QIAseq miRNA Differential Expression

The workflow calculates differential expressions for expression tables with associated metadata using multi-factorial statistics based on a negative binomial Generalized Linear Model (GLM). Both Grouped on Mature and Grouped on Seed expression tables can be used.

The expression tables are sent to:

To run the workflow, go to:

Ready-to-Use Workflows | Small RNA Sequencing (Image small_rna_folder_closed) | QIAseq miRNA Differential Expression (Image qiaseqsmallrna_diffexpress_16_n_p)

Choose the expression data to be analyzed (figure 7.8). The workflow takes both Grouped on Mature and Grouped on Seed expression tables, but note that only samples generated using the same parameters should be analyzed together.

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Figure 7.8: Select the expression data to be compared.

Then select the QIAseq Small RNA Reference Data Set as in figure 7.9. You can download the Data Set if you have not done so before.

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Figure 7.9: Select and download if necessary the relevant Reference Data Set.

Following this, the parameters for the QIAseq miRNA Differential Expression need to be specified (figure 7.10).

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Figure 7.10: Selecting parameters for QIAseq miRNA Differential Expression.

Metadata table Select a metadata object that associates the selected input objects to metadata used by the RNA-Seq analysis.
Test differential expression due to Select the factor to be tested for differential expression.
Comparisons Select groups to be compared. It is possible to choose between "Across groups", "All group pairs", and "Against control group".
Control group If "Against control group" was selected in "Comparisons", a control group must be selected.

An example of a metadata table is shown in figure 7.11.

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Figure 7.11: Select the expression data to be compared.

Metadata is required when defining the experimental design in the Differential Expression for miRNA tool, and can be used to add extra layers of insight in the Create Heat Map for miRNA tool. To learn more about how to create a metadata table, how to import a metadata table, or how to associate data elements with metadata, see http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Metadata.html.

In the final step, standard result handling is performed: the selected parameters can be previewed, and an output location must be chosen.

The workflow will output the following files: