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. 2012 Apr 27;7(4):e35700. doi: 10.1371/journal.pone.0035700

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Zhang et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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Solving equation (5) at mean value of the experimental data identifies the optimal bi-clusters for 2-dimensional culture (a, b) and 3 dimensional culture (c, d). The bi-clustering algorithm was solved sequentially by penalizing the previously identified bi-cluster in subsequent runs to avoid significant overlap. Single overlap was identified in the 2D dataset (Sox17) while no overlap was identified in the 3D dataset.