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| Status |
Public on Sep 14, 2007 |
| Title |
A Comparison of microarray and MPSS Technology Platforms for Expression Analysis of Arabidopsis |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
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| Summary |
A comparison of microarray and MPSS technologies can help to establish the metrics for data comparisons across these technology platforms and determine some of the factors affecting the measurement of mRNA abundances using different platforms. Here, different Treatments/Conditions based on different Arabidopsis tissues were used for three different platforms include MPSS, Affymetrix and Agilent.
Keywords: MPSS, Affymetrix, Agilent
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| Overall design |
For the comparison, 11 different samples were used: Callus, Inforescence, Leaf, Root, Silique, Afamous Inflorescence, Ap1-10 Inflorescence, Ap3-6 Inflorescence, Sup/Ap1 Inflorescence, Leaves SA 4 hr and Leaves SA 52 hr. For details about samples, see Meyers Lab (http://mpss.udel.edu/at). All RNA samples were created in Meyers Lab. MPSS experiments were performed in Meyers Lab. Affymetrix experiments were performed in St. Clair Lab (http://stclairlab.ucdavis.edu/). Agilent experiments were performed by Sean J Coughlan from Agilent (http://www.agilent.com/). Two replicates for each samples were used in Affymetrix platform except Silique sample. Two replicates for each samples were used in Agilent platform.
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| Contributor(s) |
Chen J, Agrawal V, Rattray M, West MA, St.Clair DA, Michelmore RW, Coughlan SJ, Meyers BC |
| Citation(s) |
17997849 |
| Submission date |
Sep 10, 2007 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Junfeng Chen |
| E-mail(s) |
chenj@cs.man.ac.uk
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| Organization name |
University of Manchester
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| Department |
School of Computer Science
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| Street address |
Kilburn Building, Oxford Road
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| City |
Manchester |
| ZIP/Postal code |
M13 9PL |
| Country |
United Kingdom |
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| Platforms (3) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
| GPL888 |
Agilent-011839 Arabidopsis 2 Oligo Microarray G4136A (Feature Number version) |
| GPL5800 |
Arabidopsis mRNA MPSS signatures |
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| Samples (44)
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| Relations |
| BioProject |
PRJNA102467 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE8994_RAW.tar |
391.9 Mb |
(http)(custom) |
TAR (of CEL, TIFF, TXT) |
| Processed data included within Sample table |
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