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Unravelling the murine osteoblast differentiation pathway by network structure analysis using time-series microarray data

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6 Author(s)
van Someren, E.P. ; Dept. of Mediametics, Delft Univ. of Technol., Netherlands ; Vaes, B.L.T. ; Steegenga, W.T. ; Sijbers, A.M.
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We propose a reverse engineering scheme to discover genetic regulation from genome-wide transcription data that monitors the dynamic transcriptional response after a change in cellular environment. The interaction network is estimated by solving a linear model using simultaneous shrinking of the least absolute weights and the prediction error. The proposed scheme has been applied to the murine C2C12 cell-line stimulated to undergo osteoblast differentiation. Results show that our method discovers genetic interactions that display significant enrichment of co-citation in literature. More detailed study showed that the inferred network exhibits properties and hypotheses that are consistent with current biological knowledge.

Published in:

Computational Systems Bioinformatics Conference, 2005. Workshops and Poster Abstracts. IEEE

Date of Conference:

8-11 Aug. 2005