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. 2007 Apr 13;3(4):e69. doi: 10.1371/journal.pcbi.0030069

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© 2007 Zhu 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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(A) A segregating population (an F2 intercross in this case) is simulated using the QTL Cartographer software suite (Rqtl, Rcross, and Zmapqtl). The QTL model for a trait is defined using the Rqtl program, and the heritability of the QTL is defined using the Rcross program.

(B) The traits simulated by Rcross are used as the head nodes in the simulated network. The remaining traits are simulated based on the values of the head nodes according to the DAG structure and the set of conditional probability density functions associated with this structure.

(C) After traits for all nodes in the network are simulated, they are scanned for QTLs using the Zmapqtl program. The traits and the associated QTL are then input into the network reconstruction program.