Elucidation of IL-1/TGF-β interactions in mouse chondrocyte cell line by genome-wide gene expression  N. Takahashi, Ph.D., K. Rieneck, M.D., P.M. van der Kraan, Ph.D., H.M. van Beuningen, Ph.D., E.L. Vitters, B.Sc., K. Bendtzen, M.D., W.B. van den Berg, Ph.D.  Osteoarthritis and Cartilage  Volume 13, Issue 5, Pages 426-438 (May 2005) DOI: 10.1016/j.joca.2004.12.010 Copyright © 2005 OsteoArthritis Research Society International Terms and Conditions

Fig. 1 Relationship among differentially regulated genes. A) Relationship between genes up-regulated by IL-1 and those down-regulated by TGF-β. Note that the overlapping region forms the Cluster 1C. B) Relationship between genes down-regulated by IL-1 and those up-regulated by TGF-β. Cluster names correspond to that described in Table III. Note that the overlapping region forms the Cluster 2C. See text for further explanation. Osteoarthritis and Cartilage 2005 13, 426-438DOI: (10.1016/j.joca.2004.12.010) Copyright © 2005 OsteoArthritis Research Society International Terms and Conditions

Fig. 2 A tree view representation of the Cluster 1. A hierarchical cluster analysis was performed as described in Materials and methods. Each row represents a gene and each column represents a sample. The colors represent relative intensity of the signal for each gene in each sample compared to the average intensity of the entire row; green: decrease, red: increase, black: no change. Cluster 1 consisted of genes up-regulated by IL-1. Two distinct sub-clusters were named Cluster 1A and 1B, respectively. A. A magnified view of the sub-cluster 1A. The sub-cluster 1AA contained majority of genes counter-regulated by TGF-β. B. The magnified view of the Cluster 1B. This sub-cluster contained all genes that are enhanced by TGF-β. Osteoarthritis and Cartilage 2005 13, 426-438DOI: (10.1016/j.joca.2004.12.010) Copyright © 2005 OsteoArthritis Research Society International Terms and Conditions

Fig. 2 A tree view representation of the Cluster 1. A hierarchical cluster analysis was performed as described in Materials and methods. Each row represents a gene and each column represents a sample. The colors represent relative intensity of the signal for each gene in each sample compared to the average intensity of the entire row; green: decrease, red: increase, black: no change. Cluster 1 consisted of genes up-regulated by IL-1. Two distinct sub-clusters were named Cluster 1A and 1B, respectively. A. A magnified view of the sub-cluster 1A. The sub-cluster 1AA contained majority of genes counter-regulated by TGF-β. B. The magnified view of the Cluster 1B. This sub-cluster contained all genes that are enhanced by TGF-β. Osteoarthritis and Cartilage 2005 13, 426-438DOI: (10.1016/j.joca.2004.12.010) Copyright © 2005 OsteoArthritis Research Society International Terms and Conditions