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Protein Array

Key functionality

With Qlucore Omics Explorer, the researcher can examine and analyze data from protein array experiments. The following functionality will be of specific interest:

  • Investigate any structures in the data by using variance filtering combined with Principal Component Analysis (PCA) and hierarchical clustering.
  • Perform statistical tests using ANOVA to enhance results.
  • Generate a list of proteins that classifies data based on a selection of statistical tests: F-test, t-tests or regression.
  • Work with Variable PCA plots to find correlation and networks among selected proteins.



Platform specific data import

Qlucore Omics Explorer supports data import from a number of different sources. If you have used an array from the companies listed below, a brief description of the required import steps is also provided. Please note, however, that Qlucore Omics Explore expects data to be normalized before input. If you have data from other sources, please see the general data import section.

Illumina: Illumina provides the Genome Studio Software. The PT module handles protein data. Data can be exported in various formats which are easily imported into Qlucore Omics Explorer. See the Illumina product documentation on how to export a normalized ".txt" file. Start Qlucore OE and import the file using the Open command from the File menu and then the Import Wizard.

Invitrogen: Invitrogen provides the Protoarray Prospector software for free (see www.invitrogen.com for more details). The Protoarray Prospector software automatically generates a file called "Comparisons Results.txt" in the same folder as the Prospector software resides. That file is generated when two or more arrays are compared. Start Qlucore OE and import the file using the Open command from the File menu and then the Import Wizard.


General data import

The Qlucore Import Wizard guides you through import of both data and annotations from many platforms and instruments. You need to start the work with a file with one of the following extensions, .txt, .csv or .tsv. The data should be normallized according to the instrument manufacturers instructions. Open your file from Qlucore Omics Explorer and select the Import Wizard.