MAGE::Meta-Analysis of Gene Expression

MAGE: Meta-Analysis of Gene Expression

Use the panel below to upload and prepare each individual data

Drag & drop files here

Open the file Browser

Click the individual cell to activate each process. Drag and drop or select a file to add a new data set. The maximum total number of studies allowed is 50. When all data sets have been processed, Click Start Upload Files button to proceed.
When all data sets have been Uploaded, Click Execute button to proceed.

The study format consists of one line per feature, each containing different columns of data. The first row contains ID and cases labels. The second line contains the subject's class for controls and cases. The maximum file size per upload is 30M. Data can be uploaded as a tab-delimited text file (.txt). Example:

ID	GSM1432676	GSM1432677	GSM1432646
CLASS	CONTROL		CONTROL		CASE
639396	-0.079391	0.1156792	-0.260034

Download sample files from here for meta-analysis

ID	GSM1432676	GSM1432677	GSM1432646
CLASS	CONTROL		CASE		CASE2
639396	-0.079391	0.1156792	-0.260034

Download sample files from here for multivariate

File List Start Upload Files Stop Upload Files

Data	FileSize	Class	Status	Progress

No files uploaded.

Use the panel below to define the tool options

Set Gene ID / Symbol update

Provides additional controls.

transformation method

Combines the multiple entries of the same gene into one using average, maximum or minimum value

Choose Platform for each uploaded study. If a Platform is not available in the list choose to upload the file.

Annotation / Define the subject's class for controls and cases

Control Class

Case Class

Case2 Class

Only for Multivariate Analysis

Meta-analysis options

Select Level of Significance of Mulitple Comparisons:

Select multiple comparison Type:

multiple-comparison correction methods. For the family-wise error rate (FWER) system provides the Bonferroni, Holm, Holand and Sidak methods and for the False Discovery Rate(FDR) system provides the Hochberg and Simes correction methods.
One step: Bonferroni, Sidak, Step Up: Simes, Hochberg, Step Down: Holm, Holland.

Select If Multivariate Analysis is running

Provides additional controls.

Select venn correction Type: Only for multivariate analysis.

Select venn choice Type: Only for multivariate analysis.

Select alpha : Only for multivariate analysis.

Select multiple Tests Type: Only for multivariate analysis.

Set Functional Enrichment Analysis

Provides additional controls.

Select organism for functional enrichment analysis: Select organism that maches your input query gene list.

Select Threshold Type: Allows to choose method for multiple testing correction.

Select P-value cut-off: Select the significance threshold. Only the results that pass this threshold will be shown.

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