International Multiconference “Bioinformatics of Genome Regulation and Structure\Systems Biology”

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Systems Biology and Biomedicine symposium

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Systems Biology and Biomedicine symposiumEvaluation Of Biological Activity Of The Conjugates Of Granulocyte-Macrophage Colony Stimulating FactorWith Alendronic Acid

Evaluation Of Biological Activity Of The Conjugates Of Granulocyte-Macrophage Colony Stimulating FactorWith Alendronic Acid

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Poster (download)

[pdf-embedder url=”https://bgrssb.icgbio.ru/wp-content/uploads/2020/07/290.pdf”]
Esina Tat\’yana Igorevna1, Bateneva Alena Vladimirovna2, Shimina Galina Grigor\’evna3, Danilenko Elena Dmitrievna4, Volosnikova Ekaterina Aleksandrovna5
1department of technology development and pilot production of biologicals IMBT FBRI SRC VB В«VectorВ», Rospotrebnadzor, Berdsk, Russian Federation, esina_ti@vector.nsc.ru
2department of biological studies IMBT FBRI SRC VB В«VectorВ», Rospotrebnadzor, Berdsk, Russian Federation, bateneva_av@vector.nsc.ru
3department of biological studies IMBT FBRI SRC VB В«VectorВ», Rospotrebnadzor, Berdsk, Russian Federation, shimina_gg@vector.nsc.ru
4department of biological studies IMBT FBRI SRC VB В«VectorВ», Rospotrebnadzor, Berdsk, Russian Federation, danilenko_ed@vector.nsc.ru
5department of technology development and pilot production of biologicals IMBT FBRI SRC VB В«VectorВ», Rospotrebnadzor, Berdsk, Russian Federation, volosnikova_ea@vector.nsc.ru

Systems Biology and Biomedicine symposiumAmino acid and acylcarnitine levels relate with chronic schizophrenia

Amino acid and acylcarnitine levels relate with chronic schizophrenia

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Poster (download)

[pdf-embedder url=”https://bgrssb.icgbio.ru/wp-content/uploads/2020/07/285.pdf”]
Irina Mednova1, Alexandr Chernonosov2, Marat Kasakin3, Elena Kornetova4, Arkadiy Semke5, Nikolay Bokhan6, Vladimir Koval7, Svetlana Ivanova8
1Mental Health Research Institute, TNRMC, Tomsk, Russia, irinka145@yandex.ru
2Institute of Chemical Biology and Fundamental Medicine SB RAS, Novosibirsk, Russia, alexander.chernonosov@niboch.nsc.ru
3Institute of Chemical Biology and Fundamental Medicine SB RAS, Novosibirsk, Russia, kassakinm@gmail.com
4Mental Health Research Institute, TNRMC, Tomsk, Russia, kornetova@sibmail.com
5Mental Health Research Institute, TNRMC, Tomsk, Russia, asemke@mail.ru
6Mental Health Research Institute, TNRMC, Tomsk, Russia, mental@tnimc.ru
7Institute of Chemical Biology and Fundamental Medicine SB RAS, Novosibirsk, Russia, koval@niboch.nsc.ru
8Mental Health Research Institute, TNRMC, Tomsk, Russia, ivanovaniipz@gmail.com

Amino acids and acylcarnitines play important role as substrates and intermediate products in the most pathways related with schizophrenia. We found a significant decrease in the concentration of valine, aspartate, citrulline, glycine, arginine, glutamate and ornithine as well as C14, C14OH, C16OH, C16:1, C16:1OH, РЎ18, C18OH, C18:1, РЎ18:1OH, C18:2OH and C5:1 and increase C4DC in patients with schizophrenia in comparison to the controls.

Systems Biology and Biomedicine symposiumWhole-exome Sequencing Association Studies On Impaired Spermatogenesis In Different Ethnic Groups In Russia

Whole-exome Sequencing Association Studies On Impaired Spermatogenesis In Different Ethnic Groups In Russia

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Semyon K. Kolmykov1, Gennadiy V.Vasiliev2, Mikhail P. Ponomarenko3, Maxim A. Kleshev4, Aleksandr V. Osadchuk5, Ludmila V. Osadchuk6
1Institute of Cytology and Genetics SB RAS, kolmykovsk@gmail.com
2Institute of Cytology and Genetics SB RAS, genn@bionet.nsc.ru
3FRC Institute of Cytology and Genetics SB RAS, pon@bionet.nsc.ru
4Institute of Cytology and Genetics SB RAS, max82cll@bionet.nsc.ru
5Institute of Cytology and Genetics SB RAS, osadchuk@bionet.nsc.ru
6Institute of Cytology and Genetics SB RAS, losadch@bionet.nsc.ru

In this study we identified single nucleotide polymorphisms in whole-exome sequencing data for different ethnic groups in Russia: Slavs, Yakuts and Buryats, and investigated its associations with impaired spermatogenesis.

Systems Biology and Biomedicine symposiumPrevention of tumor growth by photo- and X-ray activation of tunsgen cluster complex and its conjugate with DNA molecules

Prevention of tumor growth by photo- and X-ray activation of tunsgen cluster complex and its conjugate with DNA molecules

No Comment on Prevention of tumor growth by photo- and X-ray activation of tunsgen cluster complex and its conjugate with DNA molecules

Natalya Sitnikova1, Anastasiya Solovieva2, Tatiana N. Pozmogova3, Yuri A. Vorotnikov4, Svetlana M. Miroshnichenko5, Michael A. Shestopalov6, Kushnarenko O. Andrey7
1RICEL – Branch of ICG SB RAS, kiara112@mail.ru
2RICEL – Branch of ICG SB RAS, solovey_ao@mail.ru
3RICEL – Branch of ICG SB RAS, Tnp_post@mail.ru
4NIIC SB RAS, RICEL – Branch of ICG SB RAS, matashandu@gmail.com
5RICEL – Branch of ICG SB RAS, svmiro@yandex.ru
6RICEL – Branch of ICG SB RAS, NIIC SB RAS, shtopy@niic.nsc.ru
7RICEL- Branch of ICG SB RAS, aokushnarenko@mail.ru

Photodynamic therapy (PDT) is one of the most promising methods of treating cancer, although it has it’s limitations due to applying visible light sources with limited exposure depth. This allows the method to be used only for superficial tumors treatment and can damage healthy cells as well. To increase the efficiency of the method for treatment of deep lying tumors, it is possible to use other radiation sources, for example, x-rays. Thereby search and development of x-ray activated photosensitizers is relevant at the moment. In this work a tungsten (W6I8) cluster complex was used as photo- and x-ray- sensitizer and its conjugate with DNA (W6I8DNA) as targeting molecules to eliminate Krebs-2 tumor cells and prevent tumor development in vivo.

Systems Biology and Biomedicine symposiumThe prevalence and risk factors of carotid artery stenosis in type 2 diabetic patients.

The prevalence and risk factors of carotid artery stenosis in type 2 diabetic patients.

No Comment on The prevalence and risk factors of carotid artery stenosis in type 2 diabetic patients.

Poster (download)

[pdf-embedder url=”https://bgrssb.icgbio.ru/wp-content/uploads/2020/07/267.pdf”]
Elena Koroleva1, Rustam Khapaev2, Alexandr Lykov3, Vadim Klimontov4
1Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, ekoro@bk.ru
2Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, khapaevrs@bionet.nsc.ru
3Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, aplykov2@mail.ru
4Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, klimontov@mail.ru

Abstract

Background and aim: Diabetic patients with carotid artery stenosis have an exceptional high risk for all-cause and cardiovascular death. This study aimed to determine the prevalence and risk factors of carotid stenosis in patients with type 2 diabetes (T2D).

Materials and Methods: 390 patients with T2D were examined. Duplex ultrasound of the extracranial carotid arteries was performed and the intima-media thickness of the common carotid arteries (IMT) was determined. A study of serum concentrations of NO, calponin-1, relaxin, and L-citrulline was performed in 152 patients.

Results: the signs of carotid arteriosclerosis were revealed in 338 patients (86%). 134 patients (33%) had carotid stenosis. The patients with carotid artery stenosis (group 2, n = 134), as compared to those without (group 1, n = 204) were older, had a larger waist circumference, a longer diabetes duration, higher urinary albumin/creatinine ratio, and lower eGFR, all p<0.05. There were no differences in sex distribution, smoking rate and other laboratory parameters between the groups. In group 2 NO and citrulline concentrations were significantly higher than in group 1 (p=0.005 and p=0.003 respectively). According to ROC analysis, the age ≥65 years, T2D duration ≥15 years and high serum NO concentration were determined as the risk factors for carotid stenosis. The decrease in eGFR <60 ml/min*1.73 m2, diabetic retinopathy, myocardial infarction in medical history increased the risk of stenosis (HR 2.24; p=0.0006, HR 1.88; p=0.006, and HR 2.64; p=0.002, respectively).

Conclusions: the study shows a high prevalence of carotid artery stenosis in patients with T2D. The age ≥65 years, T2D duration ≥15 years, GFR <60 ml/min*1.73 m2, diabetic retinopathy and myocardial infarction are risk factors for the carotid artery stenosis in patients with T2D.

 

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Systems Biology and Biomedicine symposiumCirculating microRNAs potentially associated with progression of castration-resistant prostate cancer

Circulating microRNAs potentially associated with progression of castration-resistant prostate cancer

No Comment on Circulating microRNAs potentially associated with progression of castration-resistant prostate cancer

Elena Pudova1
1EIMB RAS, pudova_elena@inbox.ru

Metastatic castration-resistant prostate cancer (mCRPC) is characterized by a high mortality rate due to its aggressiveness. In the field of modern oncourology, monitoring the activity of a disease for patients of this category during therapy is an important clinical problem, for the solution of which informative markers are needed. Circulating microRNAs can serve as such markers, which demonstrate diagnostic and prognostic potential in various types of cancer, including prostate cancer. The aim of this study is to search for circulating miRNAs of mCRPC patients plasma during therapy that are potentially associated with the progression of the disease, as well as to study the contribution of these miRNAs to the general progression mechanism. Based on high-throughput sequencing, a bioinformatic analysis was carried out with identification of the microRNA profile potentially associated with the progression of the disease (p-value <0.05): miR-221-3p, miR-99b-3p, miR-145-5p, miR-375-3p, miR-20a-5p, miR-21-5p, miR-451a, miR-199a-5p, miR-183-5p, miR-let-7i-5p and miR-let-7f-5p.

Systems Biology and Biomedicine symposiumThe combined approach to treatment of patients witn chronic ischemia and diabetic foot syndrome

The combined approach to treatment of patients witn chronic ischemia and diabetic foot syndrome

No Comment on The combined approach to treatment of patients witn chronic ischemia and diabetic foot syndrome

Poster (download)

[pdf-embedder url=”https://bgrssb.icgbio.ru/wp-content/uploads/2020/07/248.pdf”]
Mikhail Smagin1, Oleg Shumkov2, Rustam Khapaev3, Mariya Surovtseva4, Olga PoveshСЃhenko5, Vadim Nimaev6
1Research Institute of Clinical and Experimental Lymphology Branch ICG SB RAS, msa85@inbox.ru
2Research Institute of Clinical and Experimental Lymphology Branch ICG SB RAS, shumkov2011@ngs.ru
3Research Institute of Clinical and Experimental Lymphology Branch ICG SB RAS, khapaevrs@bionet.nsc.ru
4Research Institute of Clinical and Experimental Lymphology Branch ICG SB RAS, mfelde@ngs.ru
5Research Institute of Clinical and Experimental Lymphology Branch ICG SB RAS, poveschenkoov@yandex.ru
6Research Institute of Clinical and Experimental Lymphology Branch ICG SB RAS, nimaev@gmail.com

The data of a clinical study on the use of therapeutic angiogenesis in combination with endovascular revascularization in patients with chronic lower limb ischemia and diabetic foot syndrome have been presented. The positive effect of intramuscular administration of autologous mononuclear cells in addition to restoring arterial blood flow by endovascular revascularization is indicated in the long-term period. This is confirmed by an increase in the level of transcutaneous oxygen tension and local perfusion index. The procedures associated with obtaining autologous mononuclear cells from peripheral blood after mobilization or from the bone marrow, their injection into the gastrocnemius muscle are well tolerated by patients; in this sample of patients there were no adverse events. The developed technology of combined, including surgical treatment of chronic lower limb ischemia in diabetic foot syndrome can be recommended for implementation as part of additional randomized clinical trials in patients with a limb-threatening ischemia and diabetic foot syndrome.

Systems Biology and Biomedicine symposiumThe role of NGS in diagnosis of hereditary ophthalmic pathology

The role of NGS in diagnosis of hereditary ophthalmic pathology

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Andrey Marakhonov1, Tatyana Vasilyeva2, Vitaly Kadyshev3, Rena Zinchenko4
1Research Center for Medical Genetics, marakhonov@generesearch.ru
2Research Center for Medical Genetics, valyeva_debrie@mail.ru
3Research Center for Medical Genetics, vvh.kad@gmail.com
4Research Center for Medical Genetics, renazinchenko@mail.ru

Here we discuss the requirements, efficiency, place as well as performance of next generation methods in DNA diagnosis of hereditary ophthalmic diseases.

Systems Biology and Biomedicine symposiumAssociations of methylation level of promoter region of MLH1 gene and genotypes of the exonic rs1799977

Associations of methylation level of promoter region of MLH1 gene and genotypes of the exonic rs1799977

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Nadezhda Babushkina1, Anton Markov2, Irina Goncharova3, Ramil Salakhov4, Iuliia Koroleva5, Anna Postrigan6, Aleksei Zarubin7, Aleksei Sleptcov8, Aksana Kucher9, Maria Nazarenko10
1Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, nad.babushkina@medgenetics.ru
2Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, anton.markov@medgenetics.ru
3Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, irina.goncharova@medgenetics.ru
4Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, ramil.salakhov@medgenetics.ru
5Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, yuliya.koroleva@medgenetics.ru
6Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, postrigan.anna@medgenetics.ru
7Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, aleksei.zarubin@medgenetics.ru
8Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, alexei.sleptcov@medgenetics.ru
9Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, aksana.kucher@medgenetics.ru
10Research Institute of Medical Genetics, TNRMC RAS, Tomsk, Russia, maria.nazarenko@medgenetics.ru

The eQTL SNP in exon 8 of the MLH1 gene rs1799977, may affect the methylation level of the promoter region of the same gene. When studying both the effects of methylation level and individual SNPs on the formation of phenotypic variability in humans and the risk of developing pathological conditions, it is necessary to use a integrated data analysis approach.

Systems Biology and Biomedicine symposiumThe development of compensatory processes in the liver and kidney in conditions of distant tumor growth

The development of compensatory processes in the liver and kidney in conditions of distant tumor growth

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Poster (download)

[pdf-embedder url=”https://bgrssb.icgbio.ru/wp-content/uploads/2020/07/240.pdf”]
Nataliya Bgatova1, Asel Rakhmetova2, Saule Bakhbaeva3, Viktoriia Makarova4, Iuliia Taskaeva5
1Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences,Novosibirsk, Russia, n_bgatova@ngs.ru
2Pavlodar State University; Pavladar, Kazakhsta, asel-rakhmetova@mail.ru
3Pavlodar State University; Pavladar, Kazakhstan, saule0577@mail.ru
4Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences Novosibirsk, Russia, shedina_vika@mail.ru
5Research Institute of Clinical and Experimental Lymphology – Branch of the Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences Novosibirsk, Russia, inabrite@yandex.ru

Development of malignant tumor accompanied endogenous intoxication of an organism having a mixed nature, in particular due to dysfunction of organs detoxification and excretion damaging effect of tumor metabolism. The active process of moving toxic and biologically active substances formed during tumor progression from the primary focus by blood and lymph flow leads to damage of distant organ. The aim of this work was to identify structural changes in the liver and kidney under the conditions of modeling distant tumor growth. For modelingВ  tumor growth, hepatocarcinoma-29 (G-29) cells were used. G-29 cells were injected into the muscle of the right thigh of CBA mice [1]. The material for research was collected after 3, 7, 13, and 30 days of the experiment. The structure of the liver and kidney was studied by the method of light and electron microscopy. Both destructive and compensatory changes in the liver and kidney were revealed in conditions of distant tumor growth. In the liver, a decrease a size of hepatocytes and concentration of organelles, as well as development of autophagy, as a mechanism for maintaining intracellular homeostasis, were noted. In the kidney at the early stages of the development of the tumor growth, structural signs of filtration barrier disorde were shown. Subsequent development of compensatory hypertrophy of podocytes and glomerular capillary endothelium, as well as autophagy in the epithelium of the proximal nephron were noted.