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To address these points first we should remember that the data set used to infer directionality is not the whole set of gametes, as used for network construction, but just those gametes that are shared by the two samples in consideration.
Both these low-expressed and unique-profile classes of genes were not used for network construction.
The enriched TFBSs (i.e. ORI > = 2, Materials and Methods) were used for network construction.
The adaptative association rule algorithm, used for network construction, recommends evaluating the expression along a sufficient number of samples.
Consensus sequences of the LAVA 3' part (U1- AluSz-U2-L1ME) used for network construction are provided in Additional file 1: Figure S4.
Expression measurements used for network construction were obtained from publicly available Affymetrix Arabidopsis ATH1 Genome Array experiments available in NCBI GEO (platform GPL198).
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Next, the R package WGNCA was used for network constructions (Langfelder and Horvath 2008).
These sub-data sets were also used for networks construction.
(2) Then, this slightly larger set of genes was used again for network construction.
UCINET 6 [60] was used for all network analysis and construction and NetDraw [61] was used for network visualisation.
The primary data set was used for network-based biomarker construction and the prospective data set was used for diagnostic evaluation.
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used for pavement construction
used for tree construction
used for network resource
used for network troubleshooting
used for schema construction
used for network localization
used for road construction
used for network training
used for network maintenance
used for network generation
used for network simulation
used for vector construction
used for network capacity
used for highway construction
used for socket construction
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