A resource for cell line authentication, annotation and quality control

Nature

Volumn 520, Issue 7547, 2015, Pages 307-311

  Yu, Mamie ^a   Selvaraj, Suresh K ^a   Liang Chu, May M Y ^a   Aghajani, Sahar ^a   Busse, Matthew ^a   Yuan, Jean ^a   Lee, Genee ^a   Peale, Franklin ^a   Klijn, Christiaan ^a   Bourgon, Richard ^a   Kaminker, Joshua S ^a   Neve, Richard M ^a  

^a GENENTECH INC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMELOGENIN; MICROSATELLITE DNA;

CELLS AND CELL COMPONENTS; COMPUTER SIMULATION; POLYMORPHISM; QUALITY CONTROL;

ANEUPLOIDY; ARTICLE; CANCER CELL LINE; CELL LINE; DNA FINGERPRINTING; GENOTYPING TECHNIQUE; HETEROZYGOSITY LOSS; HUMAN; MICROSATELLITE INSTABILITY; PRIORITY JOURNAL; QUALITY CONTROL; SHORT TANDEM REPEAT; SINGLE NUCLEOTIDE POLYMORPHISM; CELL SEPARATION; CLASSIFICATION; GENETICS; GENOTYPE; INFORMATION PROCESSING; METABOLISM; NOMENCLATURE; PRACTICE GUIDELINE; REPRODUCIBILITY; SPECIES DIFFERENCE;

CELL LINE; CELL SEPARATION; DATA CURATION; GENOTYPE; GUIDELINES AS TOPIC; MICROSATELLITE REPEATS; POLYMORPHISM, SINGLE NUCLEOTIDE; QUALITY CONTROL; REPRODUCIBILITY OF RESULTS; SPECIES SPECIFICITY; TERMINOLOGY AS TOPIC;

EID: 84928389546     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature14397     Document Type: Article

References (29)

1. American Type Culture Collection Standards Development Organization Workgroup ASN-0002. Cell linemisidentification: the beginning of the end. Nature Rev. Cancer 10, 441-448 (2010).
2. Editorial. Identity crisis. Nature 457, 935-936 (2009).
3. Capes-Davis, A. et al. Match criteria for human cell line authentication: where do we draw the line? Int. J. Cancer 132, 2510-2519 (2013).
4. Dirks, W. G. & Drexler, H. G. STR DNA typing of human cell lines: detection of intra- and interspecies cross-contamination. Methods Mol. Biol. 946, 27-38 (2013).
5. Editorial. Announcement: Reducing our irreproducibility. Nature 496, 398 (2013).
6. Lorsch, J. R., Collins, F. S. & Lippincott-Schwartz, J. Fixing problems with cell lines. Science 346, 1452-1453 (2014).
7. Lacroix, M. Persistent use of "false" cell lines. Int. J. Cancer 122, 1-4 (2008).
8. ICLAC. Naming a Cell Line http://iclac.org/resources/cell-line-names/ (2014).
9. Sarntivijai, S., Ade, A. S., Athey, B. D. & States, D. J. A bioinformatics analysis of the cell line nomenclature. Bioinformatics 24, 2760-2766 (2008).
10. Hunter, L. & Cohen, K. B. Biomedical language processing: what's beyond PubMed? Mol. Cell 21, 589-594 (2006).
11. Forbes, S. A. et al. COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer. Nucleic Acids Res. 39, D945-D950 (2011).
12. Barretina, J. et al. The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature 483, 603-607 (2012).
13. Romano, P. et al. Cell Line Data Base: structure and recent improvements towards molecular authentication of human cell lines. Nucleic Acids Res. 37, D925-D932 (2009).
14. Buehring, G. C., Eby, E. A. & Eby, M. J. Cell line cross-contamination: how aware are mammalian cell culturists of the problem and how tomonitor it? In Vitro Cell. Dev. Biol. Anim. 40, 211-215 (2004).
15. Barallon, R. et al. Recommendation of short tandem repeat profiling for authenticating human cell lines, stem cells, and tissues. In Vitro Cell. Dev. Biol. Anim. 46, 727-732 (2010).
16. Parson, W. et al. Cancer cell line identification by short tandem repeat profiling: power and limitations. FASEB J. 19, 434-436 (2005).
17. Santos, F. R., Pandya, A. & Tyler-Smith, C. Reliability of DNA-based sex tests. Nature Genet. 18, 103 (1998).
18. Tanabe, H. et al. Cell line individualization by STR multiplex system in the cell bank found cross-contamination between ECV304 and EJ-1/T24. Tiss. Cult. Res. Commun. 18, 329-338 (1999).
19. Masters, J. R. et al. Short tandem repeat profiling provides an international reference standard for human cell lines. Proc. Natl Acad. Sci. USA 98, 8012-8017 (2001).
20. Castro, F. et al. High-throughput SNP-based authentication of human cell lines. Int. J. Cancer 132, 308-314 (2013).
21. Much, M., Buza, N. & Hui, P. Tissue identity testing of cancer by short tandem repeat polymorphism: pitfalls of interpretation in the presence of microsatellite instability. Hum. Pathol. 45, 549-555 (2014).
22. Didion, J. P. et al. SNP array profiling of mouse cell lines identifies their strains of origin and reveals cross-contamination and widespread aneuploidy. BMC Genomics 15, 847 (2014).
23. Capes-Davis, A. et al. Check your cultures! A list of cross-contaminated or misidentified cell lines. Int. J. Cancer 127, 1-8 (2010).
24. Cooper, J. K. et al. Species identification in cell culture: a two-pronged molecular approach. In Vitro Cell. Dev. Biol. Anim. 43, 344-351 (2007).
25. Masters, J. R. & Stacey, G. N. Changing medium and passaging cell lines. Nature Protocols 2, 2276-2284 (2007).
26. Zhang, J. et al. Intratumor heterogeneity in localized lung adenocarcinomas delineated by multiregion sequencing. Science 346, 256-259 (2014).
27. Masters, J. R. Cell-line authentication: end the scandal of false cell lines. Nature 492, 186 (2012).
28. Nardone, R. M. Eradication of cross-contaminated cell lines: a call for action. Cell Biol. Toxicol. 23, 367-372 (2007).
29. Wellcome Trust Sanger Institute. The Cell Lines Project http://cancer.sanger.ac.uk/cancergenome/projects/cell-lines/about (2015).