Andrey Kechin
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View article: Interconnection of Gut Microbiome and Efficacy of Immune Checkpoint Inhibitors in Inoperable Non-Small-Cell Lung Cancer
Interconnection of Gut Microbiome and Efficacy of Immune Checkpoint Inhibitors in Inoperable Non-Small-Cell Lung Cancer Open
The efficacy of immune checkpoint inhibitors (ICIs) in non-small-cell lung cancer (NSCLC) varies widely across patients. Growing evidence indicates that the gut microbiome, through its interaction with the tumor microenvironment, may influ…
View article: Orthoflavivirus omskense NS1 Protein Induces Microvascular Endothelial Permeability In Vitro
Orthoflavivirus omskense NS1 Protein Induces Microvascular Endothelial Permeability In Vitro Open
Orthoflavivirus omskense (Omsk hemorrhagic fever virus, OHFV) is a tick-borne flavivirus that causes Omsk hemorrhagic fever (OHF), a severe zoonotic disease endemic to Western Siberia. Despite the fact that the role of NS1 proteins of vari…
View article: TBEV NS1 Induces Tissue-Specific Microvascular Endothelial Cell Permeability by Activating the TNF-α Signaling Pathway
TBEV NS1 Induces Tissue-Specific Microvascular Endothelial Cell Permeability by Activating the TNF-α Signaling Pathway Open
Orthoflavivirus encephalitidis (tick-borne encephalitis virus, TBEV) is of high concern due to its ability to cause severe neurological manifestations. Despite the fact that the role of NS1 proteins from various mosquito-borne flaviviruses…
View article: <i>Orthoflavivirus omskense</i> NS1 Protein Induces Microvascular Endothelial Permeability
<i>Orthoflavivirus omskense</i> NS1 Protein Induces Microvascular Endothelial Permeability Open
Orthoflavivirus omskense (Omsk hemorrhagic fever virus, OHFV) is a tick-borne flavivirus that causes Omsk hemorrhagic fever (OHF), a severe zoonotic disease endemic to Western Siberia. Despite the fact that the role of NS1 proteins of vari…
View article: Combining chromosome conformation capture and exome sequencing for simultaneous detection of structural and single-nucleotide variants
Combining chromosome conformation capture and exome sequencing for simultaneous detection of structural and single-nucleotide variants Open
View article: TBEV NS1 Induces Tissue-Specific Microvascular Endothelial Cell Permeability by Activation TNF-α Signaling Pathway
TBEV NS1 Induces Tissue-Specific Microvascular Endothelial Cell Permeability by Activation TNF-α Signaling Pathway Open
Background/Objectives: Orthoflavivirus encephalitidis (tick-borne encephalitis virus, TBEV) is of high concern due to its ability to cause severe neurological manifestations. Despite the fact that the role of NS1 proteins of various mosqui…
View article: Recurrent Cases of Periprosthetic Joint Infection Caused by Staphylococcus Aureus: Reinfection or Reactivation of a Pathogen?
Recurrent Cases of Periprosthetic Joint Infection Caused by Staphylococcus Aureus: Reinfection or Reactivation of a Pathogen? Open
Background. Staphylococcus aureus is one of the most common pathogens causing periprosthetic joint infection (PJI). Despite the high genetic diversity of S. aureus strains, determining phylogenetic relationships and, consequently, the sour…
View article: Identification of activating somatic mutations in the <i>PIK3CA</i> gene in breast tumors and determination of their minimal set for clinical diagnostic testing
Identification of activating somatic mutations in the <i>PIK3CA</i> gene in breast tumors and determination of their minimal set for clinical diagnostic testing Open
Background: For effective screening of breast cancer patients for candidates for target therapy with alpelisib, it is necessary to identify activating somatic mutations in the PIK3CA gene by allele specific polymerase chain reaction (PCR);…
View article: A novel approach for simultaneous detection of structural and single-nucleotide variants based on a combination of chromosome conformation capture and exome sequencing
A novel approach for simultaneous detection of structural and single-nucleotide variants based on a combination of chromosome conformation capture and exome sequencing Open
Effective molecular diagnosis of congenital diseases hinges on comprehensive genomic analysis, traditionally reliant on various methodologies specific to each variant type—whole exome or genome sequencing for single nucleotide variants (SN…
View article: BRACNAC: A BRCA1 and BRCA2 Copy Number Alteration Caller from Next-Generation Sequencing Data
BRACNAC: A BRCA1 and BRCA2 Copy Number Alteration Caller from Next-Generation Sequencing Data Open
Detecting copy number variations (CNVs) and alterations (CNAs) in the BRCA1 and BRCA2 genes is essential for testing patients for targeted therapy applicability. However, the available bioinformatics tools were initially designed for ident…
View article: Detecting Microsatellite Instability in Endometrial, Colon, and Stomach Cancers Using Targeted NGS
Detecting Microsatellite Instability in Endometrial, Colon, and Stomach Cancers Using Targeted NGS Open
Purpose: To develop a method for testing the MSI based on targeted NGS. Methods: Based on the results of previous studies, 81 microsatellite loci with high variability in MSI-H tumors were selected, and a method for calculating the MSI sco…
View article: Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease
Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease Open
This study presents a novel approach for mapping global chromatin interactions using S1 nuclease, a sequence-agnostic enzyme. We develop and outline a protocol that leverages S1 nuclease’s ability to effectively introduce breaks into both …
View article: The prognostic value of circulating in blood tumor DNA as a marker of minimal residual disease in stage I–III colorectal cancer
The prognostic value of circulating in blood tumor DNA as a marker of minimal residual disease in stage I–III colorectal cancer Open
Introduction. Studies on non-metastatic colorectal cancer have demonstrated the prognostic role of circulating tumor (ctDNA) after surgery, and the ability to identify patients with the greatest risk of progression. This makes it possible …
View article: Development of a Test System to Detect the Omicron Variant of SARS-CoV-2 and the Frequency of Its Detection in Patients
Development of a Test System to Detect the Omicron Variant of SARS-CoV-2 and the Frequency of Its Detection in Patients Open
View article: Concordance between the tumor mutational status and circulating tumor DNA in patients with colorectal cancer
Concordance between the tumor mutational status and circulating tumor DNA in patients with colorectal cancer Open
Background. Circulating tumor DnA (ctDnA) may act as a potential biomarker for predicting disease progression in patients with colorectal cancer (CRC), which are radically cured or receiving chemotherapy. Objective: to evaluate the sensiti…
View article: Multiplex Droplet Digital PCR Assay for Detection of MET and HER2 Genes Amplification in Non-Small Cell Lung Cancer
Multiplex Droplet Digital PCR Assay for Detection of MET and HER2 Genes Amplification in Non-Small Cell Lung Cancer Open
Non-small-cell lung cancer (NSCLC), a subtype of lung cancer, remains one of the most common tumors with a high mortality and morbidity rate. Numerous targeted drugs were implemented or are now developed for the treatment of NSCLC. Two gen…
View article: ErbB4 Is a Potential Key Regulator of the Pathways Activated by NTRK-Fusions in Thyroid Cancer
ErbB4 Is a Potential Key Regulator of the Pathways Activated by NTRK-Fusions in Thyroid Cancer Open
NTRK gene fusions are drivers of tumorigenesis events that specific Trk-inhibitors can target. Current knowledge of the downstream pathways activated has been previously limited to the pathways of regulator proteins phosphorylated directly…
View article: Sructural rearrangements of NTRK genes: characteristics, methods of detection and targeted therapy for cancer
Sructural rearrangements of NTRK genes: characteristics, methods of detection and targeted therapy for cancer Open
Background. The first-generation trk inhibitors, larotrectinib and entrectinib, were approved by the u.s. Food and drug administration (Fda) for the treatment of advanced solid tumors harboring NTRK gene fusions in November 2018 and in aug…
View article: NGS-PrimerPlex: High-throughput primer design for multiplex polymerase chain reactions
NGS-PrimerPlex: High-throughput primer design for multiplex polymerase chain reactions Open
Multiplex polymerase chain reaction (PCR) has multiple applications in molecular biology, including developing new targeted next-generation sequencing (NGS) panels. We present NGS-PrimerPlex, an efficient and versatile command-line applica…
View article: 96P Validation for clinical use of NGS-based assay to detect circulating tumor DNA (ctDNA) in patients (pts) with various types of cancer
96P Validation for clinical use of NGS-based assay to detect circulating tumor DNA (ctDNA) in patients (pts) with various types of cancer Open
View article: Spectrum of TP53 Mutations in BRCA1/2 Associated High-Grade Serous Ovarian Cancer
Spectrum of TP53 Mutations in BRCA1/2 Associated High-Grade Serous Ovarian Cancer Open
Objective: Mutations in TP53 lead to loss of function (LOF) or gain of function (GOF) of the corresponding protein p53 and produce a different effect on the tumor. Our goal was to determine the spectrum of somatic TP53 varian…
View article: NGS-PrimerPlex: high-throughput primer design for multiplex polymerase chain reactions
NGS-PrimerPlex: high-throughput primer design for multiplex polymerase chain reactions Open
Summary Multiplex PCR has multiple applications in molecular biology, including developing new targeted NGS-panels. We present NGS-PrimerPlex, an efficient and versatile command-line application that designs primers for different refined t…
View article: Massive Parallel Sequencing for Diagnostic Genetic Testing of BRCA Genes - a Single Center Experience
Massive Parallel Sequencing for Diagnostic Genetic Testing of BRCA Genes - a Single Center Experience Open
The aim of this study was to implement massive parallel sequencing (MPS) technology in clinical genetics testing. We developed and tested an amplicon-based method for resequencing the BRCA1 and BRCA2 genes on an Illumina MiSeq to identify …