Datasets available for download


ANATOMICAL PARTS


Human FDA tissue panel

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Platform: Affymetrix Human133 Plus 2
Number of genes (probe sets): 54613
Number of tissue types: 33 (FDA panel)
Summarized from: 4179 microarrays
Normalization: RMA + inter-experiment scaling
Source: GEO, ArrayExpress

This dataset provides robust expression values for tissues from the FDA tissue panel. The number of samples and original source of data are indicated in the (see descriptions file). The original GENEVESTIGATOR dataset covers more than 250 distinct tissue types for this platform. Profiling gene expression across the complete set of tissues can be done in GENEVESTIGATOR.


Arabidopsis tissue panel

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Platform: Affymetrix ATH1
Number of genes (probe sets): 22746
Number of tissue types: 17
Summarized from: 5057 microarrays
Normalization: RMA + inter-experiment scaling
Source: GEO, ArrayExpresss, NASCArrays, Gruissem Lab

This dataset contains the average expression vectors of 17 distinct Arabidopsis tissue types, with a coverage of at least 25 replicates per category (see descriptions file). The visualization of expression across more than 100 Arabidopsis tissue and cell types can be done at GENEVESTIGATOR.

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DEVELOPMENTAL STAGES


Mouse developmental stages

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Platform: Affymetrix Mouse Genome U74Av2
Number of genes (probe sets): 12422
Number of stages: 9
Summarized from: 1733 microarrays
Normalization: RMA + inter-experiment scaling
Source: GEO, ArrayExpress

This dataset provides average expression values for nine stages of development of mouse. The number of samples per stage and the original source of data are indicated in the (see descriptions file).

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Drosophila developmental stages

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Platform: Affymetrix Drosophila Genome
Number of genes (probe sets): 13966
Number of stages: 9
Summarized from: 1431 microarrays
Normalization: RMA + inter-experiment scaling
Source: GEO, ArrayExpress


See the descriptions file for more details about the original source of data for each stage of development.




TIME-COURSES


Arabidopsis circadian rhythm

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Platform: Affymetrix ATH1
Number of genes (probe sets): 22746
Number of samples: 51
Summarized from: single series
Normalization: RMA + inter-experiment scaling; log-2 scaled values
Source: NASCARRAYS-196. Authors: Kieron Edwards, Andrew Millar


Non-circadian experiment in tobacco

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Platform: Affymetrix Tobacco genome
Number of genes (probe sets): 272,342
Number of samples: 18
Summarized from: single series
Normalization: RMA; log-2 scaled values
Source: Philip Morris International