Open Access Research article

Chronic insulin treatment of diabetes does not fully normalize alterations in the retinal transcriptome

Georgina V Bixler12, Heather D VanGuilder1, Robert M Brucklacher23, Scot R Kimball3, Sarah K Bronson3 and Willard M Freeman12*

  • * Corresponding author: Willard M Freeman wfreeman@psu.edu

  • † Equal contributors

Author Affiliations

1 Department of Pharmacology, Penn State College of Medicine, 500 University Drive, Hershey, PA, USA

2 Genome Sciences Facility, Penn State College of Medicine, 500 University Drive, Hershey, PA, USA

3 Department of Cellular & Molecular Physiology, Penn State College of Medicine, 500 University Drive, Hershey, PA, USA

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BMC Medical Genomics 2011, 4:40  doi:10.1186/1755-8794-4-40

Published: 15 May 2011

Additional files

Additional file 1:

Gene names and qPCR primers. Full genes names, identifiers, aliases, and TaqMan probe numbers for genes examined in qPCR experiments.

Format: XLS Size: 30KB Download file

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Additional file 2:

Not Normalized probes. Microarray data for the probes in the Not Normalized cluster. Data provided includes the Illumina ProbeID, p-value for each pair-wise comparison, fold change and direction of regulation for each pairwise comparison, gene symbol, Entrez Gene ID#, and gene name.

Format: XLS Size: 30KB Download file

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Additional file 3:

Partially Normalized probes. Microarray data for the probes in the Partially Normalized cluster. Data provided includes the Illumina ProbeID, p-value for each pair-wise comparison, fold change and direction of regulation for each pairwise comparison, gene symbol, Entrez Gene ID#, and gene name.

Format: XLS Size: 140KB Download file

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Additional file 4:

Normalized probes. Microarray data for the probes in the Normalized cluster. Data provided includes the Illumina ProbeID, p-value for each pair-wise comparison, fold change and direction of regulation for each pairwise comparison, gene symbol, Entrez Gene ID#, and gene name.

Format: XLS Size: 230KB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 5:

Inverted probes. Microarray data for the probes in the Inverted cluster. Data provided includes the Illumina ProbeID, p-value for each pair-wise comparison, fold change and direction of regulation for each pairwise comparison, gene symbol, Entrez Gene ID#, and gene name.

Format: XLS Size: 15KB Download file

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Additional file 6:

Normalized network. Example gene network normalized with insulin treatment. A gene network centered around c-myc that was differentially expressed with diabetes was almost completely normalized by insulin treatment. Expression values for the control versus diabetic groups are presented in A and for the insulin-treated diabetic versus diabetic comparison in B. Relationships are presented as lines and arrows. Red lines represent activation or positive regulation of expression while green lines indicate inhibition or negative regulation of expression. Grey lines are known protein-protein interactions and dashed lines are indirect relationships. Gene symbols are coded as green for significantly reduced expression, red for significantly reduced expression, and white for no change in expression.

Format: PDF Size: 230KB Download file

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