The structure of the cytokine gene network in uterine fibroids

Poster (download) Viktor Prokofiev1, Alla Shevchenko2, Vladimir Konenkov3, Nikolay Orlov4, Elena Koroleva5, Alexey Novikov61Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, vf_prok@mail.ru2Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, shalla64@mail.ru3Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, vikonenkov@gmail.com4Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, nbo700@mail.ru5Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, lymphology@niikel.ru6Research Institute of Clinical and Experimental LymСЂhology – Branch of the Institute of Cytology and Genetics SB RAS Novosibirsk, Russia, novis.ngmu@gmail.com The structure of 166416 gene chains of various dimensions consisting of multilocus combinations of genes of 12 polymorphic sites forming a cytokine gene network associated with the development of uterine fibroids (UF) was studied.В  Using the Cytoscape bioinformation platform, computer modeling of network interactions of cytokine genotypes of various nature involved in the regulation of inflammation, angiogenesis, destruction and remodeling of connective tissue involved in the pathogenesis of polygenic diseases, including UF, was carried out.В  An analysis of the topology of this gene network made it possible to identify the main genes and the main intergenic interactions that make the greatest contribution to the development of UF.В  In our opinion, 3 polymorphisms can act as the main genes: IL1B-31TC, VEGF + 936CT and IL10-592CA.В  These genes form the main nodes in the gene network because they have the largest number of interactions with other genes, which account for 55% of all pair interactions in the gene network, which forms a predisposition to the development of UF.

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Reconstruction and Analysis of Regulatory Gene Networks Involving Human Genes Associated with Main Forms of Pathozoospermia

Poster (download) Elena V. Ignatieva1, Alexander V. Osadchuk2, Maxim A Kleshev3, Ludmila V. Osadchuk41The Federal Research Center Institute of Cytology and Genetics, SB RAS, eignat@bionet.nsc.ru2The Federal Research Center Institute of Cytology and Genetics, SB RAS, osadchuk@bionet.nsc.ru3The Federal Research Center Institute of Cytology and Genetics, SB RAS, max82cll@bionet.nsc.ru4The Federal Research Center Institute of Cytology and Genetics, SB RAS, losadch@bionet.nsc.ru The study of the molecular-genetic mechanisms predisposing to decline in male reproductive potential (spermatogenic failure) is an actual problem of reproductive biology. Most often in laboratory studies evaluating male fertility, a study of the quality of ejaculate is used. Thus, a pathological condition called pathozoospermia can be detected if the quality indicators of the ejaculate are decreased. Pathozoospermia can manifest itself in several distinct forms, may occur in many diseases and can be caused by many factors, including genetic ones. To reveal regulatory interactions between genes associated with pathozoospermia, we reconstructed gene regulatory network involving genes harboring allelic variants associated with pathozoospermia. Regulatory network comprised seven genes encoding transcription factors (TFs) for which a set of target genes were predicted by MoLoTool web-service. We identified three key regulatory transcription factors (WT1, AHR, NR0B1) that have the greatest number of target genes in the network. Genes encoding these factors can be considered as the most promising candidate genes for identifying genetic variants associated with pathozoospermia.

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OrthoWeb – web application for macro- and microevolutionary analysis of genes

Poster (download) Zakhar Mustafin, Alexey Mukhin, Dmitry Afonnikov, Yury Matushkin, Sergey Lashin11Kurchatov Genomics Center, ICG SB RAS, Novosibirsk, Russia, mustafinzs@bionet.nsc.ru Problems of macro- and microevolution remain key problems of biology. Phylostratigraphic analysis became one of the most popular methods for studying macroevolutionary characteristic of genes. It is based on estimation of the divergence time among orthologous genes. Along with methods of microevolutionary analysis (for example, dN/dS ratio estimation), phylostratigraphic methods are increasingly included into the methodological arsenal of evolutionary bioinformatics. There are some software packages used for computational analysis of the evolution by using different phylostratigraphic and microevolutionary indices, but they require users to know some additional software or programming languages. Here we present OrthoWeb software to calculate such indices using web browser only.

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