A5021983715- Advanced Proteomics Techniques and Applications
- Mass Spectrometry Techniques and Applications
- RNA and protein synthesis mechanisms
- Metabolomics and Mass Spectrometry Studies
- RNA regulation and disease
- RNA modifications and cancer
- RNA Research and Splicing
- Genomics and Phylogenetic Studies
- Molecular Biology Techniques and Applications
- Bioinformatics and Genomic Networks
- CRISPR and Genetic Engineering
- Cancer Genomics and Diagnostics
- Gene expression and cancer classification
- Machine Learning in Bioinformatics
- Ubiquitin and proteasome pathways
- interferon and immune responses
- Nicotinic Acetylcholine Receptors Study
- Enzyme Structure and Function
- Advanced Biosensing Techniques and Applications
- RNA Interference and Gene Delivery
- Ion channel regulation and function
- Amyloidosis: Diagnosis, Treatment, Outcomes
- vaccines and immunoinformatics approaches
- Virus-based gene therapy research
- Computational Drug Discovery Methods
Pirogov Russian National Research Medical University
2015-2025
Institute of Biomedical Chemistry
2012-2024
Federal Medical-Biological Agency
2024
Institute for Interdisciplinary Medicine
2024
Federal Research and Clinical Center of Physical-Chemical Medicine named after Y.M. Lopukhin
2020-2023
Russian Academy of Sciences
2002-2014
Academy of Medical Sciences
2009-2012
In this study, to reduce the number of major plasma components, we examined thermostable fractions search for a biomarker ovarian cancer. An apparent cancer 11.7 kDa was detected in these using ProteinChip SELDI-TOF mass spectrometry system. This peak invariably appeared with another close about 11.5 kDa, suggesting that it is derivative larger molecule. Of 27 specimens, 15 (55.6%) demonstrated pair, whereas only 2 34 controls specimens (5.8%) were shown express low intensity. Using method...
Psoriasis is complex inflammatory skin pathology of autoimmune origin. Several cell types are perturbed in this pathology, and underlying signaling events still poorly understood.In order to gain insight into molecular machinery the disease, we conducted a comprehensive meta-analysis proteomics transcriptomics psoriatic lesions from independent studies. Network-based analysis revealed similarities regulation at both level. We identified group transcription factors responsible for...
The final goal of the Russian part Chromosome-centric Human Proteome Project (C-HPP) was established as analysis chromosome 18 (Chr 18) protein complement in plasma, liver tissue and HepG2 cells with sensitivity 10–18 M. Using SRM, we have recently targeted 277 Chr proteins liver, cells. On basis results survey, SRM assays were drafted for 250 proteins: 41 found only tissue, 82 specifically detected depleted 127 mapped both samples. carried out 49 proteins; them successfully registered using...
Twenty‐nine human aqueous humor samples from patients with eye diseases such as cataract and glaucoma without pseudoexfoliation syndrome were characterized by LC–high resolution MS analysis. In total, 269 protein groups identified 1% false discovery rate including 32 that not reported previously for this biological fluid. Since the analyzed individually, but pooled, 36 proteins in all samples, comprising constitutive proteome of The most dominant molecular function determined GO analysis is...
We report the results obtained in 2012–2013 by Russian Consortium for Chromosome-centric Human Proteome Project (C-HPP). The main scope of this work was transcriptome profiling genes on human chromosome 18 (Chr 18), as well their encoded proteome, from three types biomaterials: liver tissue, hepatocellular carcinoma-derived cell line HepG2, and blood plasma. tissue independently performed using two RNaseq platforms (SOLiD Illumina) also droplet digital PCR (ddPCR) quantitative RT-PCR....
This work was aimed at estimating the concentrations of proteins encoded by human chromosome 18 (Chr 18) in plasma samples 54 healthy male volunteers (aged 20-47). These young persons have been certified medical evaluation board as subjects ready for space flight training. Over 260 stable isotope-labeled peptide standards (SIS) were synthesized to perform measurements Chr 18. Selected reaction monitoring (SRM) with SIS allowed an estimate levels 84 276 quantified whole and depleted samples....
Oncolytic viruses have gained momentum in the last decades as a promising tool for cancer treatment. Despite progress, only fraction of patients show positive response to viral therapy. One key variable factors contributing therapy outcomes is interferon-dependent antiviral mechanisms tumor cells. Here, we evaluated this factor using patient-derived glioblastoma multiforme (GBM) cultures. Cell type I interferons' (IFNs) stimulation was characterized at mRNA and protein levels. Omics analysis...
The proteogenomic search pipeline developed in this work has been applied for reanalysis of 40 publicly available shotgun proteomic datasets from various human tissues comprising more than 8000 individual LC-MS/MS runs, which 5442 .raw data files were processed total. This was focused on searching ADAR-mediated RNA editing events, their clustering across samples different origins, and classification. In total, 33 recoded protein sites identified 21 datasets. Of those, 18 detected at least...
Cancer genome deviates significantly from the reference human genome, and thus a search against standard databases in cancer cell proteomics fails to identify cancer-specific protein variants. The goal of this Article is combine high-throughput exome data [Abaan et al. Res. 2013] shotgun analysis [Modhaddas Gholami Cell Rep. for lines NCI-60 panel demonstrate further that can be effectively recognized using identified variant peptides. To achieve goal, we generated database containing mutant...
Genomic and proteomic data were integrated into the proteogenomic workflow to identify coding genomic variants of Human Embryonic Kidney 293 (HEK-293) cell line at proteome level. Shotgun published by Geiger et al. (2012), Chick (2015), obtained in this work for HEK-293 searched against customized database generated using exome Lin (2014). Overall, 112 unique identified level out ∼1200 annotated exome. Seven shared between all three considered datasets, 27 found any two datasets. Some...