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Manual model correction of the structures was carried out using the program COOT (Emsley and Cowtan, 2004 ) and restrained refinement was performed with REFMAC5 (Murshudov et al., 1997 ) using TLS refinement (Translation/ Libration / Screw ) to obtain models that were refined to Rwork/Rfree of 22.5%/26.4% for the quaternary complex and 25.9%/29.4% for the heterodimer.
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As shown in the Fig. 6, comparing the two correction methods, the RMS values of "periodical correction" are better than those of "model correction" for most satellites, with an improvement of 8.9%, 11.7% and 13.5%.
Importantly, a number of the originally identified DMRs remained significant after CETS model correction and portion of these that had previously not survived multiple correction testing now passed genome-wide significance.
After additional gene model correction and identification of related unpredicted genes (see gene annotation below), these methods identified 1990 genes and pseudogenes that probably encode GPCR proteins.
The model was completed in alternating cycles of model correction in COOT102 and restrained refinement in Refmac5103.
In this paper therefore, a new method of model correction, referred to as the Orthogonality Sensitivity Method (OSM), is proposed.
However, a model reduction may jeopardize some of the existing methods that may subsequently be used during the next stage of model correction.
The results of model correction and periodical correction are shown by green and red bars, respectively.
Here we explore the extent of model correction that can be brought about by systematically comparing the model predictions for single and multiple gene deletions with available experimental data.
Each of them is a potential candidate from model correction and for the identification of new secondary metabolite biosynthesis genes with specifically constrained gene expression patterns.
The proposed approach employs a variant of the model correction factor method developed by O. Ditlevsen, which is further improved by the use of a novel response surface technique.
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