Population differences in the rate of proliferation of international HapMap cell lines

Amy L. Stark, Wei Zhang, Tong Zhou, Peter H. O'Donnell, Christine M. Beiswanger, R. Stephanie Huang, Nancy J. Cox, M. Eileen Dolan

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

The International HapMap Project is a resource for researchers containing genotype, sequencing, and expression information for EBV-transformed lymphoblastoid cell lines derived from populations across the world. The expansion of the HapMap beyond the four initial populations of Phase 2, referred to as Phase 3, has increased the sample number and ethnic diversity available for investigation. However, differences in the rate of cellular proliferation between the populations can serve as confounders in phenotype-genotype studies using these cell lines. Within the Phase 2 populations, the JPT and CHB cell lines grow faster (p < 0.0001) than the CEU or YRI cell lines. Phase 3 YRI cell lines grow significantly slower than Phase 2 YRI lines (p < 0.0001), with no widespread genetic differences based on common SNPs. In addition, we found significant growth differences between the cell lines in the Phase 2 ASN populations and the Han Chinese from the Denver metropolitan area panel in Phase 3 (p < 0.0001). Therefore, studies that separate HapMap panels into discovery and replication sets must take this into consideration.

Original languageEnglish (US)
Pages (from-to)829-833
Number of pages5
JournalAmerican Journal of Human Genetics
Volume87
Issue number6
DOIs
StatePublished - Dec 10 2010
Externally publishedYes

Fingerprint

HapMap Project
Cell Line
Population
Genotype
Transformed Cell Line
Human Herpesvirus 4
Single Nucleotide Polymorphism
Research Personnel
Cell Proliferation
Phenotype
Growth

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Cite this

Stark, A. L., Zhang, W., Zhou, T., O'Donnell, P. H., Beiswanger, C. M., Huang, R. S., ... Dolan, M. E. (2010). Population differences in the rate of proliferation of international HapMap cell lines. American Journal of Human Genetics, 87(6), 829-833. https://doi.org/10.1016/j.ajhg.2010.10.018

Population differences in the rate of proliferation of international HapMap cell lines. / Stark, Amy L.; Zhang, Wei; Zhou, Tong; O'Donnell, Peter H.; Beiswanger, Christine M.; Huang, R. Stephanie; Cox, Nancy J.; Dolan, M. Eileen.

In: American Journal of Human Genetics, Vol. 87, No. 6, 10.12.2010, p. 829-833.

Research output: Contribution to journalArticle

Stark, AL, Zhang, W, Zhou, T, O'Donnell, PH, Beiswanger, CM, Huang, RS, Cox, NJ & Dolan, ME 2010, 'Population differences in the rate of proliferation of international HapMap cell lines', American Journal of Human Genetics, vol. 87, no. 6, pp. 829-833. https://doi.org/10.1016/j.ajhg.2010.10.018
Stark, Amy L. ; Zhang, Wei ; Zhou, Tong ; O'Donnell, Peter H. ; Beiswanger, Christine M. ; Huang, R. Stephanie ; Cox, Nancy J. ; Dolan, M. Eileen. / Population differences in the rate of proliferation of international HapMap cell lines. In: American Journal of Human Genetics. 2010 ; Vol. 87, No. 6. pp. 829-833.
@article{3239810614fb4f509665ea329aab3a93,
title = "Population differences in the rate of proliferation of international HapMap cell lines",
abstract = "The International HapMap Project is a resource for researchers containing genotype, sequencing, and expression information for EBV-transformed lymphoblastoid cell lines derived from populations across the world. The expansion of the HapMap beyond the four initial populations of Phase 2, referred to as Phase 3, has increased the sample number and ethnic diversity available for investigation. However, differences in the rate of cellular proliferation between the populations can serve as confounders in phenotype-genotype studies using these cell lines. Within the Phase 2 populations, the JPT and CHB cell lines grow faster (p < 0.0001) than the CEU or YRI cell lines. Phase 3 YRI cell lines grow significantly slower than Phase 2 YRI lines (p < 0.0001), with no widespread genetic differences based on common SNPs. In addition, we found significant growth differences between the cell lines in the Phase 2 ASN populations and the Han Chinese from the Denver metropolitan area panel in Phase 3 (p < 0.0001). Therefore, studies that separate HapMap panels into discovery and replication sets must take this into consideration.",
author = "Stark, {Amy L.} and Wei Zhang and Tong Zhou and O'Donnell, {Peter H.} and Beiswanger, {Christine M.} and Huang, {R. Stephanie} and Cox, {Nancy J.} and Dolan, {M. Eileen}",
year = "2010",
month = "12",
day = "10",
doi = "10.1016/j.ajhg.2010.10.018",
language = "English (US)",
volume = "87",
pages = "829--833",
journal = "American Journal of Human Genetics",
issn = "0002-9297",
publisher = "Cell Press",
number = "6",

}

TY - JOUR

T1 - Population differences in the rate of proliferation of international HapMap cell lines

AU - Stark, Amy L.

AU - Zhang, Wei

AU - Zhou, Tong

AU - O'Donnell, Peter H.

AU - Beiswanger, Christine M.

AU - Huang, R. Stephanie

AU - Cox, Nancy J.

AU - Dolan, M. Eileen

PY - 2010/12/10

Y1 - 2010/12/10

N2 - The International HapMap Project is a resource for researchers containing genotype, sequencing, and expression information for EBV-transformed lymphoblastoid cell lines derived from populations across the world. The expansion of the HapMap beyond the four initial populations of Phase 2, referred to as Phase 3, has increased the sample number and ethnic diversity available for investigation. However, differences in the rate of cellular proliferation between the populations can serve as confounders in phenotype-genotype studies using these cell lines. Within the Phase 2 populations, the JPT and CHB cell lines grow faster (p < 0.0001) than the CEU or YRI cell lines. Phase 3 YRI cell lines grow significantly slower than Phase 2 YRI lines (p < 0.0001), with no widespread genetic differences based on common SNPs. In addition, we found significant growth differences between the cell lines in the Phase 2 ASN populations and the Han Chinese from the Denver metropolitan area panel in Phase 3 (p < 0.0001). Therefore, studies that separate HapMap panels into discovery and replication sets must take this into consideration.

AB - The International HapMap Project is a resource for researchers containing genotype, sequencing, and expression information for EBV-transformed lymphoblastoid cell lines derived from populations across the world. The expansion of the HapMap beyond the four initial populations of Phase 2, referred to as Phase 3, has increased the sample number and ethnic diversity available for investigation. However, differences in the rate of cellular proliferation between the populations can serve as confounders in phenotype-genotype studies using these cell lines. Within the Phase 2 populations, the JPT and CHB cell lines grow faster (p < 0.0001) than the CEU or YRI cell lines. Phase 3 YRI cell lines grow significantly slower than Phase 2 YRI lines (p < 0.0001), with no widespread genetic differences based on common SNPs. In addition, we found significant growth differences between the cell lines in the Phase 2 ASN populations and the Han Chinese from the Denver metropolitan area panel in Phase 3 (p < 0.0001). Therefore, studies that separate HapMap panels into discovery and replication sets must take this into consideration.

UR - http://www.scopus.com/inward/record.url?scp=78649774613&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=78649774613&partnerID=8YFLogxK

U2 - 10.1016/j.ajhg.2010.10.018

DO - 10.1016/j.ajhg.2010.10.018

M3 - Article

C2 - 21109222

AN - SCOPUS:78649774613

VL - 87

SP - 829

EP - 833

JO - American Journal of Human Genetics

JF - American Journal of Human Genetics

SN - 0002-9297

IS - 6

ER -