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|gostat_on_coexpression_clusters=GO:0004644!phosphoribosylglycinamide formyltransferase activity!0.0027375485694101!2618$GO:0004641!phosphoribosylformylglycinamidine cyclo-ligase activity!0.0027375485694101!2618$GO:0004637!phosphoribosylamine-glycine ligase activity!0.00456231233278836!2618$GO:0046040!IMP metabolic process!0.00456231233278836!2618$GO:0006189!'de novo' IMP biosynthetic process!0.00456231233278836!2618$GO:0006188!IMP biosynthetic process!0.00456231233278836!2618$GO:0009113!purine base biosynthetic process!0.00547461362960894!2618$GO:0016882!cyclo-ligase activity!0.00602172041914822!2618$GO:0006144!purine base metabolic process!0.00602172041914822!2618$GO:0016742!hydroxymethyl-, formyl- and related transferase activity!0.00602172041914822!2618$GO:0046112!nucleobase biosynthetic process!0.00696697213612794!2618$GO:0009112!nucleobase metabolic process!0.00855181734683608!2618$GO:0009168!purine ribonucleoside monophosphate biosynthetic process!0.00855181734683608!2618$GO:0009167!purine ribonucleoside monophosphate metabolic process!0.00855181734683608!2618$GO:0009127!purine nucleoside monophosphate biosynthetic process!0.00855181734683608!2618$GO:0009126!purine nucleoside monophosphate metabolic process!0.00855181734683608!2618$GO:0004372!glycine hydroxymethyltransferase activity!0.00901422339566733!2618$GO:0009161!ribonucleoside monophosphate metabolic process!0.00945183586136322!2618$GO:0009156!ribonucleoside monophosphate biosynthetic process!0.00945183586136322!2618$GO:0046148!pigment biosynthetic process!0.00945183586136322!2618$GO:0009124!nucleoside monophosphate biosynthetic process!0.00945183586136322!2618$GO:0009123!nucleoside monophosphate metabolic process!0.00945183586136322!2618$GO:0042440!pigment metabolic process!0.00999197011681788!2618$GO:0019748!secondary metabolic process!0.0120815856858232!2618$GO:0005524!ATP binding!0.0245517609060341!204851;2618$GO:0032559!adenyl ribonucleotide binding!0.0245517609060341!204851;2618$GO:0030554!adenyl nucleotide binding!0.0253718292786105!204851;2618$GO:0046483!heterocycle metabolic process!0.0253718292786105!2618$GO:0009152!purine ribonucleotide biosynthetic process!0.0262962846519019!2618$GO:0009150!purine ribonucleotide metabolic process!0.0262962846519019!2618$GO:0009260!ribonucleotide biosynthetic process!0.0262962846519019!2618$GO:0016740!transferase activity!0.0262962846519019!204851;2618$GO:0006164!purine nucleotide biosynthetic process!0.0262962846519019!2618$GO:0006163!purine nucleotide metabolic process!0.0262962846519019!2618$GO:0009259!ribonucleotide metabolic process!0.0262962846519019!2618$GO:0032553!ribonucleotide binding!0.0262962846519019!204851;2618$GO:0032555!purine ribonucleotide binding!0.0262962846519019!204851;2618$GO:0006725!aromatic compound metabolic process!0.0262962846519019!2618$GO:0017076!purine nucleotide binding!0.0273848872620982!204851;2618$GO:0009165!nucleotide biosynthetic process!0.0347732572115841!2618$GO:0000166!nucleotide binding!0.0351870221378261!204851;2618$GO:0008168!methyltransferase activity!0.0351870221378261!2618$GO:0016741!transferase activity, transferring one-carbon groups!0.0352528252605742!2618$GO:0009117!nucleotide metabolic process!0.042096473073867!2618$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0439173729042794!2618$GO:0016879!ligase activity, forming carbon-nitrogen bonds!0.0439173729042794!2618
|gostat_on_coexpression_clusters=GO:0004644!phosphoribosylglycinamide formyltransferase activity!0.0027375485694101!2618$GO:0004641!phosphoribosylformylglycinamidine cyclo-ligase activity!0.0027375485694101!2618$GO:0004637!phosphoribosylamine-glycine ligase activity!0.00456231233278836!2618$GO:0046040!IMP metabolic process!0.00456231233278836!2618$GO:0006189!'de novo' IMP biosynthetic process!0.00456231233278836!2618$GO:0006188!IMP biosynthetic process!0.00456231233278836!2618$GO:0009113!purine base biosynthetic process!0.00547461362960894!2618$GO:0016882!cyclo-ligase activity!0.00602172041914822!2618$GO:0006144!purine base metabolic process!0.00602172041914822!2618$GO:0016742!hydroxymethyl-, formyl- and related transferase activity!0.00602172041914822!2618$GO:0046112!nucleobase biosynthetic process!0.00696697213612794!2618$GO:0009112!nucleobase metabolic process!0.00855181734683608!2618$GO:0009168!purine ribonucleoside monophosphate biosynthetic process!0.00855181734683608!2618$GO:0009167!purine ribonucleoside monophosphate metabolic process!0.00855181734683608!2618$GO:0009127!purine nucleoside monophosphate biosynthetic process!0.00855181734683608!2618$GO:0009126!purine nucleoside monophosphate metabolic process!0.00855181734683608!2618$GO:0004372!glycine hydroxymethyltransferase activity!0.00901422339566733!2618$GO:0009161!ribonucleoside monophosphate metabolic process!0.00945183586136322!2618$GO:0009156!ribonucleoside monophosphate biosynthetic process!0.00945183586136322!2618$GO:0046148!pigment biosynthetic process!0.00945183586136322!2618$GO:0009124!nucleoside monophosphate biosynthetic process!0.00945183586136322!2618$GO:0009123!nucleoside monophosphate metabolic process!0.00945183586136322!2618$GO:0042440!pigment metabolic process!0.00999197011681788!2618$GO:0019748!secondary metabolic process!0.0120815856858232!2618$GO:0005524!ATP binding!0.0245517609060341!204851;2618$GO:0032559!adenyl ribonucleotide binding!0.0245517609060341!204851;2618$GO:0030554!adenyl nucleotide binding!0.0253718292786105!204851;2618$GO:0046483!heterocycle metabolic process!0.0253718292786105!2618$GO:0009152!purine ribonucleotide biosynthetic process!0.0262962846519019!2618$GO:0009150!purine ribonucleotide metabolic process!0.0262962846519019!2618$GO:0009260!ribonucleotide biosynthetic process!0.0262962846519019!2618$GO:0016740!transferase activity!0.0262962846519019!204851;2618$GO:0006164!purine nucleotide biosynthetic process!0.0262962846519019!2618$GO:0006163!purine nucleotide metabolic process!0.0262962846519019!2618$GO:0009259!ribonucleotide metabolic process!0.0262962846519019!2618$GO:0032553!ribonucleotide binding!0.0262962846519019!204851;2618$GO:0032555!purine ribonucleotide binding!0.0262962846519019!204851;2618$GO:0006725!aromatic compound metabolic process!0.0262962846519019!2618$GO:0017076!purine nucleotide binding!0.0273848872620982!204851;2618$GO:0009165!nucleotide biosynthetic process!0.0347732572115841!2618$GO:0000166!nucleotide binding!0.0351870221378261!204851;2618$GO:0008168!methyltransferase activity!0.0351870221378261!2618$GO:0016741!transferase activity, transferring one-carbon groups!0.0352528252605742!2618$GO:0009117!nucleotide metabolic process!0.042096473073867!2618$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0439173729042794!2618$GO:0016879!ligase activity, forming carbon-nitrogen bonds!0.0439173729042794!2618
|id=C1768
|id=C1768
|ontology_enrichment_celltype=CL:0000738!1.73e-24!140;CL:0002057!7.38e-23!42;CL:0000860!3.23e-22!45;CL:0002031!1.78e-20!124;CL:0000037!1.88e-19!172;CL:0000566!1.88e-19!172;CL:0002087!1.25e-18!119;CL:0000988!3.28e-18!182;CL:0002032!6.84e-17!165;CL:0000837!6.84e-17!165;CL:0000766!2.48e-14!76;CL:0000839!1.79e-12!70;CL:0000557!6.07e-12!71;CL:0002009!9.44e-12!65;CL:0002194!8.22e-11!63;CL:0000576!8.22e-11!63;CL:0000040!8.22e-11!63;CL:0000559!8.22e-11!63;CL:0000763!5.44e-10!112;CL:0000049!5.44e-10!112;CL:0000838!1.41e-07!52;CL:0000542!2.44e-07!53;CL:0000051!2.44e-07!53
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!3.18e-12!57;UBERON:0005068!3.18e-12!57;UBERON:0006241!3.18e-12!57;UBERON:0007135!3.18e-12!57;UBERON:0002390!3.57e-11!102;UBERON:0003061!3.57e-11!102;UBERON:0001017!1.65e-10!82;UBERON:0002371!7.92e-10!80;UBERON:0002780!8.71e-10!41;UBERON:0001890!8.71e-10!41;UBERON:0006240!8.71e-10!41;UBERON:0002616!1.52e-09!59;UBERON:0005743!2.65e-09!86;UBERON:0003080!2.82e-09!42;UBERON:0002193!3.92e-09!112;UBERON:0000955!5.83e-09!69;UBERON:0006238!5.83e-09!69;UBERON:0001474!1.78e-08!86;UBERON:0000073!2.09e-08!94;UBERON:0001016!2.09e-08!94;UBERON:0002020!5.55e-08!34;UBERON:0003528!5.55e-08!34;UBERON:0001893!8.49e-08!34;UBERON:0002791!1.55e-07!33;UBERON:0001869!2.41e-07!32
}}
}}

Revision as of 14:15, 21 May 2012


Full id: C1768_testis_CD8_Natural_embryonic_Eosinophils_CD4_CD14



Phase1 CAGE Peaks

Hg19::chr16:85833874..85833901,+p@chr16:85833874..85833901
+
Hg19::chr1:114471972..114472000,+p3@HIPK1
Hg19::chr21:34915147..34915178,-p3@GART
Hg19::chr21:34915181..34915204,-p4@GART
Hg19::chr5:34839260..34839339,+p1@TTC23L


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


GO IDGO nameFDR corrected p-value
GO:0004644phosphoribosylglycinamide formyltransferase activity0.0027375485694101
GO:0004641phosphoribosylformylglycinamidine cyclo-ligase activity0.0027375485694101
GO:0004637phosphoribosylamine-glycine ligase activity0.00456231233278836
GO:0046040IMP metabolic process0.00456231233278836
GO:0006189'de novo' IMP biosynthetic process0.00456231233278836
GO:0006188IMP biosynthetic process0.00456231233278836
GO:0009113purine base biosynthetic process0.00547461362960894
GO:0016882cyclo-ligase activity0.00602172041914822
GO:0006144purine base metabolic process0.00602172041914822
GO:0016742hydroxymethyl-, formyl- and related transferase activity0.00602172041914822
GO:0046112nucleobase biosynthetic process0.00696697213612794
GO:0009112nucleobase metabolic process0.00855181734683608
GO:0009168purine ribonucleoside monophosphate biosynthetic process0.00855181734683608
GO:0009167purine ribonucleoside monophosphate metabolic process0.00855181734683608
GO:0009127purine nucleoside monophosphate biosynthetic process0.00855181734683608
GO:0009126purine nucleoside monophosphate metabolic process0.00855181734683608
GO:0004372glycine hydroxymethyltransferase activity0.00901422339566733
GO:0009161ribonucleoside monophosphate metabolic process0.00945183586136322
GO:0009156ribonucleoside monophosphate biosynthetic process0.00945183586136322
GO:0046148pigment biosynthetic process0.00945183586136322
GO:0009124nucleoside monophosphate biosynthetic process0.00945183586136322
GO:0009123nucleoside monophosphate metabolic process0.00945183586136322
GO:0042440pigment metabolic process0.00999197011681788
GO:0019748secondary metabolic process0.0120815856858232
GO:0005524ATP binding0.0245517609060341
GO:0032559adenyl ribonucleotide binding0.0245517609060341
GO:0030554adenyl nucleotide binding0.0253718292786105
GO:0046483heterocycle metabolic process0.0253718292786105
GO:0009152purine ribonucleotide biosynthetic process0.0262962846519019
GO:0009150purine ribonucleotide metabolic process0.0262962846519019
GO:0009260ribonucleotide biosynthetic process0.0262962846519019
GO:0016740transferase activity0.0262962846519019
GO:0006164purine nucleotide biosynthetic process0.0262962846519019
GO:0006163purine nucleotide metabolic process0.0262962846519019
GO:0009259ribonucleotide metabolic process0.0262962846519019
GO:0032553ribonucleotide binding0.0262962846519019
GO:0032555purine ribonucleotide binding0.0262962846519019
GO:0006725aromatic compound metabolic process0.0262962846519019
GO:0017076purine nucleotide binding0.0273848872620982
GO:0009165nucleotide biosynthetic process0.0347732572115841
GO:0000166nucleotide binding0.0351870221378261
GO:0008168methyltransferase activity0.0351870221378261
GO:0016741transferase activity, transferring one-carbon groups0.0352528252605742
GO:0009117nucleotide metabolic process0.042096473073867
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0439173729042794
GO:0016879ligase activity, forming carbon-nitrogen bonds0.0439173729042794



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
leukocyte1.73e-24140
CD14-positive, CD16-negative classical monocyte7.38e-2342
classical monocyte3.23e-2245
hematopoietic lineage restricted progenitor cell1.78e-20124
hematopoietic stem cell1.88e-19172
angioblastic mesenchymal cell1.88e-19172
nongranular leukocyte1.25e-18119
hematopoietic cell3.28e-18182
hematopoietic oligopotent progenitor cell6.84e-17165
hematopoietic multipotent progenitor cell6.84e-17165
myeloid leukocyte2.48e-1476
myeloid lineage restricted progenitor cell1.79e-1270
granulocyte monocyte progenitor cell6.07e-1271
macrophage dendritic cell progenitor9.44e-1265
monopoietic cell8.22e-1163
monocyte8.22e-1163
monoblast8.22e-1163
promonocyte8.22e-1163
myeloid cell5.44e-10112
common myeloid progenitor5.44e-10112
lymphoid lineage restricted progenitor cell1.41e-0752
lymphocyte2.44e-0753
common lymphoid progenitor2.44e-0753
Uber Anatomy
Ontology termp-valuen
neural tube3.18e-1257
neural rod3.18e-1257
future spinal cord3.18e-1257
neural keel3.18e-1257
hematopoietic system3.57e-11102
blood island3.57e-11102
central nervous system1.65e-1082
bone marrow7.92e-1080
regional part of forebrain8.71e-1041
forebrain8.71e-1041
future forebrain8.71e-1041
regional part of brain1.52e-0959
anterior neural tube2.82e-0942
hemolymphoid system3.92e-09112
brain5.83e-0969
future brain5.83e-0969
bone element1.78e-0886
regional part of nervous system2.09e-0894
nervous system2.09e-0894
gray matter5.55e-0834
brain grey matter5.55e-0834
telencephalon8.49e-0834
regional part of telencephalon1.55e-0733
cerebral hemisphere2.41e-0732


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.