Functional clusters

Information

  • Type Gene Ontology
  • Description regulation of macromolecule metabolic process

Cluster overview

Species Chromosome Experiment Cluster id Cluster size Number of genes E-value
Aethionema arabicum LG-1 3 CH_aar_36 16 17 0.00000000000785588
Arabidopsis lyrata scaffold_1 3 CH_aly_176 10 12 0.0000267211
Brassica napus A10 3 CH_bna_619 9 15 0.00055385
Brassica rapa A10 3 CH_bra_159 12 17 0.0000339003
Capsella rubella scaffold_1 3 CH_cru_311 9 11 0.000450684
Helianthus annuus HanXRQChr03 3 CH_han_560 12 23 0.000169754
Salvia bowleyana GWHASIU00000002 3 CH_sbo_483 17 70 0.000685362
Theobroma cacao Chromosome_1 3 CH_tca_380 8 10 0.000713338
Aethionema arabicum LG-1 4 CH_aar_36 16 17 0.00000000000785588
Arabidopsis lyrata scaffold_1 4 CH_aly_176 10 12 0.0000267211
Brassica napus A10 4 CH_bna_619 9 15 0.00055385
Brassica rapa A10 4 CH_bra_159 12 17 0.0000339003
Capsella rubella scaffold_1 4 CH_cru_311 9 11 0.000450684
Helianthus annuus HanXRQChr03 4 CH_han_560 12 23 0.000169754
Salvia bowleyana GWHASIU00000002 4 CH_sbo_483 17 70 0.000685362
Theobroma cacao Chromosome_1 4 CH_tca_380 8 10 0.000713338

Available child term results

Ontology identifier Description Number of clusters
GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity 14
GO:0000122 negative regulation of transcription by RNA polymerase II 14
GO:0000183 rDNA heterochromatin assembly 16
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 18
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 2
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening 8
GO:0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA 10
GO:0000381 regulation of alternative mRNA splicing, via spliceosome 4
GO:0006275 regulation of DNA replication 8
GO:0006282 regulation of DNA repair 2
GO:0006342 chromatin silencing 16
GO:0006346 DNA methylation-dependent heterochromatin assembly 6
GO:0006348 chromatin silencing at telomere 6
GO:0006355 regulation of transcription, DNA-templated 42
GO:0006357 regulation of transcription by RNA polymerase II 62
GO:0006417 regulation of translation 8
GO:0006990 positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response 6
GO:0009616 RNAi-mediated antiviral immune response 4
GO:0010466 negative regulation of peptidase activity 14
GO:0010468 regulation of gene expression 18
GO:0010495 long-distance posttranscriptional gene silencing 2
GO:0010556 regulation of macromolecule biosynthetic process 2
GO:0010569 regulation of double-strand break repair via homologous recombination 8
GO:0010581 regulation of starch biosynthetic process 4
GO:0010604 positive regulation of macromolecule metabolic process 6
GO:0010608 posttranscriptional regulation of gene expression 6
GO:0010628 positive regulation of gene expression 4
GO:0010629 negative regulation of gene expression 2
GO:0010767 regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage 4
GO:0010845 positive regulation of reciprocal meiotic recombination 2
GO:0010951 negative regulation of endopeptidase activity 28
GO:0010964 regulation of heterochromatin assembly by small RNA 4
GO:0016458 gene silencing 4
GO:0017183 peptidyl-diphthamide biosynthetic process from peptidyl-histidine 18
GO:0030422 production of siRNA involved in RNA interference 2
GO:0031047 gene silencing by RNA 4
GO:0031054 pre-miRNA processing 2
GO:0031087 deadenylation-independent decapping of nuclear-transcribed mRNA 30
GO:0031396 regulation of protein ubiquitination 2
GO:0031508 pericentric heterochromatin assembly 18
GO:0031935 regulation of chromatin silencing 8
GO:0031937 positive regulation of chromatin silencing 14
GO:0032055 negative regulation of translation in response to stress 2
GO:0032147 activation of protein kinase activity 10
GO:0032212 positive regulation of telomere maintenance via telomerase 2
GO:0032268 regulation of cellular protein metabolic process 4
GO:0032269 negative regulation of cellular protein metabolic process 2
GO:0032784 regulation of DNA-templated transcription, elongation 14
GO:0032786 positive regulation of DNA-templated transcription, elongation 8
GO:0032875 regulation of DNA endoreduplication 10
GO:0032876 negative regulation of DNA endoreduplication 2
GO:0032877 positive regulation of DNA endoreduplication 4
GO:0032881 regulation of polysaccharide metabolic process 6
GO:0032922 circadian regulation of gene expression 2
GO:0032953 regulation of (1->3)-beta-D-glucan biosynthetic process 2
GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter 32
GO:0033184 positive regulation of histone ubiquitination 4
GO:0033234 negative regulation of protein sumoylation 6
GO:0034243 regulation of transcription elongation from RNA polymerase II promoter 2
GO:0035065 regulation of histone acetylation 6
GO:0035194 post-transcriptional gene silencing by RNA 2
GO:0035195 gene silencing by miRNA 4
GO:0035196 production of miRNAs involved in gene silencing by miRNA 4
GO:0035278 miRNA mediated inhibition of translation 56
GO:0035280 miRNA loading onto RISC involved in gene silencing by miRNA 4
GO:0040029 regulation of gene expression, epigenetic 4
GO:0042177 negative regulation of protein catabolic process 14
GO:0043407 negative regulation of MAP kinase activity 2
GO:0043433 negative regulation of DNA-binding transcription factor activity 4
GO:0043484 regulation of RNA splicing 2
GO:0043619 regulation of transcription from RNA polymerase II promoter in response to oxidative stress 6
GO:0043666 regulation of phosphoprotein phosphatase activity 4
GO:0044030 regulation of DNA methylation 6
GO:0045014 carbon catabolite repression of transcription by glucose 2
GO:0045727 positive regulation of translation 18
GO:0045732 positive regulation of protein catabolic process 2
GO:0045739 positive regulation of DNA repair 4
GO:0045814 negative regulation of gene expression, epigenetic 2
GO:0045815 positive regulation of gene expression, epigenetic 2
GO:0045892 negative regulation of transcription, DNA-templated 8
GO:0045893 positive regulation of transcription, DNA-templated 4
GO:0045901 positive regulation of translational elongation 18
GO:0045905 positive regulation of translational termination 2
GO:0045910 negative regulation of DNA recombination 2
GO:0045943 positive regulation of transcription by RNA polymerase I 2
GO:0045944 positive regulation of transcription by RNA polymerase II 34
GO:0048026 positive regulation of mRNA splicing, via spliceosome 4
GO:0048255 mRNA stabilization 4
GO:0050732 negative regulation of peptidyl-tyrosine phosphorylation 2
GO:0051091 positive regulation of DNA-binding transcription factor activity 6
GO:0051214 RNAi-mediated antiviral immunity against RNA virus 4
GO:0051252 regulation of RNA metabolic process 4
GO:0051254 positive regulation of RNA metabolic process 4
GO:0051571 positive regulation of histone H3-K4 methylation 8
GO:0051572 negative regulation of histone H3-K4 methylation 2
GO:0051573 negative regulation of histone H3-K9 methylation 2
GO:0051973 positive regulation of telomerase activity 14
GO:0060149 negative regulation of posttranscriptional gene silencing 2
GO:0060195 negative regulation of antisense RNA transcription 2
GO:0060261 positive regulation of transcription initiation from RNA polymerase II promoter 16
GO:0060567 negative regulation of DNA-templated transcription, termination 2
GO:0060966 regulation of gene silencing by RNA 2
GO:0060968 regulation of gene silencing 4
GO:0061158 3'-UTR-mediated mRNA destabilization 4
GO:0061866 negative regulation of histone H3-S10 phosphorylation 2
GO:0070481 nuclear-transcribed mRNA catabolic process, non-stop decay 2
GO:0070829 heterochromatin maintenance 4
GO:0070919 production of siRNA involved in chromatin silencing by small RNA 8
GO:0070920 regulation of production of small RNA involved in gene silencing by RNA 2
GO:0070940 dephosphorylation of RNA polymerase II C-terminal domain 50
GO:0070966 nuclear-transcribed mRNA catabolic process, no-go decay 26
GO:0071049 nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription 2
GO:0071900 regulation of protein serine/threonine kinase activity 8
GO:0072344 rescue of stalled ribosome 12
GO:0080149 sucrose induced translational repression 2
GO:0080163 regulation of protein serine/threonine phosphatase activity 6
GO:0080188 gene silencing by RNA-directed DNA methylation 42
GO:0090065 regulation of production of siRNA involved in RNA interference 16
GO:0090153 regulation of sphingolipid biosynthetic process 2
GO:0090241 negative regulation of histone H4 acetylation 2
GO:0090309 positive regulation of DNA methylation-dependent heterochromatin assembly 2
GO:0097167 circadian regulation of translation 4
GO:1900030 regulation of pectin biosynthetic process 2
GO:1900109 regulation of histone H3-K9 dimethylation 4
GO:1900151 regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 2
GO:1900363 regulation of mRNA polyadenylation 2
GO:1900364 negative regulation of mRNA polyadenylation 10
GO:1900368 regulation of RNA interference 2
GO:1900369 negative regulation of RNA interference 4
GO:1900370 positive regulation of RNA interference 22
GO:1901407 regulation of phosphorylation of RNA polymerase II C-terminal domain 2
GO:1901485 positive regulation of transcription factor catabolic process 6
GO:1901537 positive regulation of DNA demethylation 18
GO:1901799 negative regulation of proteasomal protein catabolic process 2
GO:1901800 positive regulation of proteasomal protein catabolic process 2
GO:1901918 negative regulation of exoribonuclease activity 2
GO:1901957 regulation of cutin biosynthetic process 12
GO:1901959 positive regulation of cutin biosynthetic process 2
GO:1901969 positive regulation of polynucleotide 3'-phosphatase activity 2
GO:1902066 regulation of cell wall pectin metabolic process 4
GO:1902464 regulation of histone H3-K27 trimethylation 8
GO:1902466 positive regulation of histone H3-K27 trimethylation 2
GO:1902916 positive regulation of protein polyubiquitination 8
GO:1903311 regulation of mRNA metabolic process 22
GO:1903343 positive regulation of meiotic DNA double-strand break formation 2
GO:1903506 regulation of nucleic acid-templated transcription 4
GO:1904292 regulation of ERAD pathway 2
GO:1904294 positive regulation of ERAD pathway 12
GO:1904667 negative regulation of ubiquitin protein ligase activity 8
GO:1904668 positive regulation of ubiquitin protein ligase activity 28
GO:1905168 positive regulation of double-strand break repair via homologous recombination 4
GO:1905183 negative regulation of protein serine/threonine phosphatase activity 2
GO:1905435 regulation of histone H3-K4 trimethylation 4
GO:1905642 negative regulation of DNA methylation 10
GO:2000042 negative regulation of double-strand break repair via homologous recombination 4
GO:2000104 negative regulation of DNA-dependent DNA replication 6
GO:2000112 regulation of cellular macromolecule biosynthetic process 8
GO:2000113 negative regulation of cellular macromolecule biosynthetic process 18
GO:2000117 negative regulation of cysteine-type endopeptidase activity 2
GO:2000143 negative regulation of DNA-templated transcription, initiation 48
GO:2000232 regulation of rRNA processing 10
GO:2000234 positive regulation of rRNA processing 8
GO:2000541 positive regulation of protein geranylgeranylation 2
GO:2000617 positive regulation of histone H3-K9 acetylation 2
GO:2000636 positive regulation of primary miRNA processing 6
GO:2000653 regulation of genetic imprinting 2
GO:2000905 negative regulation of starch metabolic process 6
GO:2001006 regulation of cellulose biosynthetic process 4
GO:2001007 negative regulation of cellulose biosynthetic process 34
GO:2001011 positive regulation of plant-type cell wall cellulose biosynthetic process 4
GO:2001141 regulation of RNA biosynthetic process 10
GO:2001253 regulation of histone H3-K36 trimethylation 2

Functional Clusters Experiments

Exp id Data type Data filter Min genes cluster Max genes cluster Max cluster size E-value Tandems removal
1 MapMan No filter applied. 2 30 80 0.001
2 MapMan No filter applied. 2 30 80 0.001
3 GO All GO data. 2 30 80 0.001
4 GO All GO data. 2 30 80 0.001
5 InterPro No filter applied. 2 30 80 0.001
6 InterPro No filter applied. 2 30 80 0.001