khim. 2018 Jan;64(1):5-9. doi: 10.18097/PBMC20186401005. Russian.

PMID:
29460828
23.

Exposure marker discovery of di(isononyl)cyclohexane-1,2-dicarboxylate using two mass spectrometry-based metabolite profiling data processing methods.

Shih CL, Liao PM, Hsu JY, Chung YN, Zgoda VG, Liao PC.

Environ Sci Pollut Res Int. 2018 Apr;25(12):11999-12011. doi: 10.1007/s11356-018-1484-6. Epub 2018 Feb 15.

PMID:
29450778
24.

Variety and Dynamics of Proteoforms in the Human Proteome: Aspects of Markers for Hepatocellular Carcinoma.

Naryzhny S, Zgoda V, Kopylov A, Petrenko E, Kleist O, Archakov А.

Proteomes. 2017 Nov 23;5(4). pii: E33. doi: 10.3390/proteomes5040033.

25.

Identification of urinary biomarkers of exposure to di-(2-propylheptyl) phthalate using high-resolution mass spectrometry and two data-screening approaches.

Shih CL, Liao PM, Hsu JY, Chung YN, Zgoda VG, Liao PC.

Chemosphere. 2018 Feb;193:170-177. doi: 10.1016/j.chemosphere.2017.10.162. Epub 2017 Oct 30.

PMID:
29131975
26.

Quantitative assessment of betamethasone dual-acting formulation in urine of patients with rheumatoid arthritis and ankylosing spondylitis after single-dose intramuscular administration and its application to long-term pharmacokinetic study.

Kopylov AT, Novikov AA, Kaysheva AL, Vykhodets IT, Karateev DE, Zgoda VG, Lisitsa AV.

J Pharm Biomed Anal. 2018 Feb 5;149:278-289. doi: 10.1016/j.jpba.2017.11.021. Epub 2017 Nov 6.

PMID:
29128828
27.

[Proteome of the human HaCaT keratinocytes: Identification of the oxidative stress proteins after sodium dodecyl sulpfate exposur].

Petushkova NA, Rusanov AL, Zgoda VG, Pyatnitskiy MA, Larina OV, Nakhod KV, Luzgina NG, Lisitsa AV.

Mol Biol (Mosk). 2017 Sep-Oct;51(5):857-869. doi: 10.7868/S0026898417050147. Russian.

28.

Quantitative target proteomics of chromosome 13 human blood plasma proteins.

Kopylov AT, Ilgisonis EV, Tikhonova OV, Farafonova TE, Novikova SE, Zgoda VG, Ponomarenko EA, Lisitsa AV, Markin AA, Morukov BV, Grigoriev AI, Archakov AI.

Dokl Biochem Biophys. 2017 Sep;476(1):326-328. doi: 10.1134/S160767291705009X. Epub 2017 Nov 4.

PMID:
29101746
29.

[Multiomics study of HepG2 cell line proteome].

Poverennaya EV, Kiseleva OI, Ponomarenko EA, Naryzhny SN, Zgoda VG, Lisitsa AV.

Biomed Khim. 2017 Oct;63(5):373-378. doi: 10.18097/PBMC20176305373. Russian.

PMID:
29080867
30.

Is myelin basic protein a potential biomarker of brain cancer?

Zavialova MG, Shevchenko VE, Nikolaev EN, Zgoda VG.

Eur J Mass Spectrom (Chichester). 2017 Aug;23(4):192-196. doi: 10.1177/1469066717719810.

PMID:
29028399
31.

Application of selected reaction monitoring and parallel reaction monitoring for investigation of HL-60 cell line differentiation.

Novikova SE, Tikhonova OV, Kurbatov LK, Farafonova TE, Vakhrushev IV, Zgoda VG.

Eur J Mass Spectrom (Chichester). 2017 Aug;23(4):202-208. doi: 10.1177/1469066717719848.

PMID:
29028392
32.

Quantitative Affinity Interaction of Ubiquitinated and Non-ubiquitinated Proteins with Proteasome Subunit Rpn10.

Buneeva OA, Gnedenko OV, Kopylov AT, Medvedeva MV, Zgoda VG, Ivanov AS, Medvedev AE.

Biochemistry (Mosc). 2017 Sep;82(9):1042-1047. doi: 10.1134/S0006297917090073.

33.

Spatial features of proteins related to their phosphorylation and associated structural changes.

Karasev DA, Veselova DA, Veselovsky AV, Sobolev BN, Zgoda VG, Archakov AI.

Proteins. 2018 Jan;86(1):13-20. doi: 10.1002/prot.25397. Epub 2017 Oct 17.

PMID:
28986918
34.

Why Are the Correlations between mRNA and Protein Levels so Low among the 275 Predicted Protein-Coding Genes on Human Chromosome 18?

Poverennaya EV, Ilgisonis EV, Ponomarenko EA, Kopylov AT, Zgoda VG, Radko SP, Lisitsa AV, Archakov AI.

J Proteome Res. 2017 Dec 1;16(12):4311-4318. doi: 10.1021/acs.jproteome.7b00348. Epub 2017 Oct 27.

PMID:
28956606
35.

A semi-virtual two dimensional gel electrophoresis: IF-ESI LC-MS/MS.

Naryzhny S, Zgoda V, Kopylov A, Petrenko E, Archakov А.

MethodsX. 2017 Aug 31;4:260-264. doi: 10.1016/j.mex.2017.08.004. eCollection 2017.

36.

[The effect of neurotoxin MPTP administration to mice on the proteomic profile of brain isatin-binding proteins].

Buneeva OA, Kopylov AT, Nerobkova LN, Kapitsa IG, Zgoda VG, Medvedev AE.

Biomed Khim. 2017 Jul;63(4):316-320. doi: 10.18097/PBMC20176304316. Russian.

PMID:
28862602
37.

Re-adaption on Earth after Spaceflights Affects the Mouse Liver Proteome.

Anselm V, Novikova S, Zgoda V.

Int J Mol Sci. 2017 Aug 12;18(8). pii: E1763. doi: 10.3390/ijms18081763.

38.

[Omics technologies in diagnostics of lung adenocarcinoma].

Novikova SE, Kurbatov LK, Zavialova MG, Zgoda VG, Archakov AI.

Biomed Khim. 2017 May;63(3):181-210. doi: 10.18097/PBMC20176303181. Review. Russian.

PMID:
28781253
39.

Alternative splicing shapes transcriptome but not proteome diversity in Physcomitrella patens.

Fesenko I, Khazigaleeva R, Kirov I, Kniazev A, Glushenko O, Babalyan K, Arapidi G, Shashkova T, Butenko I, Zgoda V, Anufrieva K, Seredina A, Filippova A, Govorun V.

Sci Rep. 2017 Jun 2;7(1):2698. doi: 10.1038/s41598-017-02970-z.

40.

Dataset of protein species from human liver.

Naryzhny S, Maynskova M, Zgoda V, Archakov A.

Data Brief. 2017 May 4;12:584-588. doi: 10.1016/j.dib.2017.04.051. eCollection 2017 Jun.

41.

Post-translational modifications of FDA-approved plasma biomarkers in glioblastoma samples.

Petushkova NA, Zgoda VG, Pyatnitskiy MA, Larina OV, Teryaeva NB, Potapov AA, Lisitsa AV.

PLoS One. 2017 May 11;12(5):e0177427. doi: 10.1371/journal.pone.0177427. eCollection 2017.

42.

Corrigendum to "Characterization of a new α-l-fucosidase isolated from Fusarium proliferatum LE1 that is regioselective to α-(1 → 4)-l-fucosidic linkage in the hydrolysis of α-l-fucobiosides" [Biochimie 132C (2017) 54-65].

Shvetsova SV, Shabalin KA, Bobrov KS, Ivanen DR, Ustyuzhanina NE, Krylov VB, Nifantiev NE, Naryzhny SN, Zgoda VG, Eneyskaya EV, Kulminskaya AA.

Biochimie. 2017 Jun;137:198. doi: 10.1016/j.biochi.2017.04.007. Epub 2017 Apr 24. No abstract available.

PMID:
28434920
43.

[PCR analysis of the absolute number of copies of human chromosome 18 transcripts in liver and HepG2 cells].

Kiseleva YY, Ptitsyn KG, Tikhonova OV, Radko SP, Kurbatov LK, Vakhrushev IV, Zgoda VG, Ponomarenko EA, Lisitsa AV, Archakov AI.

Biomed Khim. 2017 Mar;63(2):147-153. doi: 10.18097/PBMC20176302147. Russian.

PMID:
28414286
44.

[Analysis of contribution of protein phosphorylation in the development of the diseases].

Zavialova MG, Zgoda VG, Nikolaev EN.

Biomed Khim. 2017 Mar;63(2):101-114. doi: 10.18097/PBMC20176302101. Review. Russian.

PMID:
28414281
45.

Brain Mitochondrial Subproteome of Rpn10-Binding Proteins and Its Changes Induced by the Neurotoxin MPTP and the Neuroprotector Isatin.

Medvedev AE, Buneeva OA, Kopylov AT, Tikhonova OV, Medvedeva MV, Nerobkova LN, Kapitsa IG, Zgoda VG.

Biochemistry (Mosc). 2017 Mar;82(3):330-339. doi: 10.1134/S0006297917030117.

46.

[A possibility to use the DNA-based probes as internal standards for Agilent Technologies microarray transcriptomic analysis].

Kurbatov LK, Zgoda VG.

Biomed Khim. 2016 Nov;62(6):715-719. doi: 10.18097/PBMC20166206715. Russian.

PMID:
28026817
47.

A multicentric study to evaluate the use of relative retention times in targeted proteomics.

Vialas V, Colomé-Calls N, Abian J, Aloria K, Alvarez-Llamas G, Antúnez O, Arizmendi JM, Azkargorta M, Barceló-Batllori S, Barderas MG, Blanco F, Casal JI, Casas V, de la Torre C, Chicano-Gálvez E, Elortza F, Espadas G, Estanyol JM, Fernandez-Irigoyen J, Fernandez-Puente P, Fidalgo MJ, Fuentes M, Gay M, Gil C, Hainard A, Hernaez ML, Ibarrola N, Kopylov AT, Lario A, Lopez JA, López-Lucendo M, Marcilla M, Marina-Ramírez A, Marko-Varga G, Martín L, Mora MI, Morato-López E, Muñoz J, Odena MA, de Oliveira E, Orera I, Ortea I, Pasquarello C, Ray KB, Rezeli M, Ruppen I, Sabidó E, Del Pino MMS, Sancho J, Santamaría E, Vazquez J, Vilaseca M, Vivanco F, Walters JJ, Zgoda VG, Corrales FJ, Canals F, Paradela A.

J Proteomics. 2017 Jan 30;152:138-149. doi: 10.1016/j.jprot.2016.10.014. Epub 2016 Oct 29.

PMID:
27989941
48.

Characterization of a new α-l-fucosidase isolated from Fusarium proliferatum LE1 that is regioselective to α-(1 → 4)-l-fucosidic linkage in the hydrolysis of α-l-fucobiosides.

Shvetsova SV, Shabalin KA, Bobrov KS, Ivanen DR, Ustyuzhanina NE, Krylov VB, Nifantiev NE, Naryzhny SN, Zgoda VG, Eneyskaya EV, Kulminskaya AA.

Biochimie. 2017 Jan;132:54-65. doi: 10.1016/j.biochi.2016.10.014. Epub 2016 Oct 27. Erratum in: Biochimie. 2017 Jun;137:198.

PMID:
27984201
49.

State of the Art of Chromosome 18-Centric HPP in 2016: Transcriptome and Proteome Profiling of Liver Tissue and HepG2 Cells.

Poverennaya EV, Kopylov AT, Ponomarenko EA, Ilgisonis EV, Zgoda VG, Tikhonova OV, Novikova SE, Farafonova TE, Kiseleva YY, Radko SP, Vakhrushev IV, Yarygin KN, Moshkovskii SA, Kiseleva OI, Lisitsa AV, Sokolov AS, Mazur AM, Prokhortchouk EB, Skryabin KG, Kostrjukova ES, Tyakht AV, Gorbachev AY, Ilina EN, Govorun VM, Archakov AI.

J Proteome Res. 2016 Nov 4;15(11):4030-4038. Epub 2016 Aug 29.

PMID:
27527821
50.

Targeted Quantitative Screening of Chromosome 18 Encoded Proteome in Plasma Samples of Astronaut Candidates.

Kopylov AT, Ilgisonis EV, Moysa AA, Tikhonova OV, Zavialova MG, Novikova SE, Lisitsa AV, Ponomarenko EA, Moshkovskii SA, Markin AA, Grigoriev AI, Zgoda VG, Archakov AI.

J Proteome Res. 2016 Nov 4;15(11):4039-4046. Epub 2016 Aug 22.

PMID:
27457493

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