A5040640462- RNA modifications and cancer
- RNA Research and Splicing
- Cancer-related molecular mechanisms research
- RNA and protein synthesis mechanisms
- Protein Structure and Dynamics
- Circular RNAs in diseases
- Genomics and Phylogenetic Studies
- MicroRNA in disease regulation
- Enzyme Structure and Function
- Molecular Biology Techniques and Applications
- Machine Learning in Bioinformatics
- Insect-Plant Interactions and Control
- Insect and Pesticide Research
- Glycosylation and Glycoproteins Research
- Single-cell and spatial transcriptomics
- Insect symbiosis and bacterial influences
- Chemical Synthesis and Analysis
- Chromosomal and Genetic Variations
- Marine Biology and Environmental Chemistry
- T-cell and Retrovirus Studies
- Neurobiology and Insect Physiology Research
- Zebrafish Biomedical Research Applications
- Epigenetics and DNA Methylation
- Plant Disease Resistance and Genetics
- Analytical Chemistry and Chromatography
Vavilov Institute of General Genetics
2014-2024
Institute of Higher Nervous Activity and Neurophysiology
2020-2024
Engelhardt Institute of Molecular Biology
2013-2023
Research Institute of General Pathology and Pathophysiology, the Russian Academy of Medical Sciences
2021-2022
Moscow Institute of Physics and Technology
2018
Russian Academy of Sciences
2015
Genetika
2010
Abstract Neural crest cells are highly multipotent stem cells, but it remains unclear how their fate restriction to specific fates occurs. The direct model hypothesises that migrating maintain full multipotency, whilst progressive envisages fully transitioning partially-restricted intermediates before committing individual fates. Using zebrafish pigment cell development as a model, we show applying NanoString hybridization single transcriptional profiling and RNAscope in situ neural retain...
The fundamental mission of the Chromosome-Centric Human Proteome Project (C-HPP) is research human proteome diversity, including rare variants. Liver tissues, HepG2 cells, and plasma were selected as one major objects for C-HPP studies. proteogenomic approach, a recently introduced technique, powerful method predicting validating proteoforms coming from alternative splicing, mutations, transcript editing. We developed PPLine, Python-based pipeline providing automated single-amino-acid...
Our work aimed to differentiate 20 aberrantly methylated miRNA genes that participate at different stages of development and metastasis ovarian carcinoma (OvCa) using methylation-specific qPCR in a representative set clinical samples: 102 primary tumors without with metastases (to lymph nodes, peritoneum, or distant organs) 30 peritoneal macroscopic (PMM). Thirteen (MIR107, MIR124-2, MIR124-3, MIR125B-1, MIR127, MIR129-2, MIR130B, MIR132, MIR193A, MIR339, MIR34B/C, MIR9-1, MIR9-3) were...
SSAP method was used to study the genetic diversity of 22 Linum species from sections Linum, Adenolinum, Dasylinum, Stellerolinum, and 46 flax cultivars. All studied varieties were distinguished using for retrotransposons FL9 FL11. Thus, validity demonstrated marking, identification accessions in genebank collections, control during propagation varieties. Polymorphism Fl1a, Fl1b, Cassandra insertions very low varieties, but these successfully investigation species. Species clusterization...
General and specific effects of molecular genetic responses to adverse environmental factors are not well understood. This study examines genome-wide gene expression profiles Drosophila melanogaster in response ionizing radiation, formaldehyde, toluene, 2,3,7,8-tetrachlorodibenzo-p-dioxin. We performed RNA-seq analysis on 25,415 transcripts measure the change males females separately. An genes unique each treatment yielded a list as signature. In case radiation exposure, both sexes exhibited...
Long-read transcriptome sequencing provides us with a convenient tool for the thorough study of biological processes such as neuronal plasticity. Here, we aimed to perform transcriptional profiling rat hippocampal primary neuron cultures after stimulation picrotoxin (PTX) further understand molecular mechanisms activation. To overcome limitations short-read RNA-Seq approaches, performed an Oxford Nanopore Technologies MinION-based long-read and assembly culture mRNA at three time points PTX...
Ovarian cancer (OC) is one of the most common types among malignancies female reproductive system. This pathology asymptomatic until advanced stages and has a poor prognosis. Our study aimed to search for lncRNA-miRNA-mRNA competing triplets that promote ovarian tumorigenesis. For this purpose, we analyzed tumor samples from TCGA database verified results experimentally in set 46 paired matched histologically unchanged tissues OC patients. The list RNAs selected silico experimental studies...
It is generally accepted that most evolutionary transformations at the phenotype level are associated either with rearrangements of genomic regulatory elements, which control activity gene networks, or changes in amino acid contents proteins. Recently, evidence has accumulated significant could also be loss/emergence whole genes. The targeted identification such genes a challenging problem for both bioinformatics and evo-devo research.To solve this we propose WINEGRET method, named after...
Abstract In the course of sample preparation for Next Generation Sequencing (NGS), DNA is fragmented by various methods. Fragmentation shows a persistent bias with regard to cleavage rates dinucleotides. With exception CpG dinucleotides previously described biases were consistent results in solution. Here we computed all including methylated and unmethylated using data Whole Genome datasets 1000 Genomes project. We found that rate significantly higher Using this information, developed...
The vestibular system receives a permanent influence from gravity and reflexively controls equilibrium. If we assume has remained constant during the species' evolution, will its sensory adapt to abrupt loss of that force? We address this question in land snail Helix lucorum exposed 30 days near weightlessness aboard Bion-M1 satellite, studied geotactic behavior postflight snails, differential gene expressions statocyst transcriptome, electrophysiological responses mechanoreceptors applied...
Abstract Neural crest cells (NCCs) are highly multipotent stem cells. A long-standing controversy exists over the mechanism of NCC fate specification, specifically regarding presence and potency intermediate progenitors. The direct restriction (DFR) model, based on early in vivo clonal studies, hypothesised that intermediates absent migrating maintain full multipotency 1–6 . However, most authors favour progressive (PFR) models, with fully NCCs (ENCCs) transitioning to partially-restricted...
Endogenous hot spots of DNA double-strand breaks (DSBs) are tightly linked with transcription patterns and cancer. There nine DSBs (denoted Pleiades) in human rDNA units that located exclusively inside the intergenic spacer (IGS). Profiles Pleiades coincide profiles γ-H2AX, suggesting a high level vivo breakage genes. The data were confirmed by microscopic observation largest γ-H2AX foci nucleoli interphase chromosomes. Circular chromosome conformation capture (4C) indicate often make...
Empirical potentials for interaction of proteins with intracellular ions are presented. We derive the using a training dataset protein 3D structure bank, PDB, based on statistical analysis contacts between and atoms different types. The derived Monte Carlo Reference State, simulating non-interacting elements as random points in space. resulting detailed, continuous, cover wide range contact distances. obtained were tested prediction ion-binding sites shown to reproduce locations...
White, Barents, North, and Baltic Seas.
Experimental modelling of the microbiota a biocontrol population predatory mite, Neoseiulus californicus bred on spider Tetranychus urticae was carried out to both eliminate bacterial pathogens and increase viability mite line. We produced an isofemale line N. BioDefence2 derived with optimised BioDefence3. The by sequential treatment tetracycline pathogenic bacteria, followed probiotic bacterium, Bacillus subtilis restore microbiotas BioDefence3 lines were compared using metagenomic 16S...
Abstract: Our work aimed to evaluate and differentiate the role of ten lncRNA genes (GAS5, HAND2-AS1, KCNK15-AS1, MAGI2-AS3, MEG3, SEMA3B-AS1, SNHG6, SSTR5-AS1, ZEB1-AS1, ZNF667-AS1) in development progression epithelial ovarian cancer (EOC). A representative set clinical samples was used: 140 primary tumors from patients without with metastases 59 peritoneal metastases. Using MS-qPCR, we demonstrated an increase methylation levels all compared normal tissues (p < 0.001). RT-qPCR, showed...
Ovarian cancer (OC) develops asymptomatically and escapes diagnosis until advanced stages, the feature contributing to a higher mortality rate. New prospects of OC treatment have been opened in studies gene regulation mechanisms that involve long noncoding RNAs (lncRNAs) identification lncRNA genes are inhibited via methylation promoter region. A set 122 samples primary tumors was examined by specific real-time PCR assess level PLUT, SNHG1, SNHG6, SNHG12, TINCR. significant increase their...