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Items: 1 to 50 of 220

1.

p13CMFA: Parsimonious 13C metabolic flux analysis.

Foguet C, Jayaraman A, Marin S, Selivanov VA, Moreno P, Messeguer R, de Atauri P, Cascante M.

PLoS Comput Biol. 2019 Sep 6;15(9):e1007310. doi: 10.1371/journal.pcbi.1007310. eCollection 2019 Sep.

2.

Interoperable and scalable data analysis with microservices: applications in metabolomics.

Emami Khoonsari P, Moreno P, Bergmann S, Burman J, Capuccini M, Carone M, Cascante M, de Atauri P, Foguet C, Gonzalez-Beltran AN, Hankemeier T, Haug K, He S, Herman S, Johnson D, Kale N, Larsson A, Neumann S, Peters K, Pireddu L, Rocca-Serra P, Roger P, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Schober D, Selivanov V, Thévenot EA, van Vliet M, Zanetti G, Steinbeck C, Kultima K, Spjuth O.

Bioinformatics. 2019 Oct 1;35(19):3752-3760. doi: 10.1093/bioinformatics/btz160.

3.

PhenoMeNal: processing and analysis of metabolomics data in the cloud.

Peters K, Bradbury J, Bergmann S, Capuccini M, Cascante M, de Atauri P, Ebbels TMD, Foguet C, Glen R, Gonzalez-Beltran A, Günther UL, Handakas E, Hankemeier T, Haug K, Herman S, Holub P, Izzo M, Jacob D, Johnson D, Jourdan F, Kale N, Karaman I, Khalili B, Emami Khonsari P, Kultima K, Lampa S, Larsson A, Ludwig C, Moreno P, Neumann S, Novella JA, O'Donovan C, Pearce JTM, Peluso A, Piras ME, Pireddu L, Reed MAC, Rocca-Serra P, Roger P, Rosato A, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Selivanov V, Spjuth O, Schober D, Thévenot EA, Tomasoni M, van Rijswijk M, van Vliet M, Viant MR, Weber RJM, Zanetti G, Steinbeck C.

Gigascience. 2019 Feb 1;8(2). pii: giy149. doi: 10.1093/gigascience/giy149.

4.

Unveiling the Metabolic Changes on Muscle Cell Metabolism Underlying p-Phenylenediamine Toxicity.

Marín de Mas I, Marín S, Pachón G, Rodríguez-Prados JC, Vizán P, Centelles JJ, Tauler R, Azqueta A, Selivanov V, López de Ceraín A, Cascante M.

Front Mol Biosci. 2017 Mar 6;4:8. doi: 10.3389/fmolb.2017.00008. eCollection 2017.

5.

Combined Analysis of NMR and MS Spectra (CANMS).

Chong M, Jayaraman A, Marin S, Selivanov V, de Atauri Carulla PR, Tennant DA, Cascante M, Günther UL, Ludwig C.

Angew Chem Int Ed Engl. 2017 Apr 3;56(15):4140-4144. doi: 10.1002/anie.201611634. Epub 2017 Mar 8.

PMID:
28272839
6.

MIDcor, an R-program for deciphering mass interferences in mass spectra of metabolites enriched in stable isotopes.

Selivanov VA, Benito A, Miranda A, Aguilar E, Polat IH, Centelles JJ, Jayaraman A, Lee PW, Marin S, Cascante M.

BMC Bioinformatics. 2017 Feb 3;18(1):88. doi: 10.1186/s12859-017-1513-3.

7.

Metabolic Reprogramming and Dependencies Associated with Epithelial Cancer Stem Cells Independent of the Epithelial-Mesenchymal Transition Program.

Aguilar E, Marin de Mas I, Zodda E, Marin S, Morrish F, Selivanov V, Meca-Cortés Ó, Delowar H, Pons M, Izquierdo I, Celià-Terrassa T, de Atauri P, Centelles JJ, Hockenbery D, Thomson TM, Cascante M.

Stem Cells. 2016 May;34(5):1163-76. doi: 10.1002/stem.2286. Epub 2016 Feb 2.

8.

Restrictions in ATP diffusion within sarcomeres can provoke ATP-depleted zones impairing exercise capacity in chronic obstructive pulmonary disease.

Alekseev AE, Guzun R, Reyes S, Pison C, Schlattner U, Selivanov VA, Cascante M.

Biochim Biophys Acta. 2016 Oct;1860(10):2269-78. doi: 10.1016/j.bbagen.2016.04.018. Epub 2016 Apr 27.

PMID:
27130881
9.

HepatoDyn: A Dynamic Model of Hepatocyte Metabolism That Integrates 13C Isotopomer Data.

Foguet C, Marin S, Selivanov VA, Fanchon E, Lee WN, Guinovart JJ, de Atauri P, Cascante M.

PLoS Comput Biol. 2016 Apr 28;12(4):e1004899. doi: 10.1371/journal.pcbi.1004899. eCollection 2016 Apr.

10.

Chronic Obstructive Pulmonary Disease heterogeneity: challenges for health risk assessment, stratification and management.

Roca J, Vargas C, Cano I, Selivanov V, Barreiro E, Maier D, Falciani F, Wagner P, Cascante M, Garcia-Aymerich J, Kalko S, De Mas I, Tegnér J, Escarrabill J, Agustí A, Gomez-Cabrero D; Synergy-COPD consortium.

J Transl Med. 2014 Nov 28;12 Suppl 2:S3. doi: 10.1186/1479-5876-12-S2-S3. Epub 2014 Nov 28. Review.

11.

Systems Medicine: from molecular features and models to the clinic in COPD.

Gomez-Cabrero D, Menche J, Cano I, Abugessaisa I, Huertas-Migueláñez M, Tenyi A, Marin de Mas I, Kiani NA, Marabita F, Falciani F, Burrowes K, Maier D, Wagner P, Selivanov V, Cascante M, Roca J, Barabási AL, Tegnér J.

J Transl Med. 2014 Nov 28;12 Suppl 2:S4. doi: 10.1186/1479-5876-12-S2-S4. Epub 2014 Nov 28.

12.

Oxygen pathway modeling estimates high reactive oxygen species production above the highest permanent human habitation.

Cano I, Selivanov V, Gomez-Cabrero D, Tegnér J, Roca J, Wagner PD, Cascante M.

PLoS One. 2014 Nov 6;9(11):e111068. doi: 10.1371/journal.pone.0111068. eCollection 2014.

13.

(13)C metabolic flux analysis shows that resistin impairs the metabolic response to insulin in L6E9 myotubes.

Guzmán S, Marin S, Miranda A, Selivanov VA, Centelles JJ, Harmancey R, Smih F, Turkieh A, Durocher Y, Zorzano A, Rouet P, Cascante M.

BMC Syst Biol. 2014 Sep 14;8:109. doi: 10.1186/s12918-014-0109-z.

14.

A key role for mitochondrial gatekeeper pyruvate dehydrogenase in oncogene-induced senescence.

Kaplon J, Zheng L, Meissl K, Chaneton B, Selivanov VA, Mackay G, van der Burg SH, Verdegaal EM, Cascante M, Shlomi T, Gottlieb E, Peeper DS.

Nature. 2013 Jun 6;498(7452):109-12. doi: 10.1038/nature12154. Epub 2013 May 19.

PMID:
23685455
15.

Multistationary and oscillatory modes of free radicals generation by the mitochondrial respiratory chain revealed by a bifurcation analysis.

Selivanov VA, Cascante M, Friedman M, Schumaker MF, Trucco M, Votyakova TV.

PLoS Comput Biol. 2012;8(9):e1002700. doi: 10.1371/journal.pcbi.1002700. Epub 2012 Sep 20.

16.

Effects of free Ca²⁺ on kinetic characteristics of holotransketolase.

Solovjeva ON, Sevostyanova IA, Yurshev VA, Selivanov VA, Kochetov GA.

Protein J. 2012 Feb;31(2):137-40. doi: 10.1007/s10930-011-9382-5.

PMID:
22210509
17.

Relevance of the MEK/ERK signaling pathway in the metabolism of activated macrophages: a metabolomic approach.

Través PG, de Atauri P, Marín S, Pimentel-Santillana M, Rodríguez-Prados JC, Marín de Mas I, Selivanov VA, Martín-Sanz P, Boscá L, Cascante M.

J Immunol. 2012 Feb 1;188(3):1402-10. doi: 10.4049/jimmunol.1101781. Epub 2011 Dec 21.

18.

Compartmentation of glycogen metabolism revealed from 13C isotopologue distributions.

de Mas IM, Selivanov VA, Marin S, Roca J, Orešič M, Agius L, Cascante M.

BMC Syst Biol. 2011 Oct 28;5:175. doi: 10.1186/1752-0509-5-175.

19.

Compartmentation of membrane processes and nucleotide dynamics in diffusion-restricted cardiac cell microenvironment.

Alekseev AE, Reyes S, Selivanov VA, Dzeja PP, Terzic A.

J Mol Cell Cardiol. 2012 Feb;52(2):401-9. doi: 10.1016/j.yjmcc.2011.06.007. Epub 2011 Jun 16. Review.

20.

Reactive oxygen species production by forward and reverse electron fluxes in the mitochondrial respiratory chain.

Selivanov VA, Votyakova TV, Pivtoraiko VN, Zeak J, Sukhomlin T, Trucco M, Roca J, Cascante M.

PLoS Comput Biol. 2011 Mar;7(3):e1001115. doi: 10.1371/journal.pcbi.1001115. Epub 2011 Mar 31.

21.

Experimental constraints on left-right symmetric models from muon decay.

Bayes R, Bueno JF, Hillairet A, Davydov YI, Depommier P, Faszer W, Gagliardi CA, Gaponenko A, Gill DR, Grossheim A, Gumplinger P, Hasinoff MD, Henderson RS, Hu J, Koetke DD, MacDonald RP, Marshall GM, Mathie EL, Mischke RE, Olchanski K, Olin A, Openshaw R, Poutissou JM, Poutissou R, Selivanov V, Sheffer G, Shin B, Stanislaus TD, Tacik R, Tribble RE; TWIST Collaboration.

Phys Rev Lett. 2011 Jan 28;106(4):041804. Epub 2011 Jan 25.

PMID:
21405321
22.

Edelfosine-induced metabolic changes in cancer cells that precede the overproduction of reactive oxygen species and apoptosis.

Selivanov VA, Vizán P, Mollinedo F, Fan TW, Lee PW, Cascante M.

BMC Syst Biol. 2010 Oct 6;4:135. doi: 10.1186/1752-0509-4-135.

23.

Bistability of mitochondrial respiration underlies paradoxical reactive oxygen species generation induced by anoxia.

Selivanov VA, Votyakova TV, Zeak JA, Trucco M, Roca J, Cascante M.

PLoS Comput Biol. 2009 Dec;5(12):e1000619. doi: 10.1371/journal.pcbi.1000619. Epub 2009 Dec 24.

24.

Cooperative binding of substrates to transketolase from Saccharomyces cerevisiae.

Sevostyanova IA, Selivanov VA, Yurshev VA, Solovjeva ON, Zabrodskaya SV, Kochetov GA.

Biochemistry (Mosc). 2009 Jul;74(7):789-92.

PMID:
19747100
25.

Half-of-the-sites reactivity of transketolase from Saccharomyces cerevisiae.

Sevostyanova I, Solovjeva O, Selivanov V, Kochetov G.

Biochem Biophys Res Commun. 2009 Feb 20;379(4):851-4. doi: 10.1016/j.bbrc.2008.12.108. Epub 2008 Dec 31.

PMID:
19121289
26.

The role of external and matrix pH in mitochondrial reactive oxygen species generation.

Selivanov VA, Zeak JA, Roca J, Cascante M, Trucco M, Votyakova TV.

J Biol Chem. 2008 Oct 24;283(43):29292-300. doi: 10.1074/jbc.M801019200. Epub 2008 Aug 7.

27.

Sci-Fri AM: YIS-02: Evaluation of the LabPET4 imaging capabilities for in vivo small animal imaging.

Bergeron M, Cadorette J, Tétrault MA, Viscogliosi N, Beaudoin JF, Selivanov V, Fontaine R, Lecomte R.

Med Phys. 2008 Jul;35(7Part3):3410. doi: 10.1118/1.2965964.

PMID:
28512899
28.

The changes in the energy metabolism of human muscle induced by training.

Selivanov VA, de Atauri P, Centelles JJ, Cadefau J, Parra J, Cussó R, Carreras J, Cascante M.

J Theor Biol. 2008 Jun 7;252(3):402-10. Epub 2007 Oct 5.

PMID:
17996255
29.

Modeling of spatial metabolite distributions in the cardiac sarcomere.

Selivanov VA, Krause S, Roca J, Cascante M.

Biophys J. 2007 May 15;92(10):3492-500. Epub 2007 Feb 26.

30.

Integration of enzyme kinetic models and isotopomer distribution analysis for studies of in situ cell operation.

Selivanov VA, Sukhomlin T, Centelles JJ, Lee PW, Cascante M.

BMC Neurosci. 2006 Oct 30;7 Suppl 1:S7. Review.

31.

Software for dynamic analysis of tracer-based metabolomic data: estimation of metabolic fluxes and their statistical analysis.

Selivanov VA, Marin S, Lee PW, Cascante M.

Bioinformatics. 2006 Nov 15;22(22):2806-12. Epub 2006 Sep 25.

PMID:
17000750
32.

Pentose phosphate and calvin cycles: Similarities and three-dimensional views*.

Sillero A, Selivanov VA, Cascante M.

Biochem Mol Biol Educ. 2006 Jul;34(4):275-7. doi: 10.1002/bmb.2006.494034042627.

33.

Rapid simulation and analysis of isotopomer distributions using constraints based on enzyme mechanisms: an example from HT29 cancer cells.

Selivanov VA, Meshalkina LE, Solovjeva ON, Kuchel PW, Ramos-Montoya A, Kochetov GA, Lee PW, Cascante M.

Bioinformatics. 2005 Sep 1;21(17):3558-64. Epub 2005 Jul 7.

PMID:
16002431
34.

Measurement of the Michel parameter rho in muon decay.

Musser JR, Bayes R, Davydov YI, Depommier P, Doornbos J, Faszer W, Gagliardi CA, Gaponenko A, Gill DR, Green P, Gumplinger P, Hasinoff MD, Henderson RS, Hu J, Jamieson B, Kitching P, Koetke DD, Krushinsky AA, Lachin YY, Macdonald JA, MacDonald RP, Marshall GM, Mathie EL, Miasoedov LV, Mischke RE, Nord PM, Olchanski K, Olin A, Openshaw R, Porcelli TA, Poutissou JM, Poutissou R, Quraan MA, Rodning NL, Selivanov V, Sheffer G, Shin B, Sobratee F, Stanislaus TD, Tacik R, Torokhov VD, Tribble RE, Vasiliev MA, Wright DH; TWIST Collaboration.

Phys Rev Lett. 2005 Mar 18;94(10):101805. Epub 2005 Mar 18.

PMID:
15783475
35.

[Elaboration and introduction of an algorithm of rendering the anesthetic-and-resuscitation care to a big number of wounded person in terrorist attacks].

Slepushkin VD, Addaev DA, Geriev OG, Selivanov VA, Tsarikov RKh.

Anesteziol Reanimatol. 2004 May-Jun;(3):7-8. Russian.

PMID:
15314846
36.

An optimized algorithm for flux estimation from isotopomer distribution in glucose metabolites.

Selivanov VA, Puigjaner J, Sillero A, Centelles JJ, Ramos-Montoya A, Lee PW, Cascante M.

Bioinformatics. 2004 Dec 12;20(18):3387-97. Epub 2004 Jul 15.

PMID:
15256408
37.

[Development and application of the nonlethal weapons: modern aspects].

Khrupkin VI, Selivanov VV, Savost'ianov VV.

Voen Med Zh. 2004 May;325(5):4-10. Russian. No abstract available.

PMID:
15214175
38.

Kinetic study of the H103A mutant yeast transketolase.

Selivanov VA, Kovina MV, Kochevova NV, Meshalkina LE, Kochetov GA.

FEBS Lett. 2004 Jun 4;567(2-3):270-4.

39.

ABCC9 mutations identified in human dilated cardiomyopathy disrupt catalytic KATP channel gating.

Bienengraeber M, Olson TM, Selivanov VA, Kathmann EC, O'Cochlain F, Gao F, Karger AB, Ballew JD, Hodgson DM, Zingman LV, Pang YP, Alekseev AE, Terzic A.

Nat Genet. 2004 Apr;36(4):382-7. Epub 2004 Mar 21.

40.
41.

[An acute attack of hereditary coproporphyria concomitant with severe generalized polyneuropathy and respiratory insufficiency].

Piradov MA, Avdiunina IA, Alferova VP, Pustovoĭt IaS, Pivnik AV, Karpova IV, Popov AA, Selivanov VV, Kim AV, Rider FK.

Anesteziol Reanimatol. 2003 May-Jun;(3):64-7. Russian. No abstract available.

PMID:
12918208
42.

Coupling of cell energetics with membrane metabolic sensing. Integrative signaling through creatine kinase phosphotransfer disrupted by M-CK gene knock-out.

Abraham MR, Selivanov VA, Hodgson DM, Pucar D, Zingman LV, Wieringa B, Dzeja PP, Alekseev AE, Terzic A.

J Biol Chem. 2002 Jul 5;277(27):24427-34. Epub 2002 Apr 19.

43.

Acceptor substrate inhibits transketolase competitively with respect to donor substrate.

Solov'eva ON, Meshalkina LE, Kovina MV, Selivanov VA, Bykova IA, Kochetov GA.

Biochemistry (Mosc). 2000 Oct;65(10):1202-5.

PMID:
11092965
44.

[The ultrasonic diagnosis of biliary ileus].

Selivanov VI, Kantimerov FKh, Migranov NG.

Vestn Khir Im I I Grek. 2000;159(2):86-7. Review. Russian. No abstract available.

PMID:
10890081
45.

[The 50th anniversary of the St. Petersburg Scientific Society of Historians of Medicine].

Selivanov VI.

Probl Sotsialnoi Gig Istor Med. 1998 Nov-Dec;(6):47. Russian. No abstract available.

PMID:
10084869
46.

Kinetic investigation of cooperativity in coenzyme binding by transketolase active sites.

Kovina MV, Selivanov VA, Kochevova NV, Kochetov GA.

Biochemistry (Mosc). 1998 Aug;63(8):988-95.

PMID:
9767190
47.

A model of mitochondrial Ca(2+)-induced Ca2+ release simulating the Ca2+ oscillations and spikes generated by mitochondria.

Selivanov VA, Ichas F, Holmuhamedov EL, Jouaville LS, Evtodienko YV, Mazat JP.

Biophys Chem. 1998 May 5;72(1-2):111-21.

PMID:
9652089
48.

Kinetic mechanism of active site non-equivalence in transketolase.

Kovina MV, Selivanov VA, Kochevova NV, Kochetov GA.

FEBS Lett. 1997 Nov 24;418(1-2):11-4.

49.

Determination of constants of substrate primary binding with baker's yeast transketolase by kinetic modelling.

Selivanov VA, Meshalkina LE, Kovina MV, Kochetov GA.

Biochemistry (Mosc). 1997 Apr;62(4):425-32.

PMID:
9275280
50.

[Iakov Alekseevich Chistovich].

Selivanov VI.

Probl Sotsialnoi Gig Istor Med. 1997 Mar-Apr;(2):58-9. Russian. No abstract available.

PMID:
9254196

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