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| Status |
Public on Apr 21, 2005 |
| Title |
Cross-platform comparability of microarray data |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
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| Summary |
To facilitate collaborative research efforts between multi-investigator teams using DNA microarrays, we identified sources of error and data variability between laboratories and across microarray platforms and methods to accommodate this variability. RNA expression data were generated in seven laboratories, comparing two standard RNA samples using twelve microarray platforms. At least two standard microarray types (one spotted, one commercial) were used by all laboratories. Reproducibility for most platforms within any laboratory was typically good, but reproducibility between platforms and across laboratories was generally poor. Reproducibility between laboratories dramatically increased when standardized protocols were implemented for RNA labeling, hybridization, microarray processing, data acquisition and data normalization. Nonetheless, concordance could be found across different laboratories and platforms when data were analyzed in terms of enriched Gene Ontology categories. These findings indicate that microarray results generated by multiple sites and platforms can be comparable, and that multi-investigator teams will maximize data comparability by adopting a common platform and a common set of procedures to generate compatible data.
Keywords: other
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| Contributor(s) |
Bammler T, Beyer RP, Farin FM, Kavanagh TJ, Quigley SD, Bumgarner RE, Kerr KF, Qin L, Bhattacharya S, Fry RC, Milton S, Samson LD, Xuan S, Boorman GA, Cunningham ML, Boyles A, Dressman HK, Freedman JH, Li Y, Schwartz DA, Slifer S, Speer MC, Bradford BU, Deng S, Kaufmann WK, Perou CM, Rusyn I, Shi Y, Swenberg JA, Tian R, Bushel PR, Fannin RD, Li J, Paules RS, Sieber SO, Tennant RW, Tucker CJ, Chaturvedi K, Harper A, Hurban P, Lobenhofer EK, Phillips K, Qiu Y, Choi D, Lapidus JA, Humble MC, Suk WA, Houten BV, Weis BK, Jing L, Shin J, Sullivan RC, Zarbl H, Lasarev MR, Palmer VS, Spencer PS, Sproles DI, Lu X, Nagalla SR, O'Malley JP, Pattee P, Rodland M, Todd SA, Malek RL |
| Citation(s) |
15846362 |
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| Submission date |
Mar 29, 2005 |
| Last update date |
Feb 18, 2018 |
| Contact name |
Kenneth Lyon Phillips |
| E-mail(s) |
kphillips@icoria.com
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| Phone |
919 425 3075
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| Organization name |
Paradigm Array Labs
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| Street address |
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| City |
Research Triangle Park |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
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| Platforms (12)
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| GPL81 |
[MG_U74Av2] Affymetrix Murine Genome U74A Version 2 Array |
| GPL891 |
Agilent-011978 Mouse Microarray G4121A (Feature Number version) |
| GPL922 |
Agilent-011472 Mouse Development Oligo Microarray G4120A (Feature Number version) |
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| Samples (215)
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| Relations |
| BioProject |
PRJNA92677 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE2458_RAW.tar |
4.1 Mb |
(http)(custom) |
TAR |
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