Use this url to cite publication: https://hdl.handle.net/20.500.12512/108601
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Cell-free DNA yield and next-generation sequencing analysis in plasma of gastric cancer patients / Greta Streleckienė, Justina Arštikytė, Limas Kupčinskas, Jurgita Skiecevičienė
Type of publication
Recenzuojamos išplėstinės tezės / Peer-reviewed extended theses (T1d)
Title
Cell-free DNA yield and next-generation sequencing analysis in plasma of gastric cancer patients / Greta Streleckienė, Justina Arštikytė, Limas Kupčinskas, Jurgita Skiecevičienė
Publisher (trusted)
Student’s Scientific Society of Lithuanian University of Health Sciences |
Date Issued
Date Issued |
---|
2020-11-19 |
Extent
p. 13-15.
Is part of
Health for All: 2020 - International Students’, Doctoral and Residents’ Conference: Science for Health : abstract book : [19-20 November, 2020, Kaunas, Lithuania] / [organised: Student’s Scientific Society of Lithuanian University of Health Sciences ; Edited by Monika Jasinskaitė, Karolina Slapšytė, Gvidas Mikalauskas]. Kaunas : Student’s Scientific Society of Lithuanian University of Health Sciences, 2020.
Version
Originalus / Original
Description
Basic Science
The Conference is organized by the Student’s Scientific Society of Lithuanian University of Health Sciences The content of the abstract book is redacted. The Student’s Scientific Society of Lithuanian University of Health Sciences did not have control over the abstracts. The authors remain responsible for the content of their respective abstracts. All abstracts presented in the conference were reviewed.
Bibliogr.: p. 14-15
Field of Science
Abstract
Introduction Since the discovery of the circulating plasma cell-free DNA (cfDNA) the origin and characteristics of cfDNA were extensively studied. It was shown that cfDNA is released into the bloodstream in various ways including at the death of cells or by active secretion (1), has a very short half-life (16 min – 2.5 h) (2) and could harbor genetic aberrations from malignant tissue (3). However, there is a lack of comprehensive studies conducted in gastric cancer (GC) comparing tumor tissue DNA and plasma cfDNA mutational profiles. Aim The aim of this study was to analyze cfDNA yield and compare tumor tissue DNA and cfDNA somatic mutational profiles for GC patients. Methods The study was approved by the Kaunas regional biomedical research ethics committee (No. BE-2-10). GC tissue and blood were collected from 30 patients who were recruited at the Department of Gastroenterology, Lithuanian University of Health Sciences Hospital. Tumor tissue was obtained from the primary lesion of the resected specimen or biopsy and stored at - 80°C. Peripheral blood was drawn using K2EDTA tubes at admission (before surgery). cfDNA amount was quantified by laser-induced fluorescence-based microcapillary electrophoresis (Agilent Bioanalyzer 2100, High Sensitivity DNA Chip and Reagents). Whole exome sequencing was performed for the tissue samples and targeted sequencing using custom gene panel - for the plasma cfDNA samples. Libraries were pair-end sequenced and reads were mapped to hg19 using BWA mem (4). Variant calling was performed using Mutect2 (5). All variants were annotated using VeP (6) and validated using the Integrative Genomics Viewer. Results A significantly higher yield of cfDNA was determined for GC patients (84.73 ng and 2.46 ng per ml of plasma, GC patient and controls respectively; p-value = 1.73*10-7). Mutations in GC related genes in tissue samples were detected for 76.7 % of the patients. Top 10 mutated. [...].
Type of document
type::text::conference output::conference proceedings::conference paper
Other Identifier(s)
(LSMU ALMA)990001022290107106
Coverage Spatial
Lietuva / Lithuania (LT)
Language
Anglų / English (en)
Bibliographic Details
6