Laboratory of Omics technology was created in order to provide other laboratories research in the field of next-generation sequencing (NGS), mass spectrometry of proteins and big data analysis.

From 2014 till 2016 we have been realizing a project "Establishment of a diagnostic panel to the qualitative and quantitative assessment of the intestinal microbiota composition", supported by Ministry of Education and Science Of Russuan Federation.

Equipment and methods

MALDI TOF/TOF Ultraflextreme

Determination of mass homogenous unhydrolyzed protein or peptide with an accuracy of 0.5 - 0.01% 
Top-down identification of proteins - including sample preparation and 2D gel trypsin digestion in the gel
Bottom-Up approach. Sequencing of the protein sequence denovo
Determination of post-translational modifications

MALDI Biotyper

Identification of microorganisms (including the strain-specific identification)

Analysis of the quality control and SNP genotyping oligonucleotides (based on GENOLINKTM package)
Profiling proteome - research profile of biomarkers and identifying individual biomarkers in various studies of clinical proteomics (mass spectrometer microflex used CLINPROT system to search for peptide and protein bio-markers, allowing for automated sample preparation on the magnetic particles, and use software tools for data analysis, visualization and build statistical models).
Additional features: AnchorChip technology (allows to obtain homogeneous, clearly positioned on the sample target, automate data collection, as well as to increase the sensitivity of up to two orders of magnitude)

Maxis Impact

Top-down approach. Identification of proteins with high precision - sample preparation includes 1D gels in solution and trypsinolysis

Semi-quantitative proteomics, pseudoMRM method
Method MudPit - preliminary fractionation of a mixture of peptides and subsequent identification of the tryptic peptides by mass spectrometry
Quantitative proteomics using isotope labels
Determination of post-translational modifications

HPLC Ultimate

Determination of metabolites

Sample preparation  for MudPit method



Covaris S220

DNA fragmentation system  based on ultrasonic treatment

It produces nucleic acid fragments in the wavelength range from 150 to 250 bp
It is used for the preparation of standard libraries for Solid 5500w

Agilent 2100 Bioanalyzer

Electrophoretic separation of nucleic acids on a microfluidic chip. The high resolution and sensitivity, automated process analysis and counting data.

Analysis of the libraries for high-throughput sequencing
The analysis of low concentrations of nucleic acid: DNA - HighSensitivityDNAKit (5 pg), RNA - RNA 6000 PicoKit (50 pg).
the possibility of determining the integrity of the index of the selected RNA (RNA IntegrityNumber (RIN))

GS Junior (Roshe, Switzerland)

Pyrosequencing technology, parallel sequencing up to 100 thousands fragments, length reading 450-500 bp. The total amount of information received from the device ~ 50 Mb
The accuracy of 99.9% over the entire length chloride/

de novo sequencing of a bacterial chromosome, virus, plasmids, mitochondria
Metagenomic analysis (based on amplikons 16/18SrRNK)
bacterial trans­criptomics 

SOLiD xl 5500 Wildfire (Life technologies, USA)

The amount of information from a single chip: 100-120Gb

The possibility of simultaneous loading of two chips.
read length - 75 bp
Accuracy 99.94%
Metagenomic analysis with reference (shotgun metagenome)
Human whole genome and exome analysis
Trans­criptome analysis of eukaryotes
An analysis of gene polymorphisms
ChIP-Seq (analysis of binding sites)
Analysis of DNA methylation

Computer cluster


It allows you to analyze the data from the high-performance sequencing, metagenomic analysis, trans­criptomic and proteomic studies

Primary data processing and conversion of files on the servers themselves conventionel devices

Assembling genome de novo (Newbler), evaluation of the quality of assembly (Mira)
Scaffolding using libraries of paired fragments (Sspace)
Mapping Reeds, chart coverage SNPs (Bowtie, Bowtie2 for dlinnyhridov with GSJunior)
Search variations, abstract SNPs (SNPEff)
Search and Resume OPC (NCBI, Prokka)
Comparative functional analysis of genomes (Pathwaystools)
Analysis metagenomes (based amplikonovGSJunior) (QIIME) count OTUspo database 16SrRNKGreengenes (Silva, RDPClassifier)
Functional analysis amplikonovyh libraries (QIIME)
Analysis shotgun metagenome (MG-RAST, IMG / M), a comparative analysis of metagenomes (PCoA)
Metabolic reconstruction (KEGG, MetaCyc, Cytoscape)