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To reduce the complexity we chose to use a long residence time for most analyses presented.
Except for some of the properties concerning the topology of the network, which were determined using the giant network component, most analyses presented in this study were performed on the whole network map, including the smaller components.
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The impact of these factors is in all likelihood limited because most of the analyses presented here relate to the period 1996 2005.
The large sample size provides sufficient power to detect differences in circulating hormone concentrations between categories as small as 10% for most of the analyses presented.
Representative R models and output for most analyses are presented in Appendix S1.
The most remarkable outcome of the analyses presented here is the supposed reciprocal paraphyly of Crustacea and Hexapoda, already suggested in previous studies [ 15, 16, 32], and here confirmed on the basis of the largest data set available so far for mitochondrial genomes of Pancrustacea.
In agreement with the phylogenetic analyses presented earlier, most of the amino acid sequences of the proteins encoded in the FPI region of F. noatunensis subsp. orientalis are more similar to the corresponding genes in F. philomiragia subsp. philomiragia than to those in the human pathogenic genomes analyzed.
For analyses presented here, the most severe histologic category was assigned if multiple biopsies were performed.
The most significant conclusion from the phylogenetic analyses presented here is that the state of pterioidean systematics is no longer in chaos.
Note that during the course of an outbreak, significant clusters may occur at several scales (Fig. 3), but only the most significant is considered for the analyses presented in this work.
In summary, the micro-array analyses presented here represent the most comprehensive evaluation of transcriptional changes during immobilization-induced muscle atrophy in humans.
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