RNA-Seq identifies condition-specific biological signatures of ischemia-reperfusion injury in the human kidney

BMC Nephrology

Table 1 Condition-specific criteria for selecting modules of interest among 49 modules

Condition	Expression pattern	Criteria
Ischemia effect	Upregulated	\( {\left\{\left[{\mathit{\log}}_2\left(\overline{I}/\overline{P}\right)\right]\right\}}_{module_i}\ge 1\ AND\ {\left\{\left[{\mathit{\log}}_2\left(\overline{R}/\overline{P}\right)\right]\right\}}_{module_i}\ge 1 \)
Ischemia effect	Downregulated	\( {\left\{\left[{\mathit{\log}}_2\left(\overline{I}/\overline{P}\right)\right]\right\}}_{module_i}\le 1\ AND\ {\left\{\left[{\mathit{\log}}_2\left(\overline{R}/\overline{P}\right)\right]\right\}}_{module_i}\le 1 \)
Reperfusion effect	Upregulated	\( {\left\{\left[{\mathit{\log}}_2\left(\overline{R}/\overline{I}\right)\right]\right\}}_{module_i}\ge 1\ AND\ {\left\{\left[{\mathit{\log}}_2\left(\overline{R}/\overline{P}\right)\right]\right\}}_{module_i}\ge 1 \)
Reperfusion effect	Downregulated	\( {\left\{\left[{\mathit{\log}}_2\left(\overline{R}/\overline{I}\right)\right]\right\}}_{module_i}\le 1\ AND\ {\left\{\left[{\mathit{\log}}_2\left(\overline{R}/\overline{P}\right)\right]\right\}}_{module_i}\le 1 \)

\( \overline{P,}\overline{I},\overline{R}: \) the mean value of TPM for the genes in pre-ischemia, ischemia, and reperfusion groups in a module, respectively, i = 1..49

ISSN: 1471-2369