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{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0.134609515403383,0.0842546465117019,0.231666308919355,0,0.613256362572548,0,0,0.212645603028643,0.1007790131153,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0995340912392844,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.563059101871969,0,0,0,0,0,0.513681366551611,0.47542822214804,0.283228855342755,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0540033816753664,0,0,0,0,0,0,0,0,0.11484936557738,0.265258978626501,0,0,0,0.0302447930437535,0,0,0,0,0,0,0,0.1352325828853,0,0,0,0,0,0,0,0.0607877333709642,0,0,0,0,0,0,0,0,0,0,0,0.0382424828832804,0.0650738225586148,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.285272754285256,0.23600275090536,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0238185553304594,0,0,0,0,0,0,0,0,0.136582053398203,0,0,0,0,0,0,0,0,0,0,0.025815943111336,0,0,0,0,0,0,0,0,0,0,0.0527984507438095,0,0,0.254744842547412,0,0,0,0,0.15501216415778,0.851987312976189,0,0,0.132064901528981,0,0.532947287255559,0.136098797839992,0.146094520726236,0,0,0,0,0,0,0.156653296834752,0.149512438051623,0.132938760828427,0,0.0781053106522872,0.155717062297439,0,0,0,0,0,0,0,0,0,0.025130215685849,0,0,0,0,0,0,0,0,0,0,0,0,1.22130147081998,1.35365372975874,0,0,0.0220203620632132,0,0,0,0.0962521000248044,0,0.107433877051114,0.358199817704613,0,0.358157115597846,0,0,0,0,0,0,0,0,0,0.0472025886002021,0,0.235512072938109,0,0,0,0,0,0,0,0,0,0,0.176580223334895,0,0,0,0,0,0.247813842527253,0.219068014200448,0.256749871371585,0.115630997291488,0,0,0,0,0,0,0,0,0.0280399444016552,0,0,0.0355204411879812,0.0370406554214911,0,0,0,0,0,0,0,0,0,0,0,0,0.360787052053628,0.251382347927581,0.584396264437772,0.0494771483328809,0.211629534789635,0,0,0.0359175316354751,0.147712319568144,0.0483689238882358,0,0,0,0,0,0,0.104828343205854,0.0828012821327565,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0415913710507,0.123621336231306,0,0,0,0,0,0.123417042995845,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0929817338882301,0,0,0.648540738242533,0.378433072169577,0,0,0,0.112285109921075,0.2266145424096,0,0,0,0,0,0,0,0.144441446549164,0,0,0.979037302570844,0.847697432013946,0,0,0,0,0,0,0,0,0,0,0.657339442861113,0.39810012163842,0.607630284791676,0.366787260426538,0.77990727732522,0.959360819533295,0,0,0.698629635971346,0.644785388704945,0,0.0373299241805104,0,0.385655737767352,0.0380625695285996,0.315144937492197,0,0,0,0,0,0,0,0,0,0,0,0,0.299999916441319,0.0368115019473605,0,0,0,0,0.67781865960966,0.255893981334376,1.05764186048295,0,0,0,0.375271670002295,0.172187014549508,0.573122213912274,0.601869207698982,0,0,0,0,0,0,0,0,0,0,0,0.706492292514428,0,0,0,0,0.0769963366386578,0,0.682545594453166,0,0,0.424064396407694,0,0,0.358071584125933,0.146009897457394,0,0,0,0,0.0254319378601874,0,0,0,0,0,0.825897648618627,0.595812621580089,0,0,0,0.83663614019683,0.646549299094816,0.234991060098501,0.547616624637119,0.801587571620977,0.477158074637818,0.16740132195862,0,0,0,0,0,0,0,0.659082528259138,0.420107244033307,0,0,0,0,0,0.306329812396109,0,0.105582174569955,0.0222033657448865,0,0,0,1.39873837222428,0.934886825215426,0,0,0,0.12273585496983,0,0,0,0,0,0,0.521736846839439,0.569394895501794,0,0,0.242420138846268,0,0.612949780466521,0.599555168471049,0,0,0,0,0,0,0,0,0.563267984373557,0.520647882218346,0.417558878024651,0.826698869148466,0.543504789376206,0.463663583589088,0,0,0,0,0,0,0,0,0,0,0,0.0974544165143517,0,0,0,0,0,0,0.408997275583892,0,0.075333129625851,0,0,0.295621236467932,0.288406800485004,0,0,0,0,0.0727684793044645,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.398917117770542,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0507414909260677,0,0,0,0,0,0,0.440461077238098,0.383270498593678,0.40058211755364,0.564253197796651,0.244577704109922,0.53185949931587,0.849419335279618,1.01094402821609,0,0,0,0,0,0,0,0.126429527016381,0,0,0,0,0,0.399538052258176,0.750706578850267,0.305974940763357,0.480558434814418,0.189483241693255,0,0.395960949090736,0,0,0.416158607100982,0.125898678133584,0.636255428021243,0,0.221329996745335,0,0,0.436373535513626,0.529097947814335,0,0,0.515383621085217,0.534939206836095,0,0,0,0,0.977381258322271,0,0,0,0,0,0,0,0,0,0,0.521385290716207,0,0,0,0,0,0,0,0.0212213629697974,0,0.171934336795599,0,0,0,0,0,0,0,0,0,0.0476105437811573,0,1.11957462707979,0.528450187475503,0.797934865296068,0,0.166404041957408,0.0767764493450943,0,0,0,0,0,0.0819873506648525,0.828147816675356,0,0.60348385184683,0.530573793591694,0,0,0,0,0,0,0,0,0,0,0,1.15759246986625,0.987125728396191,0.905107726028152,0.566768263258096,0.0839445661171913,0,0.0769194708595365,0.0261550693490902,0,0.0267975841371139,0.039973403565921,0.156983076262146,0,0.167749750892933,0.0582150559773052,0,0,0,0,0,0.524579074618365,0.135680926472736,0,0,0.362875276980425,0
|full_id=C485_Pericytes_retina_cerebral_Dendritic_testis_corpus_spinal
|full_id=C485_Pericytes_retina_cerebral_Dendritic_testis_corpus_spinal
|gostat_on_coexpression_clusters=GO:0022410!circadian sleep/wake cycle process!0.000485694101024373!5730$GO:0042749!regulation of circadian sleep/wake cycle!0.000485694101024373!5730$GO:0045187!regulation of circadian sleep/wake cycle, sleep!0.000485694101024373!5730$GO:0050802!circadian sleep/wake cycle, sleep!0.000485694101024373!5730$GO:0042745!circadian sleep/wake cycle!0.000647592134699163!5730$GO:0004667!prostaglandin-D synthase activity!0.000647592134699163!5730$GO:0048512!circadian behavior!0.000647592134699163!5730$GO:0007622!rhythmic behavior!0.000647592134699163!5730$GO:0042752!regulation of circadian rhythm!0.000647592134699163!5730$GO:0030431!sleep!0.000971388202048745!5730$GO:0046457!prostanoid biosynthetic process!0.00161898033674791!5730$GO:0001516!prostaglandin biosynthetic process!0.00161898033674791!5730$GO:0005791!rough endoplasmic reticulum!0.00194277640409749!5730$GO:0006693!prostaglandin metabolic process!0.00194277640409749!5730$GO:0006692!prostanoid metabolic process!0.00194277640409749!5730$GO:0019840!isoprenoid binding!0.00194277640409749!5730$GO:0005501!retinoid binding!0.00194277640409749!5730$GO:0007623!circadian rhythm!0.00313002865104596!5730$GO:0046456!icosanoid biosynthetic process!0.00337429585974827!5730$GO:0006690!icosanoid metabolic process!0.00485694101024373!5730$GO:0016860!intramolecular oxidoreductase activity!0.00638340818489176!5730$GO:0006633!fatty acid biosynthetic process!0.00644648534086895!5730$GO:0016053!organic acid biosynthetic process!0.00671876839750383!5730$GO:0046394!carboxylic acid biosynthetic process!0.00671876839750383!5730$GO:0031965!nuclear membrane!0.0117343694807488!5730$GO:0006631!fatty acid metabolic process!0.0139592082368486!5730$GO:0005635!nuclear envelope!0.0139592082368486!5730$GO:0051239!regulation of multicellular organismal process!0.0190392087601554!5730$GO:0032787!monocarboxylic acid metabolic process!0.0190392087601554!5730$GO:0007610!behavior!0.0190392087601554!5730$GO:0016853!isomerase activity!0.0196784448673101!5730$GO:0008610!lipid biosynthetic process!0.0202170169551395!5730$GO:0031967!organelle envelope!0.0356556610634363!5730$GO:0031975!envelope!0.0356556610634363!5730$GO:0005794!Golgi apparatus!0.0385779885956502!5730$GO:0044255!cellular lipid metabolic process!0.0407983044860473!5730$GO:0019752!carboxylic acid metabolic process!0.0407983044860473!5730$GO:0006082!organic acid metabolic process!0.0407983044860473!5730$GO:0005783!endoplasmic reticulum!0.0451321903105725!5730$GO:0006629!lipid metabolic process!0.0459466619569057!5730$GO:0012505!endomembrane system!0.0487115644734688!5730
|gostat_on_coexpression_clusters=GO:0022410!circadian sleep/wake cycle process!0.000485694101024373!5730$GO:0042749!regulation of circadian sleep/wake cycle!0.000485694101024373!5730$GO:0045187!regulation of circadian sleep/wake cycle, sleep!0.000485694101024373!5730$GO:0050802!circadian sleep/wake cycle, sleep!0.000485694101024373!5730$GO:0042745!circadian sleep/wake cycle!0.000647592134699163!5730$GO:0004667!prostaglandin-D synthase activity!0.000647592134699163!5730$GO:0048512!circadian behavior!0.000647592134699163!5730$GO:0007622!rhythmic behavior!0.000647592134699163!5730$GO:0042752!regulation of circadian rhythm!0.000647592134699163!5730$GO:0030431!sleep!0.000971388202048745!5730$GO:0046457!prostanoid biosynthetic process!0.00161898033674791!5730$GO:0001516!prostaglandin biosynthetic process!0.00161898033674791!5730$GO:0005791!rough endoplasmic reticulum!0.00194277640409749!5730$GO:0006693!prostaglandin metabolic process!0.00194277640409749!5730$GO:0006692!prostanoid metabolic process!0.00194277640409749!5730$GO:0019840!isoprenoid binding!0.00194277640409749!5730$GO:0005501!retinoid binding!0.00194277640409749!5730$GO:0007623!circadian rhythm!0.00313002865104596!5730$GO:0046456!icosanoid biosynthetic process!0.00337429585974827!5730$GO:0006690!icosanoid metabolic process!0.00485694101024373!5730$GO:0016860!intramolecular oxidoreductase activity!0.00638340818489176!5730$GO:0006633!fatty acid biosynthetic process!0.00644648534086895!5730$GO:0016053!organic acid biosynthetic process!0.00671876839750383!5730$GO:0046394!carboxylic acid biosynthetic process!0.00671876839750383!5730$GO:0031965!nuclear membrane!0.0117343694807488!5730$GO:0006631!fatty acid metabolic process!0.0139592082368486!5730$GO:0005635!nuclear envelope!0.0139592082368486!5730$GO:0051239!regulation of multicellular organismal process!0.0190392087601554!5730$GO:0032787!monocarboxylic acid metabolic process!0.0190392087601554!5730$GO:0007610!behavior!0.0190392087601554!5730$GO:0016853!isomerase activity!0.0196784448673101!5730$GO:0008610!lipid biosynthetic process!0.0202170169551395!5730$GO:0031967!organelle envelope!0.0356556610634363!5730$GO:0031975!envelope!0.0356556610634363!5730$GO:0005794!Golgi apparatus!0.0385779885956502!5730$GO:0044255!cellular lipid metabolic process!0.0407983044860473!5730$GO:0019752!carboxylic acid metabolic process!0.0407983044860473!5730$GO:0006082!organic acid metabolic process!0.0407983044860473!5730$GO:0005783!endoplasmic reticulum!0.0451321903105725!5730$GO:0006629!lipid metabolic process!0.0459466619569057!5730$GO:0012505!endomembrane system!0.0487115644734688!5730

Revision as of 18:00, 12 September 2012


Full id: C485_Pericytes_retina_cerebral_Dendritic_testis_corpus_spinal



Phase1 CAGE Peaks

Hg19::chr9:139871948..139871964,+p1@PTGDS
Hg19::chr9:139873437..139873444,+p14@PTGDS
Hg19::chr9:139873445..139873481,+p2@PTGDS
Hg19::chr9:139873495..139873543,+p3@PTGDS
Hg19::chr9:139873544..139873562,+p9@PTGDS
Hg19::chr9:139873670..139873734,+p@chr9:139873670..139873734
+
Hg19::chr9:139874396..139874457,+p4@PTGDS
Hg19::chr9:139874436..139874463,-p@chr9:139874436..139874463
-
Hg19::chr9:139874466..139874495,+p8@PTGDS
Hg19::chr9:139874472..139874481,-p@chr9:139874472..139874481
-
Hg19::chr9:139874503..139874516,-p@chr9:139874503..139874516
-
Hg19::chr9:139874630..139874648,+p11@PTGDS
Hg19::chr9:139874657..139874682,-p@chr9:139874657..139874682
-
Hg19::chr9:139874662..139874682,+p10@PTGDS
Hg19::chr9:139874683..139874714,+p5@PTGDS
Hg19::chr9:139874710..139874744,-p@chr9:139874710..139874744
-
Hg19::chr9:139875304..139875308,-p@chr9:139875304..139875308
-
Hg19::chr9:139876037..139876053,+p3@LCNL1
Hg19::chr9:139876097..139876149,-p@chr9:139876097..139876149
-
Hg19::chr9:139876112..139876142,+p2@LCNL1


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:0022410circadian sleep/wake cycle process0.000485694101024373
GO:0042749regulation of circadian sleep/wake cycle0.000485694101024373
GO:0045187regulation of circadian sleep/wake cycle, sleep0.000485694101024373
GO:0050802circadian sleep/wake cycle, sleep0.000485694101024373
GO:0042745circadian sleep/wake cycle0.000647592134699163
GO:0004667prostaglandin-D synthase activity0.000647592134699163
GO:0048512circadian behavior0.000647592134699163
GO:0007622rhythmic behavior0.000647592134699163
GO:0042752regulation of circadian rhythm0.000647592134699163
GO:0030431sleep0.000971388202048745
GO:0046457prostanoid biosynthetic process0.00161898033674791
GO:0001516prostaglandin biosynthetic process0.00161898033674791
GO:0005791rough endoplasmic reticulum0.00194277640409749
GO:0006693prostaglandin metabolic process0.00194277640409749
GO:0006692prostanoid metabolic process0.00194277640409749
GO:0019840isoprenoid binding0.00194277640409749
GO:0005501retinoid binding0.00194277640409749
GO:0007623circadian rhythm0.00313002865104596
GO:0046456icosanoid biosynthetic process0.00337429585974827
GO:0006690icosanoid metabolic process0.00485694101024373
GO:0016860intramolecular oxidoreductase activity0.00638340818489176
GO:0006633fatty acid biosynthetic process0.00644648534086895
GO:0016053organic acid biosynthetic process0.00671876839750383
GO:0046394carboxylic acid biosynthetic process0.00671876839750383
GO:0031965nuclear membrane0.0117343694807488
GO:0006631fatty acid metabolic process0.0139592082368486
GO:0005635nuclear envelope0.0139592082368486
GO:0051239regulation of multicellular organismal process0.0190392087601554
GO:0032787monocarboxylic acid metabolic process0.0190392087601554
GO:0007610behavior0.0190392087601554
GO:0016853isomerase activity0.0196784448673101
GO:0008610lipid biosynthetic process0.0202170169551395
GO:0031967organelle envelope0.0356556610634363
GO:0031975envelope0.0356556610634363
GO:0005794Golgi apparatus0.0385779885956502
GO:0044255cellular lipid metabolic process0.0407983044860473
GO:0019752carboxylic acid metabolic process0.0407983044860473
GO:0006082organic acid metabolic process0.0407983044860473
GO:0005783endoplasmic reticulum0.0451321903105725
GO:0006629lipid metabolic process0.0459466619569057
GO:0012505endomembrane system0.0487115644734688



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism3.27e-52115
regional part of brain1.27e-2659
neural tube3.36e-2657
neural rod3.36e-2657
future spinal cord3.36e-2657
neural keel3.36e-2657
neural plate8.37e-2486
presumptive neural plate8.37e-2486
brain4.70e-2369
future brain4.70e-2369
neurectoderm3.77e-2290
central nervous system4.04e-2282
regional part of nervous system1.65e-2094
nervous system1.65e-2094
anterior neural tube1.92e-1942
regional part of forebrain2.94e-1941
forebrain2.94e-1941
future forebrain2.94e-1941
pre-chordal neural plate2.71e-1661
gray matter4.39e-1634
brain grey matter4.39e-1634
telencephalon4.80e-1634
regional part of telencephalon1.56e-1533
cerebral hemisphere8.52e-1532
head3.13e-14123
anterior region of body4.03e-14129
craniocervical region4.03e-14129
regional part of cerebral cortex2.50e-1322
neocortex3.29e-1220
ectoderm-derived structure1.21e-11169
ectoderm4.64e-11173
presumptive ectoderm4.64e-11173
cerebral cortex5.46e-1125
pallium5.46e-1125
organ1.18e-10511
multi-cellular organism3.67e-10659
tissue3.10e-08787
organism subdivision4.47e-08365
posterior neural tube6.35e-0815
chordal neural plate6.35e-0815
anatomical system7.29e-08625
anatomical group1.19e-07626
embryo4.65e-07612
segmental subdivision of nervous system8.93e-0713
nucleus of brain9.62e-079
neural nucleus9.62e-079


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.

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