Table 5 Enrichment of GO terms of negatively and positively correlated smRNA-mRNA expression pairs to manually assorted higher order categories

Protein modification

Negative correlation

GO:0006457

Protein folding

0.000

GO:0051082

Unfolded protein binding

0.002

GO:0004252

Serine-type endopeptidase activity

0.013

GO:0018106

Peptidyl-histidine phosphorylation

0.009

GO:0016925

Protein sumoylation

0.005

GO:0003755

Peptidyl-prolyl cis-trans isomerase activity

0.025

GO:0036065

Fucosylation

0.034

GO:0000413

Protein peptidyl-prolyl isomerization

0.021

Positive correlation

GO:0019787

Small conjugating protein ligase activity

0.021

GO:0006487

Protein N-linked glycosylation

0.045

GO:0047485

Protein N-terminus binding

0.013

GO:0070534

Protein K63-linked ubiquitination

0.011

GO:0042787

Protein ubiquitination in ubiquitin-dependent protein catabolic process

0.021

GO:0019773

Proteasome core complex, alpha-subunit complex

0.034

GO:0004180

Carboxypeptidase activity

0.000

Immunity

Negative correlation

GO:0016446

Somatic hypermutation of immunoglobulin genes

0.009

Positive correlation

GO:0002666

Positive regulation of T cell tolerance induction

0.015

GO:0042130

Negative regulation of T cell proliferation

0.024

GO:0002698

Negative regulation of immune effector process

0.036

Signaling

Negative correlation

GO:0023014

Signal transduction by phosphorylation

0.046

GO:0009909

Regulation of flower development

0.034

GO:0010019

Chloroplast-nucleus signaling pathway

0.011

GO:0031930

Mitochondria-nucleus signaling pathway

0.011

Positive correlation

GO:0031930

Mitochondria-nucleus signaling pathway

0.000

DNA damage

Negative correlation

GO:0032404

Mismatch repair complex binding

0.001

GO:0006307

DNA dealkylation involved in DNA repair

0.034

GO:0032300

Mismatch repair complex

0.005

GO:0031072

Heat shock protein binding

0.005

GO:0008630

Intrinsic apoptotic signaling pathway in response to DNA damage

0.038

Positive correlation

GO:0008630

Intrinsic apoptotic signaling pathway in response to DNA damage

0.036

GO:0006289

Nucleotide-excision repair

0.015

Gene expression

Negative correlation

GO:0035552

Oxidative single-stranded DNA demethylation

0.028

GO:0030261

Chromosome condensation

0.004

Positive correlation

GO:0031048

Chromatin silencing by small RNA

0.008

Translation

Negative correlation

GO:0006412

Translation

0.030

GO:0003735

Structural constituent of ribosome

0.006

GO:0022627

Cytosolic small ribosomal subunit

0.009

GO:0042255

Ribosome assembly

0.013

GO:0016071

mRNA metabolic process

0.050

GO:0006364

rRNA processing

0.000

Positive correlation

GO:0008353

RNA polymerase II carboxy-terminal domain kinase activity

0.032

GO:0005689

U12-type spliceosomal complex

0.008

GO:0015935

Small ribosomal subunit

0.000

Metabolism

Negative correlation

GO:0043734

DNA-N1-methyladenine dioxygenase activity

0.030

GO:0051747

Cytosine C-5 DNA demethylase activity

0.030

GO:0043462

Regulation of ATPase activity

0.017

GO:0019213

Deacetylase activity

0.017

GO:0016811

Hydrolase activity

0.045

GO:0019478

D-amino acid catabolic process

0.001

GO:0016308

1-phosphatidylinositol-4-phosphate 5-kinase activity

0.050

GO:0042264

Peptidyl-aspartic acid hydroxylation

0.035

Positive correlation

GO:0006662

Glycerol ether metabolic process

0.008

GO:0042775

mitochondrial ATP synthesis coupled electron transport

0.017

GO:0001522

Pseudouridine synthesis

0.006

GO:0003879

ATP phosphoribosyltransferase activity

0.047

GO:0009982

Pseudouridine synthase activity

0.005

GO:0005388

Calcium-transporting ATPase activity

0.024

GO:0016847

1-aminocyclopropane-1-carboxylate synthase activity

0.018

GO:0042218

1-aminocyclopropane-1-carboxylate biosynthetic process

0.017

GO:0015035

Protein disulfide oxidoreductase activity

0.012

GO:0009062

Fatty acid catabolic process

0.003

GO:0015020

Glucuronosyltransferase activity

0.008

GO:0047661

Amino-acid racemase activity

0.025

GO:0009252

Peptidoglycan biosynthetic process

0.008

GO:0016303

1-phosphatidylinositol-3-kinase activity

0.037

GO:0036092

Phosphatidylinositol-3-phosphate biosynthetic process

0.050

GO:0042823

Pyridoxal phosphate biosynthetic process

0.001

GO:0019213

Deacetylase activity

0.015