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Table 3 The top 10 biological processes for cold-related miRNA target genes

From: MicroRNAs regulate gene plasticity during cold shock in zebrafish larvae

Biological Processes of

P value*

Cold-induced miRNA target genes

 Regulation of transcription, DNA-dependent

3.30E-04

 Polyol metabolic process

3.40E-04

 Regulation of RNA metabolic process

5.20E-04

 Regulation of transcription

6.70E-04

 Regulation of small GTPase mediated signal transduction

1.10E-03

 Ion transport

1.10E-03

 Glycerol metabolic process

1.30E-03

 Alditol metabolic process

1.30E-03

 Organophosphate metabolic process

1.50E-03

 Metal ion transport

1.60E-03

Cold-repressed miRNA target genes

 Metal ion transport

1.60E-04

 Protein amino acid phosphorylation

3.60E-04

 Intracellular signaling cascade

7.60E-04

 Ion transport

8.50E-04

 Cation transport

1.80E-03

 Potassium ion transport

1.80E-03

 Regulation of small GTPase mediated signal transduction

1.80E-03

 Organophosphate metabolic process

3.10E-03

 Monovalent inorganic cation transport

3.60E-03

 Regulation of Ras protein signal transduction

4.70E-03

  1. *calculated by Fisher Exact which is adopted to measure the gene-enrichment in annotation biological process
  2. Target genes of 29 up- and 26 down-regulated known miRNAs were predicted by TargetScan (Additional file 5). The target genes were annotated by DAVID bioinformatics resources 6.7. The top 10 biological processes of the target genes and P values are shown