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It is difficult to dig out detailed information from the position conservation correlation matrix R(con)L×L of PDZ database, because too many conservative positions complicate the analysis.
The position conservation correlation matrix can be derived from the reduced position frequency matrix FM×L.
Then the position conservation correlation matrix and position mutation correlation matrix is constructed from the amino acid position mutative equation.
Fig. 2 A is the relief map of position conservation correlation matrix R(con)L×L of PDZ database.
Fig. 2 B is the contour map of position conservation correlation matrix R(con)L×L of PDZ database.
The position conservation correlation matrix R(con)L×L of PDZ is graphically shown in Fig. 2. The matrix R(con)L×L is symmetric to the diagonal line.
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Following the procedure described in Method section, we first perform the conservation position correlation analysis to the PDZ protein family.
Software used for conservation and correlation calculations is available to academics under request.
LNS revealed considerable conservation of correlation structure between the two species' expression networks.
Actually, only the EI and EN of the OBP genes are directly associated with cluster conservation (partial correlation analysis, t = −2.831 and t = 2.382, P = 0.009 and P = 0.025, respectively).
In 2006, we reported a systematic analysis of this gene organization focusing on structural features, chromosomal distribution, evolutionary conservation, expression correlation and functional association among involved genes (4).
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