Research 

Proteome encoded by Chromosome 18: 
Russian Part of the International Human Proteome Project

chr18The Institute is a member of the International Chromosome-centric Human Proteome Project.

Transcriptome and proteomic profiling of the expression products of genes of human chromosome 18 in three types of biomaterial was carried out (Zgoda et al., 2013; Ponomarenko et al., 2014)

A method for detecting ultra-low-copy proteins has been developed, which allows measurements with a sensitivity of up to 10-18 M (according to BSA) (Kopylov et al., 2013).

Comparative analysis of human chromosomes based on post-genomic data showed minimal differences between chromosomes. For the Russian part of the project, chromosome 18 was selected for the optimal ratio of the number of protein-coding genes and their medical significance (Ponomarenko et al., 2012

Proteomics has reached a stage when more attention and curiosity need to be exerted in the identification of every novel protein in order to expand the unusual types of biomaterials and/or conditions

Contact:

Dr. Elena Ponomarenko

Postgenomic analytics for precision medicine
and digital QR code of health

Mass spectrometric analysis of plasma/serum metabolites for the development of diagnostic methods and assessment of the risk of socially significant diseases - prostate cancer, lung cancer, colorectal cancer, diabetes, neurodegenerative diseases, cardiovascular diseases

The optimization of drug therapy according to the personal characteristics of patients

The standard of a human digital image, which includes the metabolomic data sufficient to make an accurate assessment of general health and carry out precision diagnostics of a wide range of diseases

It was shown that the metabolomics data can be converted by SantaOmics into a standardized scale that can substitute actual concentration measurements, thus making the metabolomics data directly comparable with each other as well as with reference data presented on the same scale

Contact:

Dr. Petr Lokhov

Nanotechnology for one damaged molecule catching

Using of  the atomic force microscopy (AFM) as a molecular detector for detection of proteins in solutions at low concentrations, and also for determination of functional properties of single biomolecules, including the activity of individual molecules of enzymes

(AFM)-based detection of hepatitis C virus (HCV) particles in serum samples using a chip with an aptamer-functionalized surface (APTA-based AFM chip)

The detection of target nucleic acid molecules can be carried out with high sensitivity using sensor chips. Examples of the applications of such chips for the detection of cancer-associated microRNAs in plasma samples of patients with diagnosed prostate cancer are given. The results obtained herein are useful for the development of highly sensitive nanowire-based diagnostic systems for the revelation of (prostate) cancer-associated microRNAs in human plasma.

Contact:

Dr. Tatyana Pleshakova

Bioinformatics, data-analysis and computer technologies
for detecting biomarkers, pharmacological targets and basic structures of new drugs

The algorithm of PASS program was used for the first, second, and third classes Drug-Drug Interactions prediction.

A novel method has been implemented for analyzing quantitative structure-activity relationships (QSAR) and predicting the activity of new substances; its advantages have been demonstrated in comparison with the number of other widely used QSAR methods.

A meta-analysis of the neXtProt knowledge base is proposed for theoretical prediction of the number of different proteoforms that arise from alternative splicing (AS), single amino acid polymorphisms (SAPs), and posttranslational modifications (PTMs).

Proteomic Cinderella: Customized analysis of bulky MS/MS data in one night

Concept-centered semantic maps were created based on a text-mining analysis of PubMed for examines the structure of the social networking environment generated by PubMed users

Contact:

Prof.Vladimir Poroikov

 

Gene-editing for human health and research

 A proteome-wide analysis combined with the editing of target genes and/or chromosomes will probably end up as a springboard into the next phase of the C-HPP.

Development of genetic engineering solutions in the field of creation of CRISPR/Cas genome editing systems.

Modulation of suppressor activity of regulatory T cells by induction of alternative splicing of FoxP3 pre-mRNA.

Obtaining model cultures of cells of the human immune system with improved by genetic editing, therapeutic properties.

Improvement of RNA and DNA detection systems based on Cas13 and Cas12 CRISPR effectors.

Contact:

Dr. Dmitry Zhdanov