Table 5 RNA-Seq: GO: Biological Process and Co-expression analysis.

From: Systems Analysis of the Liver Transcriptome in Adult Male Zebrafish Exposed to the Plasticizer (2-Ethylhexyl) Phthalate (DEHP)

GO Term

Bonferroni q-value

GO: Biological Process

DEHP - Total

cotranslational protein targeting to membrane

1.01E-19

nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

1.79E-16

translational initiation

2.84E-15

peptide biosynthetic process

6.43E-14

EE2 - Total

small molecule biosynthetic process

2.27E-10

lipid biosynthetic process

3.87E-09

fatty acid metabolic process

7.42E-08

cholesterol metabolic process

9.28E-06

DEHP - Unique

protein targeting to ER

2.86E-19

translation

2.03E-16

rRNA processing

5.46E-14

ribonucleoprotein complex biogenesis

6.20E-11

EE2 - Unique

triglyceride metabolic process

5.09E-01

purine nucleoside monophosphate metabolic process

5.22E-01

response to dietary excess

5.47E-01

neutral lipid metabolic process

7.28E-01

Co-Expression

DEHP - Total

Genes up-regulated through activation of mTORC1 complex.

6.79E-14

Genes involved in cholesterol homeostasis.

6.58E-12

EE2 - Total

Genes down-regulated in hepatocellular carcinoma (HCC) compared to normal liver samples.

3.12E-05

Genes encoding proteins involved in metabolism of fatty acids.

4.65E-04

DEHP - Unique

Molecular timetable composed of 162 time-indicating genes

 

(182 probes) in the peripheral (liver) clock.

2.49E-12

Genes up-regulated in liver from mice transgenic for SREBF1 or SREBF2 [GeneID = 6720, 6721] and down-regulated in mice lacking SCAP [GeneID = 22937].

4.78E-10

  1. Significant DE expressed liver transcripts (FDR < 0.4) as determined by RNA-Seq from 5.8 nM DEHP and 0.65 nM EE2 exposed adult male zebrafish relative to control fish were mapped to their human homologs using Ensembl homology. GO: Biological Process and co-expression terms and were enriched using ToppFun. The most significant terms for the DEHP and EE2 exposures, and those unique to DEHP (i.e. not present in in EE2 exposed) are presented. Expanded lists are found in Supplementary Tables S7S10.