Open Access Highly Accessed Research article

Systems biology of interstitial lung diseases: integration of mRNA and microRNA expression changes

Ji-Hoon Cho1, Richard Gelinas12, Kai Wang1, Alton Etheridge1, Melissa G Piper3, Kara Batte3, Duaa Dakhlallah3, Jennifer Price2, Dan Bornman2, Shile Zhang1, Clay Marsh3 and David Galas124*

Author Affiliations

1 Institute for Systems Biology, Seattle WA USA

2 Division of Health and Life Sciences, Battelle Memorial Institute, Columbus OH USA

3 Division of Pulmonary, Allergy, Critical Care, Sleep Medicine, Davis Heart and Lung Research Institute, Columbus, OH USA

4 University of Luxembourg, 7220 Walfer, Luxembourg

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BMC Medical Genomics 2011, 4:8  doi:10.1186/1755-8794-4-8

Published: 17 January 2011

Additional files

Additional file 1:

Supplemental information on methods, references for these methods, Table S1 (KEGG pathways enriched by differentially expressed genes or genes that are the presumptive targets of differentially expressed microRNAs) and Table S2 (Gene ontology terms associated with different network modules)

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Additional file 2:

Histochemical staining of lung samples.

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Additional file 3:

Quantitative PCR verification of microarray data.

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Additional file 4:

Top scoring gene and miRNA pairs which discriminate ILD from control and ILD subgroups.

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Additional file 5:

Scatter plots of the most robust top scoring gene and miRNA pairs for various conditions.

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Additional file 6:

Key pathways involved in the ILDs.

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Additional file 7:

Modules of DEGs based on KEGG pathways.

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Additional file 8:

Location of Zeb1 binding sites in the miR-23 distal promoter.

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