High‐throughput SNP‐based authentication of human cell lines
Open accessAbstract
Use of false cell lines remains a major problem in biological research. Short tandem repeat (STR) profiling represents the gold standard technique for cell line authentication. However, mismatch repair (MMR)‐deficient cell lines are characterized by microsatellite instability, which could force allelic drifts in combination with a selective outgrowth of otherwise persisting side lines, and, thus, are likely to be misclassified by STR profiling. On the basis of the high‐throughput Luminex platform, we developed a 24‐plex single nucleotide polymorphism profiling assay, called multiplex cell authentication (MCA), for determining authentication of human cell lines. MCA was evaluated by analyzing a collection of 436 human cell lines from the German Collection of Microorganisms and Cell Cultures, previously characterized by eight‐loci STR profiling. Both assays showed a very high degree of concordance and similar average matching probabilities (∼1 × 10 −8 for STR profiling and ∼1 × 10 −9 for MCA). MCA enabled the detection of less than 3% of contaminating human cells. By analyzing MMR‐deficient cell lines, evidence was obtained for a higher robustness of the MCA compared to STR profiling. In conclusion, MCA could complement routine cell line authentication and replace the standard authentication STR technique in case of MSI cell lines.
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The 8 SNP mismatches suggested that HCCC-9810 and Calu-6 were from different origins.
“The SNP genotyping at 24-loci showed that there were 8 mismatches loci between HCCC-9810 and Calu-6 cell line, suggesting that they were from different origins [30].”
From Investigation of Cross-Contamination and Misidentification of 278 Widely Used Tumor Cell Lines (2017) · cites this paper as [30]
The Results section ('Probability of discrimination and pair-wise analysis'; page unavailable) says that 0–2 mismatches across 24 SNPs indicate identical cell lines, supporting the inference that eight mismatches suggest different origins. Our copy does not report an eight-mismatch comparison between HCCC-9810 and Calu-6; searches for both cell-line names found no matching passage. (LLM, conf=0.86)
Experimental — accuracy not yet measuredSNP genotyping at 24 loci showed 8 mismatches between HCCC-9810 and Calu-6.
“The SNP genotyping at 24-loci showed that there were 8 mismatches loci between HCCC-9810 and Calu-6 cell line, suggesting that they were from different origins [30].”
From Investigation of Cross-Contamination and Misidentification of 278 Widely Used Tumor Cell Lines (2017) · cites this paper as [30]
The Methods (MCA-SNP typing; Statistics, page unavailable) describe genotyping 24 SNP loci. The Results (Analysis of DSMZ cell line collection by MCA, page unavailable) confirm that all 24 loci could be typed simultaneously, but do not report a comparison of HCCC-9810 with Calu-6 or eight mismatches; searches for both cell-line names found no such result. (LLM, conf=0.86)
Experimental — accuracy not yet measured
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- Authors
- Castro, F., Dirks, W. G., Fähnrich, S., Hotz‐Wagenblatt, A., Pawlita, M., & Schmitt, M.
- Affiliations
- German Cancer Research Center (DE)
- Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures (DE)
- Corresponding author
- Schmitt, Markus
- Venue
- International Journal of Cancer
- Publisher
- Wiley
- Published
- 2012-06-28
- Volume
- 132
- Issue
- 2
- Pages
- 308-314
- ISSN
- 0020-7136 (ISSN-L)
- 1097-0215
- PMC
- PMC3492511
- OpenAlex
- W2012627890
- Cited by
- 183
- References
- 29
- Citations by year
- 2026: 7 · 2025: 9 · 2024: 7 · 2023: 11 · 2022: 8 · 2021: 16 · 2020: 22 · 2019: 10 · 2018: 14 · 2017: 22 · 2016: 16 · 2015: 14 · 2014: 14 · 2013: 12 · 2012: 1
- FWCI
- 5.28
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- International Journal of Cancer (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institutes of Health
- National Cancer Institute (ZIACP010210)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Identification and Quantification in Food
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Molecular Biology Techniques and Applications
- Keywords
- short tandem repeat profiling, mismatch repair deficiency, microsatellite instability, Luminex bead immunoassay, match probability
- MeSH terms
- Cell Line, Humans, Reference Standards, Reproducibility of Results, Cell Culture Techniques, Polymorphism, Single Nucleotide, Microsatellite Instability, DNA Mismatch Repair, Genetic Loci, Limit of Detection, Genotyping Techniques
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