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Figure 5 | BMC Systems Biology

Figure 5

From: The extended TILAR approach: a novel tool for dynamic modeling of the transcription factor network regulating the adaption to in vitro cultivation of murine hepatocytes

Figure 5

Transcription factor network describing the cellular response of murine primary hepatocytes to the addition of fresh medium. The ExTILAR-inferred transcription factor network consists of 3 types of nodes differentiated by their shape, the target DETFs (circle), the regulating transcription factors (diamond) and clusters (octagon). The color of the nodes denote for the corresponding cluster membership, while the rim color reflects the general tendency of the expression profile (increasing: red; decreasing: green). The size of the nodes corresponds to the number of outgoing edges (higher numbers equal more outgoing edges) and highlights DETFs with a hub-like role. TF-to-gene interactions are outlined using blue edges. Inferred gene-to-TF edges are either green or gray, depending on whether they are supported by prior-knowledge (green) or not (gray). The regulating function of these edges is reflected by the target arrow. A red bar denotes for repression while a green arrow represents activation. Waved edges represent inferred direct gene-to-gene relations which were found in literature. As this information was not used during the inference, the presence of these relations within the inferred network supports the validity of the constructed TFN

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