2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB)最新文献_第2页

Inverse modeling of diffusion-reaction processes with image-type measurement data 用图像型测量数据对扩散反应过程进行逆建模

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544885

A. Penenko, Z. Mukatova

引用次数: 1

Visible light-triggered nitric oxide donors for applications in biology and medicine 可见光触发的一氧化氮供体在生物学和医学上的应用

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544806

A. Vorob’ev, T. Dranova, A. Moskalensky

引用次数: 2

Resting State EEG as an Indicator of Cognitive Training Effect in Older Adults 静息状态脑电图作为老年人认知训练效果的指标

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544796

N. Volf, E. Privodnova, N. Volf

{"title":"Resting State EEG as an Indicator of Cognitive Training Effect in Older Adults","authors":"N. Volf, E. Privodnova, N. Volf","doi":"10.1109/CSGB.2018.8544796","DOIUrl":"https://doi.org/10.1109/CSGB.2018.8544796","url":null,"abstract":"Although there are common principles that can be demonstrated in cognitive aging, enormous variability exists across individuals. Among other factors inter-individual variability is attributable to involvement in mental activity. The purpose of this study is to outline the changes of resting state EEG in aged men and women associated with difference in intellectual environment of their professional activity. Elderly (age 63.8, N=112) scientists (SA) and people unrelated to professional scientific activity (NSA) participated in the study. All subjects were employed full time. EEG was recorded from 26 symmetrical regions of the hemispheres in a states with closed and with open eyes. Power spectral density was calculated in delta, theta, alpha 1, 2, 3, beta 1, 2 and gamma frequency ranges. The bandwidths for the frequency bands were defined using individual alpha peak frequency as the anchor point. In condition with closed eyes, ANOVA revealed significant gender × frequency band × region × group (SA, NSA) interaction. Testing of interaction demonstrated effects in alpha 2, 3 rhythms power characterized by opposite changes of antero-posterior spectral power gradients in SA and NSA groups of men and women. There was no difference between SA and NSA groups in frontal power density. Among women members of SA group had lower posterior power than those of NSA group. In eyes open condition, significant asymmetry due to higher power values in right in comparison with left hemisphere in frontal region was found in SA group. Asymmetry of power values was not revealed in NSA.","PeriodicalId":230439,"journal":{"name":"2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\\Systems Biology (BGRS\\SB)","volume":"47 5 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126008128","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

The effect of 5-HTTLPR on EEG reactions among Yakuts and Russians during the recognition of emotionally colored verbal stimuli 5-HTTLPR对雅库特人和俄罗斯人识别情绪性色彩言语刺激时脑电反应的影响

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544755

T. Ayusheeva, S. Tamozhnikov, A. Karpova, A. Saprygin, N. Borisova, A. Savostyanov

引用次数: 1

Evolutionary Computations and Modular Organization of the Gene Regulatory Regions 基因调控区的进化计算和模块化组织

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544738

A. Spirov, E. Myasnikova

{"title":"Evolutionary Computations and Modular Organization of the Gene Regulatory Regions","authors":"A. Spirov, E. Myasnikova","doi":"10.1109/CSGB.2018.8544738","DOIUrl":"https://doi.org/10.1109/CSGB.2018.8544738","url":null,"abstract":"Modular organization of gene regulatory regions (promoters and enhancers) is crucial for our understanding of the gene functioning and evolution. In the area of Evolutionary Computations, inspired by the ideas and concepts from evolutionary biology, it was paid a special attention to the theoretical foundations for the evolutionary search efficacy. These were Schema theorem and Building block hypothesis (by J. Holland) that laid the foundation for this area. On the way to further develop the theory, the Royal Road functions (RRFs) were introduced and comprehensively studied. Here we are considering some case-studies of the modular gene regulatory regions which could be treated as RRFs implementations in directed molecular evolution (SELEX, etc.). Analytical tools from different math fields gave possibilities for van Nimwegen with co-authors to develop a detailed and quantitative description of the search dynamics for the RRF class of problems. The approach bridges evolutionary computations from benchmark cases, such as RRF, which are well-understood theoretically, to biological cases, which can serve as a basis for more efficient directed molecular evolution in the test tube. By introducing crossover operators that perform well on RRFs, we are developing computational techniques to deal with the real design problems for bacterial promoters. In particular, we are introducing crossover operators that work like retroviral or \"sexual\" PCR recombination. We found that our algorithms are capable to achieve the efficacy of the evolutionary search substantially higher than standard EC. Computational theory from EC can contribute to both understanding how real gene structures have evolved and to speeding up laboratory work on directed evolution of promoters and other gene regulatory elements.","PeriodicalId":230439,"journal":{"name":"2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\\Systems Biology (BGRS\\SB)","volume":"432 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122825113","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

USING HORIZONTALLY SCALE INFRASTRUCTURE IN SEARCHING FOR SIMILARITY IN GENOME DATA OF ECOSYSTEMS 利用水平尺度基础设施搜索生态系统基因组数据的相似性

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544736

A. Tskhai, S. Murzintsev

{"title":"USING HORIZONTALLY SCALE INFRASTRUCTURE IN SEARCHING FOR SIMILARITY IN GENOME DATA OF ECOSYSTEMS","authors":"A. Tskhai, S. Murzintsev","doi":"10.1109/CSGB.2018.8544736","DOIUrl":"https://doi.org/10.1109/CSGB.2018.8544736","url":null,"abstract":"For the processing of reference information (for example, from ENSEMBL, GenBank, KEGG), namely: rapid comparison of genomes of organisms in order to discover recurring sets of nucleotides, a special-purpose computer system has been developed. Due to the large amount of data that appears during the processing of the source information, a transition to non-relational databases has been made, as more flexible and scalable. The distributed non-relational DB MongoDB and the algorithm of data processing Winnowing were used as the basis of the approach. When using a non-relational database to identify genetic similarity, was proposed the option of submitting the prints of structural genomic variations in the form of \"key-value\". The software implementation of the developed model was implemented. Computing experiments were performed: (1) loading data into a database using one and three shards (servers where the data is stored and the information is searched and processed); (2) search for coincidences of genomes with DB of genomes using one and three shards; (3) calculation of the speed of searching for genomes in the database; (4) calculation of the rate of loading of genomes in the database. The result of the experiments was confirmation of the possibility of using the proposed method of searching for genetic similarity, for example, for using in analysis of deviations at the gene level. The continuation of the work can be carried out in the following directions: (1) solving the problem of determining the moment when it is necessary to add a node to the cluster with increasing the number of deviations considered and increasing the number of genomes in the DB of organisms; (2) study of genomic disorders to assess the probability of genetic abnormalities at the at the recognition stage of the potentially possible unfavorable development of the situation.","PeriodicalId":230439,"journal":{"name":"2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\\Systems Biology (BGRS\\SB)","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115703254","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Empagliflozin and linagliptin ameliorate podocyte injury and enhance autophagy in a model of type 2 diabetic nephropathy 恩格列净和利格列汀改善2型糖尿病肾病模型足细胞损伤和增强自噬

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544785

A. Korbut, V. Klimontov, Iuliia S. Taskaeva, N. Bgatova, E. Zavyalov

{"title":"Empagliflozin and linagliptin ameliorate podocyte injury and enhance autophagy in a model of type 2 diabetic nephropathy","authors":"A. Korbut, V. Klimontov, Iuliia S. Taskaeva, N. Bgatova, E. Zavyalov","doi":"10.1109/CSGB.2018.8544785","DOIUrl":"https://doi.org/10.1109/CSGB.2018.8544785","url":null,"abstract":"Podocyte injury is believed to be a cornerstone in pathogenesis of diabetic kidney disease. Recent data indicate emerging role of autophagy downregulation in diabetic podocytopathy. Inhibitors of SGLT2 and DPP4 are considered as promising therapeutic agents in diabetic nephropathy. We aimed to assess the effects of SGLT2 inhibitor empagliflozin and DPP4 inhibitor linagliptin on podocyte injury and autophagy in a model of type 2 diabetes. Eight-week-old male db/db mice were treated with empagliflozin (10 mg/kg), linagliptin (10 mg/kg), combination of these agents, or placebo for 8 weeks. Non-diabetic db/+ mice were acted as control. Renal changes were analyzed from the light and electron microscopy. To estimate autophagy, beclin-1 staining in glomeruli and the number of autophagosomes, lysosomes, and autolysosomes in a section of a podocyte were assessed by immunohistochemistry and electron microscopy, respectively. Diabetic db/db mice became obese and hyperglycemic before the start of experiment and demonstrated elevated levels of leptin and insulin and increased fat percentage (all p<0.00001). Vehicle-treated diabetic mice had weak staining for beclin-1 in glomeruli and reduced autophagosome number in podocytes. Beclin-1-positive area correlated with the number of autophagosomes and lysosomes (both r=0.43, p=0.04) and mean width of foot processes (r=-0.64, p=0.0008). Under the treatment, glomerular staining for beclin-1 was increased (p=0.03 for empagliflozin, p=0.008 for linagliptin, p=0.003 for combination). Empagliflozin and linagliptin, either alone or both, increased the number of autophagosomes (p=0.04) and autolysosomes (p=0.03) in podocytes. The data provide further explanation for the mechanism of nephroprotective effect of SGLT2 and DPP4 inhibitors in diabetes.","PeriodicalId":230439,"journal":{"name":"2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\\Systems Biology (BGRS\\SB)","volume":"73 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129563535","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Modified Sorbents for Pharmacology 修饰的药理学吸附剂

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544763

Yuriy I. Borodin, L. N. Rachkovskaya, T. Popova, A. Kotlyarova, S. Michurina, A. Shurlygina, Edmund E. Rachkovskiy, M. V. Robinson, P. Madonov, M. Korolev, A. Letyagin, V. Konenkov

引用次数: 0

The connection between the resting-state EEG and the allelic polymorphism of serotonin transporter (5-HTTLPR) among Yakuts and Russians 雅库特人和俄罗斯人静息状态脑电图与5-HTTLPR等位基因多态性的关系

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544742

A. Savostyanov, S. Tamozhnikov, A. Karpova, A. Saprygin, D. Bazovkina, E. Proshina

引用次数: 0

MicroRNA in Lymph in Experimental Breast Cancer 实验性乳腺癌淋巴中的MicroRNA

2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB) Pub Date : 2018-08-01 DOI: 10.1109/CSGB.2018.8544812

A. Kabakov, O. Kazakov, A. Poveshchenko, A. Lykov, T. Reiter, D. N. Strunkin, L. F. Gulyaeva, V. Konenkov

{"title":"MicroRNA in Lymph in Experimental Breast Cancer","authors":"A. Kabakov, O. Kazakov, A. Poveshchenko, A. Lykov, T. Reiter, D. N. Strunkin, L. F. Gulyaeva, V. Konenkov","doi":"10.1109/CSGB.2018.8544812","DOIUrl":"https://doi.org/10.1109/CSGB.2018.8544812","url":null,"abstract":"Breast cancer (BC) is the leading cause of cancer death in women worldwide due to the complicated etiology involving both genetic and environmental factors. Objective: To study the expression levels of miRNAs (-21, -221, -222, -429) in lymph in Wistar female rats in chemically induced breast cancer, resection and chemotherapy of breast cancer. Methods-The histological type of BC, the phenotype of BC cells, the level of mIRNAs expression in lymph was studied. Results-MNU-induced breast cancer in animal has ER-/PG+/Her2/neu- phenotype and therefore has common feature with human luminal A subtype of breast cancer. In the breast cancer group, lymphomas significantly increased the levels of miRNA-21 and miRNA-221 expression compared to the control group. After chemotherapy, the expression levels of miRNA-21 and miRNA-221 were significantly reduced compared to the BC group. In the BC group, the expression levels of miRNA-429 are significantly reduced compared to the control group. After chemotherapy, the expression of miRNA-429 is significantly increased in comparison with the BC group. Conclusion-In lymph miRNA-21 and miRNA-221 are diagnostic-relevant tumor markers. MicroRNA-429 is diagnostic-relevant marker of the chemotherapy effectiveness.","PeriodicalId":230439,"journal":{"name":"2018 11th International Multiconference Bioinformatics of Genome Regulation and Structure\\Systems Biology (BGRS\\SB)","volume":"20 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125898374","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1