Genetic and genomic stability across lymphoblastoid cell line expansions

Laura B. Scheinfeldt, Kelly Hodges, Jonathan Pevsner, Dorit Berlin, Nahid Turan, Norman P. Gerry

Research output: Contribution to journalArticlepeer-review

Abstract

Objective: Lymphoblastoid cell lines are widely used in genetic and genomic studies. Previous work has characterized variant stability in transformed culture and across culture passages. Our objective was to extend this work to evaluate single nucleotide polymorphism and structural variation across cell line expansions, which are commonly used in biorepository distribution. Our study used DNA and cell lines sampled from six research participants. We assayed genome-wide genetic variants and inferred structural variants for DNA extracted from blood, from transformed cell cultures, and from three generations of expansions. Results: Single nucleotide variation was stable between DNA and expanded cell lines (ranging from 99.90 to 99.98% concordance). Structural variation was less consistent across expansions (median 33% concordance) with a noticeable decrease in later expansions. In summary, we demonstrate consistency between SNPs assayed from whole blood DNA and LCL DNA; however, more caution should be taken in using LCL DNA to study structural variation.

Original languageEnglish (US)
Article number558
JournalBMC Research Notes
Volume11
Issue number1
DOIs
StatePublished - Aug 3 2018

Keywords

  • Copy number variant
  • Genomic
  • Lymphoblastoid cell line
  • Single nucleotide polymorphism
  • Stability
  • Structural variation

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Fingerprint Dive into the research topics of 'Genetic and genomic stability across lymphoblastoid cell line expansions'. Together they form a unique fingerprint.

Cite this