<i>nCRGPs</i> comprise a higher percentage of highly coexpressed genes.

<p>Compared with <i>nCRGPs</i>, <i>CRGPs</i> have a lower percentage of gene pairs with high coexpression, as defined by the threshold of <i>CoExp</i> shown in the bottom, after controlling for chromosomal linkage. <i>CoExp</i> is measured by Spearman's ρ of expression levels between genes (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032284#pone.0032284.s006" target="_blank">Fig. S6</a> when <i>CoExp</i> was measured by Pearson's <i>r</i>). Error bars show one standard error of the proportion. <i>P</i>-values are from a χ² test.</p

Coexpression in and characteristics of chromosomal linkage of <i>CRGPs</i> vs. <i>nCRGPs</i>.

<p>Box plots of <i>ln</i>[(1+<i>CoExp</i>)/(1−<i>CoExp</i>)] of <i>CRGPs</i> vs. <i>nCRGPs</i> in (<b>A</b>) all gene pairs, (<b>C</b>) unlinked gene pairs, and (<b>D</b>) linked gene pairs with specified ranges of <i>D</i>. <i>CoExp</i> is measured by Spearman's ρ of expression levels between genes across human tissues (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0032284#pone.0032284.s002" target="_blank">Fig. S2</a> for <i>CoExp</i> measured by Pearson's <i>r</i>). (<b>B</b>) Box plots of log<i>D</i> of linked <i>CRGP</i> vs. linked <i>nCRGPs</i>. Upper quartile, median, and lower quartile values are indicated in each box. Bars outside the box indicate semi-quartile ranges. <i>P</i>-values are from a Mann-Whitney <i>U</i> test.</p

Blastn results

Applying blastn to obtain the taxonomic information of each direct shotgun sequencing read that contain 16S rRNA gene sequenc

16S_abundance_95-15

Summary of 16S rRNA based abundance calculation resul

Readme

Readm

16S_GraPhlAn_20RA

Code for constructing phylogenetic tree in GraPhlA

Additional file 1: of Metabolic characteristics of dominant microbes and key rare species from an acidic hot spring in Taiwan revealed by metagenomics

Supplimentary material on metagemic analysis. (DOCX 312 kb