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Each gene was ranked according to its fold change relative to the median of all mouse tissues (see Methods).
Such a calibration was unfortunately not possible directly in vivo in mouse tissues (see Material and Methods).
To validate the ability of this comparative genomics approach to identify 5'UR TFBSs we used publicly available microarray data http://symatlas.gnf.org/SymAtlas/ on samples from diverse mouse tissues (see Additional File 9).
To determine if mouse S100A7/psoriasin expression is upregulated in inflammation, ISH was performed on sections from normal mouse tissues (see Figure 2A) as well as tissue from a model of mouse skin inflammation.
We used the A-C statistical test to identify differentially expressed genes in 94 normal human and 99 normal mouse tissues (see website) using p value thresholds of 5E-2, 5E-4, 5E-4, 5E-5, and 1E-6, which are used hereafter to measure the extent of differential expression.
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In chronically infected untreated mice, pooled gut tissues (see Materials and Methods) were PCR positive in each case and negative when mice were treated with benznidazole for 20 days, including the group that was subsequently immunosuppressed (Fig. 3A).
Primary and immorto MLEC and mouse aortic tissue (see below) were transfected with anti-mouse Rac1 siRNA using Oligofectamine reagent (Invitrogen) following the manufacturer's instructions.
The GnT1IP/ Mgened gene is very highly expressed in mouse testes compared to all other tissues (see Mgat4d BioGPS microarray data [ Wu et al., 2009, 2013]).
Medline articles, other reviews and citation lists in relevant articles were searched for studies on CTGF's expression in human tumor specimens, primary human tumor cell cultures, knock-out mice and normal tissue (see supplement for search terms).
Primary brown adipocytes (BA) were differentiated in culture from pre-adipocytes isolated from mouse inter-scapular brown adipose tissue (See Materials and Methods).
For harvesting of brain tissue (see specific protocols below), mice were deeply anesthetized and euthanized by decapitation.
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