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Modeling biomedical experimental processes with OBI.

Journal of biomedical semantics

Brinkman RR, Courtot M, Derom D, Fostel JM, He Y, Lord P, Malone J, Parkinson H, Peters B, Rocca-Serra P, Ruttenberg A, Sansone SA, Soldatova LN, Stoeckert CJ, Turner JA, Zheng J.
PMID: 20626927
J Biomed Semantics. 2010 Jun 22;1:S7. doi: 10.1186/2041-1480-1-S1-S7.

BACKGROUND: Experimental descriptions are typically stored as free text without using standardized terminology, creating challenges in comparison, reproduction and analysis. These difficulties impose limitations on data exchange and information retrieval.RESULTS: The Ontology for Biomedical Investigations (OBI), developed as a...

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Brinkman RR, Courtot M, Derom D, et al. Modeling biomedical experimental processes with OBI. J Biomed Semantics. 2010;1:S7doi: 10.1186/2041-1480-1-S1-S7.
Brinkman, R. R., Courtot, M., Derom, D., Fostel, J. M., He, Y., Lord, P., Malone, J., Parkinson, H., Peters, B., Rocca-Serra, P., Ruttenberg, A., Sansone, S. A., Soldatova, L. N., Stoeckert, C. J., Turner, J. A., Zheng, J. (2010). Modeling biomedical experimental processes with OBI. Journal of biomedical semantics, 1S7. https://doi.org/10.1186/2041-1480-1-S1-S7
Brinkman, Ryan R, et al. "Modeling biomedical experimental processes with OBI." Journal of biomedical semantics vol. 1 (2010): S7. doi: https://doi.org/10.1186/2041-1480-1-S1-S7
Brinkman RR, Courtot M, Derom D, Fostel JM, He Y, Lord P, Malone J, Parkinson H, Peters B, Rocca-Serra P, Ruttenberg A, Sansone SA, Soldatova LN, Stoeckert CJ, Turner JA, Zheng J. Modeling biomedical experimental processes with OBI. J Biomed Semantics. 2010 Jun 22;1:S7. doi: 10.1186/2041-1480-1-S1-S7. PMID: 20626927; PMCID: PMC2903726.
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Towards Robot Scientists for autonomous scientific discovery.

Automated experimentation

Sparkes A, Aubrey W, Byrne E, Clare A, Khan MN, Liakata M, Markham M, Rowland J, Soldatova LN, Whelan KE, Young M, King RD.
PMID: 20119518
Autom Exp. 2010 Jan 04;2:1. doi: 10.1186/1759-4499-2-1.

We review the main components of autonomous scientific discovery, and how they lead to the concept of a Robot Scientist. This is a system which uses techniques from artificial intelligence to automate all aspects of the scientific discovery process:...

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Sparkes A, Aubrey W, Byrne E, et al. Towards Robot Scientists for autonomous scientific discovery. Autom Exp. 2010;2:1doi: 10.1186/1759-4499-2-1.
Sparkes, A., Aubrey, W., Byrne, E., Clare, A., Khan, M. N., Liakata, M., Markham, M., Rowland, J., Soldatova, L. N., Whelan, K. E., Young, M., & King, R. D. (2010). Towards Robot Scientists for autonomous scientific discovery. Automated experimentation, 21. https://doi.org/10.1186/1759-4499-2-1
Sparkes, Andrew, et al. "Towards Robot Scientists for autonomous scientific discovery." Automated experimentation vol. 2 (2010): 1. doi: https://doi.org/10.1186/1759-4499-2-1
Sparkes A, Aubrey W, Byrne E, Clare A, Khan MN, Liakata M, Markham M, Rowland J, Soldatova LN, Whelan KE, Young M, King RD. Towards Robot Scientists for autonomous scientific discovery. Autom Exp. 2010 Jan 04;2:1. doi: 10.1186/1759-4499-2-1. PMID: 20119518; PMCID: PMC2813846.
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[Development of diffuse toxic goiter in the presence of prior hypothyroidism].

Problemy endokrinologii

Strongm LG, Korneva KG, Petrov AV, Nekrasova EA, Podupeiko NZ, Sarantsev BV, Orlinskaya NY, Tarasova NI, Soldatova YV.
PMID: 31627686
Probl Endokrinol (Mosk). 2007 Jun 15;53(3):38-41. doi: 10.14341/probl200753338-41.

We present a clinical example of a differential diagnostic search for the causes of thyrotoxicosis in a patient with previous hypothyroidism.

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Strongm LG, Korneva KG, Petrov AV, et al. [Development of diffuse toxic goiter in the presence of prior hypothyroidism]. Probl Endokrinol (Mosk). 2007;53(3):38-41doi: 10.14341/probl200753338-41.
Strongm, L. G., Korneva, K. G., Petrov, A. V., Nekrasova, E. A., Podupeiko, N. Z., Sarantsev, B. V., Orlinskaya, N. Y., Tarasova, N. I., & Soldatova, Y. V. (2007). [Development of diffuse toxic goiter in the presence of prior hypothyroidism]. Problemy endokrinologii, 53(3), 38-41. https://doi.org/10.14341/probl200753338-41
Strongm, L G, et al. "[Development of diffuse toxic goiter in the presence of prior hypothyroidism]." Problemy endokrinologii vol. 53,3 (2007): 38-41. doi: https://doi.org/10.14341/probl200753338-41
Strongm LG, Korneva KG, Petrov AV, Nekrasova EA, Podupeiko NZ, Sarantsev BV, Orlinskaya NY, Tarasova NI, Soldatova YV. [Development of diffuse toxic goiter in the presence of prior hypothyroidism]. Probl Endokrinol (Mosk). 2007 Jun 15;53(3):38-41. doi: 10.14341/probl200753338-41. Russian. PMID: 31627686.
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[The specific features of hypothyroidism developing with the use of cordorone].

Problemy endokrinologii

Molashenko NV, Platonova NM, Sviridenko NY, Soldatova TV, Bokalov SA, Serdyuk SE.
PMID: 31627544
Probl Endokrinol (Mosk). 2005 Aug 15;51(4):18-22. doi: 10.14341/probl200551418-22.

Hypothyroidism (HT) is one of the thyroid dysfunctions occurring with the use ofcordorone. The authors examined the clinical features of this condition in 26 patients living in Moscow and its region (mild and moderate iodine deficiency areas). The blood...

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Molashenko NV, Platonova NM, Sviridenko NY, et al. [The specific features of hypothyroidism developing with the use of cordorone]. Probl Endokrinol (Mosk). 2005;51(4):18-22doi: 10.14341/probl200551418-22.
Molashenko, N. V., Platonova, N. M., Sviridenko, N. Y., Soldatova, T. V., Bokalov, S. A., & Serdyuk, S. E. (2005). [The specific features of hypothyroidism developing with the use of cordorone]. Problemy endokrinologii, 51(4), 18-22. https://doi.org/10.14341/probl200551418-22
Molashenko, N V, et al. "[The specific features of hypothyroidism developing with the use of cordorone]." Problemy endokrinologii vol. 51,4 (2005): 18-22. doi: https://doi.org/10.14341/probl200551418-22
Molashenko NV, Platonova NM, Sviridenko NY, Soldatova TV, Bokalov SA, Serdyuk SE. [The specific features of hypothyroidism developing with the use of cordorone]. Probl Endokrinol (Mosk). 2005 Aug 15;51(4):18-22. doi: 10.14341/probl200551418-22. Russian. PMID: 31627544.
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Transformational machine learning: Learning how to learn from many related scientific problems.

Proceedings of the National Academy of Sciences of the United States of America

Olier I, Orhobor OI, Dash T, Davis AM, Soldatova LN, Vanschoren J, King RD.
PMID: 34845013
Proc Natl Acad Sci U S A. 2021 Dec 07;118(49). doi: 10.1073/pnas.2108013118.

Almost all machine learning (ML) is based on representing examples using intrinsic features. When there are multiple related ML problems (tasks), it is possible to transform these features into extrinsic features by first training ML models on other tasks...

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Olier I, Orhobor OI, Dash T, et al. Transformational machine learning: Learning how to learn from many related scientific problems. Proc Natl Acad Sci U S A. 2021;118(49)doi: 10.1073/pnas.2108013118.
Olier, I., Orhobor, O. I., Dash, T., Davis, A. M., Soldatova, L. N., Vanschoren, J., & King, R. D. (2021). Transformational machine learning: Learning how to learn from many related scientific problems. Proceedings of the National Academy of Sciences of the United States of America, 118(49), . https://doi.org/10.1073/pnas.2108013118
Olier, Ivan, et al. "Transformational machine learning: Learning how to learn from many related scientific problems." Proceedings of the National Academy of Sciences of the United States of America vol. 118,49 (2021). doi: https://doi.org/10.1073/pnas.2108013118
Olier I, Orhobor OI, Dash T, Davis AM, Soldatova LN, Vanschoren J, King RD. Transformational machine learning: Learning how to learn from many related scientific problems. Proc Natl Acad Sci U S A. 2021 Dec 07;118(49). doi: 10.1073/pnas.2108013118. PMID: 34845013.
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Effects of albumin-bound nitrosyl iron complex with thiosulfate ligands on lipid peroxidation and activities of mitochondrial enzymes in vitro.

Nitric oxide : biology and chemistry

Faingold II, Poletaeva DA, Soldatova YV, Smolina AV, Pokidova OV, Kulikov AV, Sanina NA, Kotelnikova RA.
PMID: 34678508
Nitric Oxide. 2021 Dec 01;117:46-52. doi: 10.1016/j.niox.2021.10.002. Epub 2021 Oct 20.

Nitric oxide (NO) mediates diverse physiological processes in living organisms. Small molecular NO donors usually lack stability and have a short half-life in human tissues, limiting the therapeutic application. The anionic tetranitrosyl iron complex with thiosulfate ligands (TNIC) is...

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Faingold II, Poletaeva DA, Soldatova YV, et al. Effects of albumin-bound nitrosyl iron complex with thiosulfate ligands on lipid peroxidation and activities of mitochondrial enzymes in vitro. Nitric Oxide. 2021;117:46-52doi: 10.1016/j.niox.2021.10.002.
Faingold, I. I., Poletaeva, D. A., Soldatova, Y. V., Smolina, A. V., Pokidova, O. V., Kulikov, A. V., Sanina, N. A., & Kotelnikova, R. A. (2021). Effects of albumin-bound nitrosyl iron complex with thiosulfate ligands on lipid peroxidation and activities of mitochondrial enzymes in vitro. Nitric oxide : biology and chemistry, 11746-52. https://doi.org/10.1016/j.niox.2021.10.002
Faingold, I I, et al. "Effects of albumin-bound nitrosyl iron complex with thiosulfate ligands on lipid peroxidation and activities of mitochondrial enzymes in vitro." Nitric oxide : biology and chemistry vol. 117 (2021): 46-52. doi: https://doi.org/10.1016/j.niox.2021.10.002
Faingold II, Poletaeva DA, Soldatova YV, Smolina AV, Pokidova OV, Kulikov AV, Sanina NA, Kotelnikova RA. Effects of albumin-bound nitrosyl iron complex with thiosulfate ligands on lipid peroxidation and activities of mitochondrial enzymes in vitro. Nitric Oxide. 2021 Dec 01;117:46-52. doi: 10.1016/j.niox.2021.10.002. Epub 2021 Oct 20. PMID: 34678508.
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Sinonasal Carcinomas with Neuroendocrine Features: Histopathological Differentiation and Treatment Outcomes.

Journal of neurological surgery. Part B, Skull base

Soldatova L, Campbell RG, Carrau RL, Prevedello DM, Wakely P, Otto BA, Filho LF.
PMID: 27857871
J Neurol Surg B Skull Base. 2016 Dec;77(6):456-465. doi: 10.1055/s-0036-1582432. Epub 2016 Apr 26.

No abstract available.

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Soldatova L, Campbell RG, Carrau RL, et al. Sinonasal Carcinomas with Neuroendocrine Features: Histopathological Differentiation and Treatment Outcomes. J Neurol Surg B Skull Base. 2016;77(6):456-465doi: 10.1055/s-0036-1582432.
Soldatova, L., Campbell, R. G., Carrau, R. L., Prevedello, D. M., Wakely, P., Otto, B. A., & Filho, L. F. (2016). Sinonasal Carcinomas with Neuroendocrine Features: Histopathological Differentiation and Treatment Outcomes. Journal of neurological surgery. Part B, Skull base, 77(6), 456-465. https://doi.org/10.1055/s-0036-1582432
Soldatova, Liuba, et al. "Sinonasal Carcinomas with Neuroendocrine Features: Histopathological Differentiation and Treatment Outcomes." Journal of neurological surgery. Part B, Skull base vol. 77,6 (2016): 456-465. doi: https://doi.org/10.1055/s-0036-1582432
Soldatova L, Campbell RG, Carrau RL, Prevedello DM, Wakely P, Otto BA, Filho LF. Sinonasal Carcinomas with Neuroendocrine Features: Histopathological Differentiation and Treatment Outcomes. J Neurol Surg B Skull Base. 2016 Dec;77(6):456-465. doi: 10.1055/s-0036-1582432. Epub 2016 Apr 26. PMID: 27857871; PMCID: PMC5112165.
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Facile One-Pot Synthesis of Diaryliodonium Salts from Arenes and Aryl Iodides with Oxone.

ChemistryOpen

Soldatova N, Postnikov P, Kukurina O, Zhdankin VV, Yoshimura A, Wirth T, Yusubov MS.
PMID: 28168145
ChemistryOpen. 2016 Dec 16;6(1):18-20. doi: 10.1002/open.201600129. eCollection 2017 Feb.

A straightforward synthesis of diaryliodonium salts is achieved by using Oxone as the stoichiometric oxidant. Slow addition is the key to obtaining good yields and purities of the reaction products, which are highly useful reagents in many different areas...

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Soldatova N, Postnikov P, Kukurina O, et al. Facile One-Pot Synthesis of Diaryliodonium Salts from Arenes and Aryl Iodides with Oxone. ChemistryOpen. 2016;6(1):18-20doi: 10.1002/open.201600129.
Soldatova, N., Postnikov, P., Kukurina, O., Zhdankin, V. V., Yoshimura, A., Wirth, T., & Yusubov, M. S. (2017). Facile One-Pot Synthesis of Diaryliodonium Salts from Arenes and Aryl Iodides with Oxone. ChemistryOpen, 6(1), 18-20. https://doi.org/10.1002/open.201600129
Soldatova, Natalia, et al. "Facile One-Pot Synthesis of Diaryliodonium Salts from Arenes and Aryl Iodides with Oxone." ChemistryOpen vol. 6,1 (2017): 18-20. doi: https://doi.org/10.1002/open.201600129
Soldatova N, Postnikov P, Kukurina O, Zhdankin VV, Yoshimura A, Wirth T, Yusubov MS. Facile One-Pot Synthesis of Diaryliodonium Salts from Arenes and Aryl Iodides with Oxone. ChemistryOpen. 2016 Dec 16;6(1):18-20. doi: 10.1002/open.201600129. eCollection 2017 Feb. PMID: 28168145; PMCID: PMC5288754.
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Features of Media Multitasking in School-Age Children.

Behavioral sciences (Basel, Switzerland)

Soldatova G, Chigarkova S, Dreneva A.
PMID: 31783571
Behav Sci (Basel). 2019 Nov 27;9(12). doi: 10.3390/bs9120130.

The paper addresses the phenomenon of media multitasking that is being widely spread among children and adolescents in the context of digital socialization. The previous research has revealed its strong connection with cognitive control, executive functions, and academic performance,...

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Soldatova G, Chigarkova S, Dreneva A. Features of Media Multitasking in School-Age Children. Behav Sci (Basel). 2019;9(12)doi: 10.3390/bs9120130.
Soldatova, G., Chigarkova, S., & Dreneva, A. (2019). Features of Media Multitasking in School-Age Children. Behavioral sciences (Basel, Switzerland), 9(12), . https://doi.org/10.3390/bs9120130
Soldatova, Galina, et al. "Features of Media Multitasking in School-Age Children." Behavioral sciences (Basel, Switzerland) vol. 9,12 (2019). doi: https://doi.org/10.3390/bs9120130
Soldatova G, Chigarkova S, Dreneva A. Features of Media Multitasking in School-Age Children. Behav Sci (Basel). 2019 Nov 27;9(12). doi: 10.3390/bs9120130. PMID: 31783571; PMCID: PMC6960499.
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[Assessment of clinical efficacy and tolerability of meat-containing canned food for enteral nutrition].

Voprosy pitaniia

Zaynudinov ZM, Isakov VA, Pilipenko VI, Nikityuk DB, Zokhrabyan PR, Dydykin AS, Derevitskaya OK, Aslanova MA, Soldatova NE.
PMID: 30645864
Vopr Pitan. 2017;86(3):59-67. doi: 10.24411/0042-8833-2017-00046. Epub 2017 Feb 06.

AIM OF STUDY: to evaluate the efficacy and tolerability of meat-containing canned food for enteral nutrition in clinical settings in patients with gastrectomy. The product was made from animal protein (beef) with the addition of vegetable oils, soy protein,...

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Zaynudinov ZM, Isakov VA, Pilipenko VI, et al. [Assessment of clinical efficacy and tolerability of meat-containing canned food for enteral nutrition]. Vopr Pitan. 2017;86(3):59-67doi: 10.24411/0042-8833-2017-00046.
Zaynudinov, Z. M., Isakov, V. A., Pilipenko, V. I., Nikityuk, D. B., Zokhrabyan, P. R., Dydykin, A. S., Derevitskaya, O. K., Aslanova, M. A., & Soldatova, N. E. (2017). [Assessment of clinical efficacy and tolerability of meat-containing canned food for enteral nutrition]. Voprosy pitaniia, 86(3), 59-67. https://doi.org/10.24411/0042-8833-2017-00046
Zaynudinov, Z M, et al. "[Assessment of clinical efficacy and tolerability of meat-containing canned food for enteral nutrition]." Voprosy pitaniia vol. 86,3 (2017): 59-67. doi: https://doi.org/10.24411/0042-8833-2017-00046
Zaynudinov ZM, Isakov VA, Pilipenko VI, Nikityuk DB, Zokhrabyan PR, Dydykin AS, Derevitskaya OK, Aslanova MA, Soldatova NE. [Assessment of clinical efficacy and tolerability of meat-containing canned food for enteral nutrition]. Vopr Pitan. 2017;86(3):59-67. doi: 10.24411/0042-8833-2017-00046. Epub 2017 Feb 06. Russian. PMID: 30645864.
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(2E,25E)-11,14,17,33,36,39,42-Hepta-oxa-penta-cyclo-[41.4.0.0.0.0]hepta-tetra-conta-1(43),2,5(10),6,8,18,20,22,25,27,29,31,44,46-tetra-decaene-4,24-dione.

Acta crystallographica. Section E, Structure reports online

Anh le T, Hieu TH, Soldatenkov AT, Soldatova SA, Khrustalev VN.
PMID: 21754440
Acta Crystallogr Sect E Struct Rep Online. 2011 May 01;67:o1128-9. doi: 10.1107/S1600536811013201. Epub 2011 Apr 13.

The title compound, C(40)H(40)O(9), is a product of the double crotonic condensation of bis-(2-acetyl-phen-oxy)-3-oxapentane with bis-(2-formyl-phen-oxy)-3,6-dioxaoctane. The title macromolecule includes the 31-crown-7-ether skeletal unit and adopts a saddle-like conformation. The two ethyl-ene fragments have E configurations. The volume of...

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Anh le T, Hieu TH, Soldatenkov AT, et al. (2E,25E)-11,14,17,33,36,39,42-Hepta-oxa-penta-cyclo-[41.4.0.0.0.0]hepta-tetra-conta-1(43),2,5(10),6,8,18,20,22,25,27,29,31,44,46-tetra-decaene-4,24-dione. Acta Crystallogr Sect E Struct Rep Online. 2011;67:o1128-9doi: 10.1107/S1600536811013201.
Anh, l. e. . T., Hieu, T. H., Soldatenkov, A. T., Soldatova, S. A., & Khrustalev, V. N. (2011). (2E,25E)-11,14,17,33,36,39,42-Hepta-oxa-penta-cyclo-[41.4.0.0.0.0]hepta-tetra-conta-1(43),2,5(10),6,8,18,20,22,25,27,29,31,44,46-tetra-decaene-4,24-dione. Acta crystallographica. Section E, Structure reports online, 67o1128-9. https://doi.org/10.1107/S1600536811013201
Anh, Le Tuan, et al. "(2E,25E)-11,14,17,33,36,39,42-Hepta-oxa-penta-cyclo-[41.4.0.0.0.0]hepta-tetra-conta-1(43),2,5(10),6,8,18,20,22,25,27,29,31,44,46-tetra-decaene-4,24-dione." Acta crystallographica. Section E, Structure reports online vol. 67 (2011): o1128-9. doi: https://doi.org/10.1107/S1600536811013201
Anh le T, Hieu TH, Soldatenkov AT, Soldatova SA, Khrustalev VN. (2E,25E)-11,14,17,33,36,39,42-Hepta-oxa-penta-cyclo-[41.4.0.0.0.0]hepta-tetra-conta-1(43),2,5(10),6,8,18,20,22,25,27,29,31,44,46-tetra-decaene-4,24-dione. Acta Crystallogr Sect E Struct Rep Online. 2011 May 01;67:o1128-9. doi: 10.1107/S1600536811013201. Epub 2011 Apr 13. PMID: 21754440; PMCID: PMC3089172.
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rac-(1S*,4aS*,8aS*)-4a-Hy-droxy-2-methyl-perhydro-spiro-[isoquinoline-4,1'-cyclo-hexa-n]-2'-one.

Acta crystallographica. Section E, Structure reports online

Siaka S, Soldatenkov AT, Malkova AV, Soldatova SA, Khrustalev VN.
PMID: 23723795
Acta Crystallogr Sect E Struct Rep Online. 2013 Apr 05;69:o628. doi: 10.1107/S1600536813007010. Print 2013 May 01.

In the title compound, C15H25NO2, all three six-membered rings adopt chair conformations. The cyclo-hexane and piperidine rings within the perhydro-isoquinoline are trans-trans fused. The N atom has a trigonal-pyramidal geometry (the sum of the bond angles is 328.0°). The...

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Siaka S, Soldatenkov AT, Malkova AV, et al. rac-(1S*,4aS*,8aS*)-4a-Hy-droxy-2-methyl-perhydro-spiro-[isoquinoline-4,1'-cyclo-hexa-n]-2'-one. Acta Crystallogr Sect E Struct Rep Online. 2013;69:o628doi: 10.1107/S1600536813007010.
Siaka, S., Soldatenkov, A. T., Malkova, A. V., Soldatova, S. A., & Khrustalev, V. N. (2013). rac-(1S*,4aS*,8aS*)-4a-Hy-droxy-2-methyl-perhydro-spiro-[isoquinoline-4,1'-cyclo-hexa-n]-2'-one. Acta crystallographica. Section E, Structure reports online, 69o628. https://doi.org/10.1107/S1600536813007010
Siaka, Sorho, et al. "rac-(1S*,4aS*,8aS*)-4a-Hy-droxy-2-methyl-perhydro-spiro-[isoquinoline-4,1'-cyclo-hexa-n]-2'-one." Acta crystallographica. Section E, Structure reports online vol. 69 (2013): o628. doi: https://doi.org/10.1107/S1600536813007010
Siaka S, Soldatenkov AT, Malkova AV, Soldatova SA, Khrustalev VN. rac-(1S*,4aS*,8aS*)-4a-Hy-droxy-2-methyl-perhydro-spiro-[isoquinoline-4,1'-cyclo-hexa-n]-2'-one. Acta Crystallogr Sect E Struct Rep Online. 2013 Apr 05;69:o628. doi: 10.1107/S1600536813007010. Print 2013 May 01. PMID: 23723795; PMCID: PMC3647829.
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Showing 1 to 12 of 47 entries