Nature Biotechnology

, volume 24 , issue 9 , pages 1140-1150

Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project

Tucker A. Patterson ¹

Edward K. Lobenhofer ²

Stephanie B Fulmer Smentek ³

Patrick J Collins ³

Tzu-Ming Chu ⁴

Wenjun Bao ⁴

Hong Fang ⁵

Ernest S. Kawasaki ⁶

Janet Hager ⁷

Irina R Tikhonova ⁷

Stephen J. Walker ⁸

Liang Zhang ⁹

Patrick Hurban ²

Françoise de Longueville ¹⁰

James C. Fuscoe ¹

Weida Tong ¹

Leming Shi ¹

Russell D. Wolfinger ⁴

Hide authors affiliations Show authors affiliations: 10 affiliations

National Center for Toxicological Research, US Food & Drug Administration, Jefferson, USA |

A Division of Clinical Data, Cogenics, 100 Perimeter Park Drive, Suite C, Morrisville, USA |

Integrated Biology Solutions, Agilent Technologies, Santa Clara, USA |

⁴

SAS Institute Inc., SAS Campus Drive, Cary, USA |

⁵

Division of Bioinformatics, Z-Tech Corporation at NCTR/FDA, Jefferson, USA |

⁶

NCI Advanced Technology Center, Bethesda, USA |

⁷

Yale University, W.M. Keck Biotechnology Resource Laboratory, Microarray Resource, New Haven, USA |

⁸

Department of Physiology & Pharmacology, Wake Forest University School of Medicine, Winston-Salem, USA |

⁹

CapitalBio Corporation, 18 Life Science Parkway, Changping District, Beijing, China |

¹⁰

Gene Expression Chips, Eppendorf Array Technologies (EAT), 20, rue du seminaire, Namur, Belgium |

Publication type: Journal Article

Publication date: 2006-09-01

Springer Nature

Nature Biotechnology

scimago Q1

wos Q1

SJR: 19.006

CiteScore: 58.8

Impact factor: 41.7

ISSN: 10870156, 15461696

DOI: 10.1038/nbt1242

Copy DOI

PubMed ID: 16964228

Molecular Medicine

Applied Microbiology and Biotechnology

Biotechnology

Bioengineering

Biomedical Engineering

Abstract

Microarray-based expression profiling experiments typically use either a one-color or a two-color design to measure mRNA abundance. The validity of each approach has been amply demonstrated. Here we provide a simultaneous comparison of results from one- and two-color labeling designs, using two independent RNA samples from the Microarray Quality Control (MAQC) project, tested on each of three different microarray platforms. The data were evaluated in terms of reproducibility, specificity, sensitivity and accuracy to determine if the two approaches provide comparable results. For each of the three microarray platforms tested, the results show good agreement with high correlation coefficients and high concordance of differentially expressed gene lists within each platform. Cumulatively, these comparisons indicate that data quality is essentially equivalent between the one- and two-color approaches and strongly suggest that this variable need not be a primary factor in decisions regarding experimental microarray design.

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391

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GOST |

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GOST Copy

Patterson T. A. et al. Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project // Nature Biotechnology. 2006. Vol. 24. No. 9. pp. 1140-1150.

GOST all authors (up to 50) Copy

Patterson T. A., Lobenhofer E. K., Fulmer Smentek S. B., Collins P. J., Chu T., Bao W., Fang H., Kawasaki E. S., Hager J., Tikhonova I. R., Walker S. J., Zhang L., Hurban P., de Longueville F., Fuscoe J. C., Tong W., Shi L., Wolfinger R. D. Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project // Nature Biotechnology. 2006. Vol. 24. No. 9. pp. 1140-1150.

RIS |

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RIS Copy

TY - JOUR

DO - 10.1038/nbt1242

UR - https://doi.org/10.1038/nbt1242

TI - Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project

T2 - Nature Biotechnology

AU - Patterson, Tucker A.

AU - Lobenhofer, Edward K.

AU - Fulmer Smentek, Stephanie B

AU - Collins, Patrick J

AU - Chu, Tzu-Ming

AU - Bao, Wenjun

AU - Fang, Hong

AU - Kawasaki, Ernest S.

AU - Hager, Janet

AU - Tikhonova, Irina R

AU - Walker, Stephen J.

AU - Zhang, Liang

AU - Hurban, Patrick

AU - de Longueville, Françoise

AU - Fuscoe, James C.

AU - Tong, Weida

AU - Shi, Leming

AU - Wolfinger, Russell D.

PY - 2006

DA - 2006/09/01

PB - Springer Nature

SP - 1140-1150

IS - 9

VL - 24

PMID - 16964228

SN - 1087-0156

SN - 1546-1696

ER -

BibTex |

Cite this

BibTex (up to 50 authors) Copy

@article{2006_Patterson,

author = {Tucker A. Patterson and Edward K. Lobenhofer and Stephanie B Fulmer Smentek and Patrick J Collins and Tzu-Ming Chu and Wenjun Bao and Hong Fang and Ernest S. Kawasaki and Janet Hager and Irina R Tikhonova and Stephen J. Walker and Liang Zhang and Patrick Hurban and Françoise de Longueville and James C. Fuscoe and Weida Tong and Leming Shi and Russell D. Wolfinger},

title = {Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project},

journal = {Nature Biotechnology},

year = {2006},

volume = {24},

publisher = {Springer Nature},

month = {sep},

url = {https://doi.org/10.1038/nbt1242},

number = {9},

pages = {1140--1150},

doi = {10.1038/nbt1242}

}

MLA

Cite this

MLA Copy

Patterson, Tucker A., et al. “Performance comparison of one-color and two-color platforms within the Microarray Quality Control (MAQC) project.” Nature Biotechnology, vol. 24, no. 9, Sep. 2006, pp. 1140-1150. https://doi.org/10.1038/nbt1242.

Publisher

Springer Nature

Journal

Nature Biotechnology

scimago Q1

wos Q1

SJR

19.006

CiteScore

58.8

Impact factor

41.7

ISSN

10870156 (Print)

15461696 (Electronic)