A5037933008- RNA and protein synthesis mechanisms
- Genetic Associations and Epidemiology
- RNA modifications and cancer
- Epigenetics and DNA Methylation
- Genomics and Chromatin Dynamics
- Animal Genetics and Reproduction
- Nutrition, Genetics, and Disease
- Circadian rhythm and melatonin
- RNA Research and Splicing
- Cancer Genomics and Diagnostics
- Plant Molecular Biology Research
- Cancer-related molecular mechanisms research
- Peroxisome Proliferator-Activated Receptors
- Oil Palm Production and Sustainability
- Genetic Mapping and Diversity in Plants and Animals
- Immunodeficiency and Autoimmune Disorders
- Genomics and Phylogenetic Studies
- Wheat and Barley Genetics and Pathology
- Hemoglobinopathies and Related Disorders
- Genetic factors in colorectal cancer
- interferon and immune responses
- Bioinformatics and Genomic Networks
- T-cell and B-cell Immunology
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Forensic and Genetic Research
Institute of Cytology and Genetics
2010-2024
Siberian Branch of the Russian Academy of Sciences
2011-2023
University of La Verne
2017-2020
University of Southern California
2015-2017
Children's Hospital of Los Angeles
2015-2017
Russian Academy of Sciences
2008-2016
Novosibirsk State University
2008-2016
Center for Systems Biology
2014
University of California, San Diego
2014
Human genome sequencing has resulted in a great body of data, including stunningly large number single nucleotide polymorphisms (SNPs) with unknown phenotypic manifestations. Identification and comprehensive analysis regulatory SNPs human gene promoters will help quantify the effects these on health. Based our experimental computer-aided study TATA boxes use literature we have derived an equation for TBP/TATA equilibrium binding three successive steps: TATA-binding protein (TBP) sliding...
The advent of rapid and inexpensive DNA sequencing has led to an explosion data waiting be transformed into knowledge about genome organization function. Gene prediction is customarily the starting point for analysis. This paper presents a bioinformatics study oil palm genome, including comparative genomics analysis, database tools development, mining biological genes interest. We have annotated 26,059 integrated from two independent gene-prediction pipelines, Fgenesh++ Seqping. annotation...
The use of biomedical SNP markers diseases can improve effectiveness treatment. Genotyping patients with subsequent searching for SNPs more frequent than in norm is the only commonly accepted method identification within framework translational research. bioinformatics applications aimed at millions unannotated “1000 Genomes” make this search focused and less expensive. We used our Web service involving Fisher’s<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"...
Obesity affects quality of life and expectancy is associated with cardiovascular disorders, cancer, diabetes, reproductive disorders in women, prostate diseases men, congenital anomalies children. The use single nucleotide polymorphism (SNP) markers drug responses (i.e., significant differences personal genomes patients from the reference human genome) can help physicians to improve treatment. Clinical research validate SNP via genotyping demonstration that alleles are significantly more...
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...
Aggressiveness in humans is a hereditary behavioral trait that mobilizes all systems of the body—first all, nervous and endocrine systems, then respiratory, vascular, muscular, others—e.g., for defense oneself, children, family, shelter, territory, other possessions as well personal interests. The level aggressiveness person determines many characteristics quality life lifespan, acting stress factor. Aggressive behavior depends on parameters such age, gender, diseases treatment, diet,...
Some variations of human genome [for example, single nucleotide polymorphisms (SNPs)] are markers hereditary diseases and drug responses. Analysis them can help to improve treatment. Computer-based analysis millions SNPs in the 1000 Genomes project makes a search for SNP more targeted. Here, we combined two computer-based approaches: DNA sequence keyword databases. In binding sites TATA-binding protein (TBP) gene promoters, found candidate gender-biased autoimmune diseases, including...
The progress of medicine, science, technology, education, and culture improves, year by year, quality life expectancy the populace. modern human has a chance to further improve duration his/her lives loved ones bringing their lifestyle in line with sequenced individual genomes. With this mind, one genome-based developments at junction personalized medicine bioinformatics will be considered work, where we used two Web services: (i) SNP_TATA_Comparator search for alleles single nucleotide...
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...
While year after year, conditions, quality, and duration of human lives have been improving due to the progress in science, technology, education, medicine, only eight diseases increasing prevalence shortening because premature deaths according retrospective official review on state US health, 1990-2010. These are kidney cancer, chronic diseases, liver diabetes, drug addiction, poisoning cases, consequences falls, Alzheimer's disease (AD) as one leading pathologies. There familial AD...
Plant hormone auxin is a key regulator of growth and development. Auxin affects gene expression through ARF transcription factors, which bind specifically responsive elements (AuxREs). genes usually have more than one AuxRE, for example, widely used sensor DR5 contains seven AuxREs. regions several plant been studied using sets transgenic constructions in the activity or AuxREs were abolished. Here we present method analysis datasets on promoter assays having sequences, namely, number...
Auxin is one of the main regulators growth and development in plants. Prediction auxin response based on gene sequence high importance. We found TGTCNC consensus 111 known natural artificially mutated elements (AuxREs) with measured auxin-caused relative increase genes' transcription levels, so-called either "a to auxin" or "an response." This was identical most cited AuxRE motif. Also, we several DNA features that correlate namely: number matches TGTCNC, homology score nucleotide...
Variations in human genome (e.g., single nucleotide polymorphisms, SNPs) may be associated with hereditary diseases, their complications, comorbidities, and drug responses. Using Web service SNP_TATA_Comparator presented our previous paper, here we analyzed immediate surroundings of known SNP markers diseases identified several candidate that can significantly change the affinity TATA-binding protein for gene promoters, circadian consequences. For example, rs572527200 related to asthma,...
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...
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...
Evolutionary trends have been examined in 146 HIV-1 forms (2662 copies, 2311 isolates) polymorphic for the TATA box using "DNA sequence-->affinity TBP" regression (TBP is binding protein). As a result, statistically significant excess of low-affinity variants corresponding to low level both basal and TAT-dependent expression and, consequently, slow replication detected. A detailed analysis revealed that slowly replicating associated with subtype E-associated core sequence "CATAAAA"....
When messenger RNA splicing occurs co-transcriptionally, the potential for kinetic control based on transcription dynamics is widely recognized. Indeed, perturbation studies have reported that when kinetics are perturbed genetically or pharmacologically splice patterns may change. However, whether contributing to of within normal range physiological conditions remains unknown. We examined if determinants co-transcriptional (CTS) might be reflected in structure and expression genome...
We proposed the following heuristic decision-making rule: "IF {an excess of a protein relating to nervous system is an experimentally known physiological marker low pain sensitivity, fast postinjury recovery, or aggressive, risk/novelty-seeking, anestheticlike, similar agonistic-intolerant behavior} AND IF {a single nucleotide polymorphism (SNP) causes overexpression gene encoding this protein} THEN {this SNP can be bias in dominance} WHILE {underexpression corresponds subordination} vice...