A5089994010- Chromosomal and Genetic Variations
- Genomics and Phylogenetic Studies
- Genomics and Chromatin Dynamics
- Genomic variations and chromosomal abnormalities
- Genetic Mapping and Diversity in Plants and Animals
- Animal Genetics and Reproduction
- RNA and protein synthesis mechanisms
- Plant Molecular Biology Research
- Nutrition, Genetics, and Disease
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- RNA Research and Splicing
- Ion-surface interactions and analysis
- Birth, Development, and Health
- Reproductive Biology and Fertility
- Telomeres, Telomerase, and Senescence
- Genetic Associations and Epidemiology
- Bioinformatics and Genomic Networks
- Plant Gene Expression Analysis
- Cytomegalovirus and herpesvirus research
- Wheat and Barley Genetics and Pathology
- Glaucoma and retinal disorders
- Atherosclerosis and Cardiovascular Diseases
- Neuroendocrine regulation and behavior
- Genetics, Aging, and Longevity in Model Organisms
- Dielectric properties of ceramics
Institute of Cytology and Genetics
2012-2025
Siberian Branch of the Russian Academy of Sciences
2018-2025
Novosibirsk State University
2014-2025
Russian Academy of Sciences
2014-2023
Research Institute of Fundamental and Clinical Immunology
2016
Vasyl' Stus Donetsk National University
2010-2014
The description of the path from a gene to trait, as main task many areas in biology, is currently being equipped with new methods affecting not only experimental techniques, but also analysis results. pleiotropic effect due its participation numerous biological processes involved different traits. A widespread use genome-wide sequencing transcripts and transcription factor (TF) binding regions has made following tasks relevant: unveiling effects TFs based on functions their target genes;...
The fundamental understanding of many biological processes that unfold in a human body has become possible due to experimental studies on animal models. backbone modern biomedical research is the use mouse models for studying important pathophysiological mechanisms, assessing new therapeutic approaches and making decisions acceptance or rejection candidate medicines preclinical trials. mice advantageous because they have small size, are easy keep genetically modify. Mice make up more than 90...
Although half of hypertensive patients have parents, known hypertension-related human loci identified by genome-wide analysis explain only 3% hypertension heredity. Therefore, mainstream transcriptome profiling subjects addresses differentially expressed genes (DEGs) specific to gender, age, and comorbidities in accordance with predictive preventive personalized participatory medicine treating according their symptoms, individual lifestyle, genetic background. Within this paradigm, here, we...
Abstract Efficient de novo motif discovery from the results of wide-genome mapping transcription factor binding sites (ChIP-seq) is dependent on choice background nucleotide sequences. The foreground sequences (ChIP-seq peaks) represent not only specific motifs target factors, but also overrepresented throughout genome, such as simple sequence repeats. We performed a massive comparison ‘synthetic’ and ‘genomic’ approaches to generate for discovery. approach shuffled nucleotides in peaks,...
Synthetic targeted optimization of plant promoters is becoming a part progress in mainstream postgenomic agriculture along with hybridization cultivated plants wild congeners, as well marker-assisted breeding. Therefore, here, for the first time, we compiled all experimental data—on mutational effects proximal on gene expression—that could find PubMed. Some these datasets cast doubt both existence and uniqueness sought solution, which unequivocally estimate promoter mutation expression when...
Belyaev’s concept of destabilizing selection during domestication was a major achievement in the XX century. Its practical value has been realized commercial colors domesticated fox that never occur wild and confirmed wide variety pet breeds. Many human disease models involving animals allow to test drugs before testing. Perhaps this is why investigators doing transcriptomic profiling domestic versus have searched for breed-specific patterns. Here we sequenced hypothalamic transcriptomes...
Mainstream transcriptome profiling of susceptibility versus resistance to age-related diseases (ARDs) is focused on differentially expressed genes (DEGs) specific gender, age, and pathogeneses. This approach fits in well with predictive, preventive, personalized, participatory medicine helps understand how, why, when, what ARDs one can develop depending their genetic background. Within this mainstream paradigm, we wanted find out whether the known ARD-linked DEGs available PubMed reveal a...
It was previously shown that the expression levels of human genes positively correlate with TBP affinity for promoters these genes. In turn, single nucleotide polymorphisms (SNPs) in gene can affect DNA and, as a consequence, expression. The Institute Cytology and Genetics SB RAS (ICG) has developed method predicting based on three-step binding mechanism: (1) slides along DNA, (2) stops at site, (3) TBP-promoter complex is fixed due to helix bending. showed high correlation theoretical...
In plant hormone signaling, transcription factor regulatory networks (TFRNs), which link the master factors to biological processes under their control, remain insufficiently characterized despite crucial function. Here, we identify a TFRN involved in response key auxin and define its impact on auxin-driven processes. To reconstruct TFRN, developed three-step procedure, is based integrated analysis of differentially expressed gene lists representative collection binding profiles. Its...
Korean field mouse (Apodemus peninsulae) shows a wide variation in the number of B chromosomes composed constitutive heterochromatin. For this reason, it provides good model to study influence centromeres and amount heterochromatin on spatial organization interphase nuclei. We analyzed three-dimensional fibroblast spermatocyte nuclei mice carrying different using laser scanning microscopy 3D fluorescence situ hybridization. detected co-localization with basic set. showed non-random...
In most phylogenetic lineages, the evolution of sex chromosomes is accompanied by their heteromorphization and degradation one them. The neo-sex are useful model for studying early stages these processes. Recently two lineages on different was discovered in Pamphagidae family. chromosome analyzed generation DNA probes derived from neo-Xs neo-Ys followed with painting nineteen species homologous regions were determined closely related procedure image analysis application Visualization...
Abstract Background In population ecology, the concept of reproductive potential denotes most vital indicator chances to produce and sustain a healthy descendant until his/her maturity under best conditions. This links quality life longevity an individual with disease susceptibilities encoded by genome. Female has been investigated deeply, widely, comprehensively in past, but male one not received equal amount attention. Therefore, here we focused on human Y chromosome found candidate...
Genetic causes of the global decline in male fertility are among hot spots scientific research reproductive genetics. The most common way to evaluate clinical trials is determine semen quality. Lower quality very often accompanied by subfertility or infertility, occurs many diseases and can be caused factors, including genetic ones. following forms lowered (pathozoospermia) known: azoospermia, oligozoospermia, asthenozoospermia, teratozoospermia, some combined forms. To systematize...
Having DNA-binding profiles for a sufficient number of genome-encoded transcription factors (TFs) opens up the perspectives systematic evaluation upstream regulators gene lists. Plant Cistrome database, large collection TF binding detected using DAP-seq method, made it possible Arabidopsis. Here we re-processed raw data with MACS2, most popular peak caller that leads among other ones according to quality metrics. In benchmarking study, confirmed improved supported more precise list...
It is generally accepted that during the domestication of food plants, selection was focused on their productivity, ease technological processing into food, and resistance to pathogens environmental stressors. Besides, palatability plant foods health benefits could also be subjected by humans in past. Nonetheless, it unclear whether antiquity, aside from positive for beneficial properties simultaneously selected against such detrimental as allergenicity. This topic becoming increasingly...
Telomere length is an important indicator of proliferative cell history and potential. Decreasing telomere in the cells immune system can indicate aging immune-mediated chronic inflammatory diseases. Quantitative fluorescent situ hybridization (Q-FISH) a labeled (C 3 TA[Formula: see text] peptide nucleic acid probe onto fixed metaphase followed by digital image microscopy allows evaluation arms individual chromosomes. Computer-assisted analysis microscopic images provide quantitative...
Earlier, after our bioinformatic analysis of single-nucleotide polymorphisms TATA-binding protein-binding sites within gene promoters on the human Y chromosome, we suggested that reproductive potential diminishes during self-domestication. Here, implemented bioinformatics models diseases using animal in vivo genome-wide RNA-Seq data to compare effect co-directed changes expression orthologous genes and divergence domestic wild animals from their nearest common ancestor (NCA). For example,...
Atherosclerosis is a systemic disease in which focal lesions arteries promote the build-up of lipoproteins and cholesterol they are transporting. The development atheroma (atherogenesis) narrows blood vessels, reduces supply leads to cardiovascular diseases. According World Health Organization (WHO), diseases leading cause death, has been especially boosted since COVID-19 pandemic. There variety contributors atherosclerosis, including lifestyle factors genetic predisposition. Antioxidant...
The animal models used in biomedical research cover virtually every human disease. RatDEGdb, a knowledge base of the differentially expressed genes (DEGs) rat as model object is collection published data on gene expression strains simulating arterial hypertension, age-related diseases, psychopathological conditions and other afflictions. current release contains information 25,101 DEGs representing 14,320 unique that change transcription levels 21 tissues 10 genetic 11 diseases based 45...
Программа анализа геномного распределения хромосомных контактов в ядре клетки по данным, полученным технологиям ChIA-PET и Hi-C Аннотация.В связи с ростом объемов данных геномики о положении сайтов связывания транскрипционных факторов, контактах, аннотации геномных характеристик, полученных помощью современных технологий секвенирования, растет потребность разработке нового программного обеспечения для их статистической обработки анализа.Рассмотрены технологии получения программы...
The study spatial chromosome structure and folding in the interphase cell nucleus is an important challenge of world science. Detection eukaryotic genome regions that physically interact with each other could be done by modern sequencing technologies. A basic method total contacting DNA fragments HI-C. Long-range chromosomal interactions play role gene transcription regulation. interactions, 3D (three-dimensional) its effect on allows revealing fundamental biological processes from a...
We address the problem of annotation CpG islands (CGIs) clusters in human genome. Upon analyzing gene content within CGIs clusters, piRNA, tRNA, and miRNA-encoding genes were found as well CpG-rich homeobox reported previously. Chromosome-wide CGI density is positively correlated with replication timing, confirming that may serve open chromatin markers. Early embryonic stage expressed KRAB-ZNF abundant at chromosome 19 to be interlinked clusters. detected a number long are, fact, tandem...
Efficient de novo motif discovery from the results of wide-genome mapping transcription factor binding sites (ChIP-seq) is dependent on choice background nucleotide sequences. The foreground sequences (peaks) represent not only specific motifs target factors, but also overrepresented throughout genome, such as simple sequence repeats. We performed a massive comparison synthetic and genomic approaches to generate for discovery. approach shuffled nucleotides in peaks, while randomly selected...