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Coexpression cluster:C3512: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007524!2.95e-23!73;UBERON:0002329!4.08e-23!71;UBERON:0003059!4.08e-23!71;UBERON:0007282!4.08e-23!71;UBERON:0004290!4.08e-23!71;UBERON:0009618!4.08e-23!71;UBERON:0003077!1.71e-22!72;UBERON:0007285!1.71e-22!72;UBERON:0002385!4.20e-22!64;UBERON:0001015!4.20e-22!64;UBERON:0000383!4.20e-22!64;UBERON:0001134!1.37e-21!62;UBERON:0002036!1.37e-21!62;UBERON:0003082!1.37e-21!62;UBERON:0007503!5.92e-21!78;UBERON:0000486!9.64e-20!83;UBERON:0005256!5.80e-13!122;UBERON:0001637!6.38e-12!42;UBERON:0003509!6.38e-12!42;UBERON:0004572!6.38e-12!42;UBERON:0003104!1.14e-11!160;UBERON:0009142!1.14e-11!160;UBERON:0004573!1.17e-10!33;UBERON:0004571!1.17e-10!33;UBERON:0002199!3.24e-10!46;UBERON:0002416!3.24e-10!46;UBERON:0004872!2.75e-09!83;UBERON:0000490!4.52e-09!148;UBERON:0002049!1.69e-08!78;UBERON:0007798!1.69e-08!78;UBERON:0003102!3.91e-08!99;UBERON:0000475!1.02e-07!264;UBERON:0001009!2.52e-07!112;UBERON:0002100!2.75e-07!199;UBERON:0002097!2.78e-07!41;UBERON:0004535!4.39e-07!109;UBERON:0001013!4.39e-07!14;UBERON:0007500!5.46e-07!59;UBERON:0001981!5.46e-07!59;UBERON:0004537!5.46e-07!59;UBERON:0006965!5.46e-07!59;UBERON:0000926!6.73e-07!315;UBERON:0004120!6.73e-07!315;UBERON:0006603!6.73e-07!315
|ontology_enrichment_uberon=UBERON:0007524!2.95e-23!73;UBERON:0002329!4.08e-23!71;UBERON:0003059!4.08e-23!71;UBERON:0007282!4.08e-23!71;UBERON:0004290!4.08e-23!71;UBERON:0009618!4.08e-23!71;UBERON:0003077!1.71e-22!72;UBERON:0007285!1.71e-22!72;UBERON:0002385!4.20e-22!64;UBERON:0001015!4.20e-22!64;UBERON:0000383!4.20e-22!64;UBERON:0001134!1.37e-21!62;UBERON:0002036!1.37e-21!62;UBERON:0003082!1.37e-21!62;UBERON:0007503!5.92e-21!78;UBERON:0000486!9.64e-20!83;UBERON:0005256!5.80e-13!122;UBERON:0001637!6.38e-12!42;UBERON:0003509!6.38e-12!42;UBERON:0004572!6.38e-12!42;UBERON:0003104!1.14e-11!160;UBERON:0009142!1.14e-11!160;UBERON:0004573!1.17e-10!33;UBERON:0004571!1.17e-10!33;UBERON:0002199!3.24e-10!46;UBERON:0002416!3.24e-10!46;UBERON:0004872!2.75e-09!83;UBERON:0000490!4.52e-09!148;UBERON:0002049!1.69e-08!78;UBERON:0007798!1.69e-08!78;UBERON:0003102!3.91e-08!99;UBERON:0000475!1.02e-07!264;UBERON:0001009!2.52e-07!112;UBERON:0002100!2.75e-07!199;UBERON:0002097!2.78e-07!41;UBERON:0004535!4.39e-07!109;UBERON:0001013!4.39e-07!14;UBERON:0007500!5.46e-07!59;UBERON:0001981!5.46e-07!59;UBERON:0004537!5.46e-07!59;UBERON:0006965!5.46e-07!59;UBERON:0000926!6.73e-07!315;UBERON:0004120!6.73e-07!315;UBERON:0006603!6.73e-07!315
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35776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.222548,0.175934,0.157274,0.215705,0.252796,0.205954,0.361435
|tfbs_overrepresentation_for_novel_motifs=0.699513,0.869629,0.690871,0.855819,0.641468,0.853988,0.937929,0.494933,0.491742,0.63186,0.820209,0.985163,0.436625,0.925331,1.54465,1.60265,1.17594,0.575162,0.452865,0.824321,0.69094,0.680949,0.845342,0.635379,0.743951,1.00973,0.409304,0.842925,0.645155,0.388328,0.795576,1.21459,0.534793,0.439574,0.599922,1.36391,0.596053,0.855276,0.567465,0.469078,0.598234,0.777097,0.259059,0.63803,1.44641,0.726632,0.939121,0.808003,0.69206,0.645308,1.02504,0.951993,0.336258,1.29475,1.45259,0.928548,0.650353,0.892517,0.388177,0.891404,1.25741,0.941709,0.492369,1.14672,0.961293,1.11026,1.54311,1.91674,1.2037,1.75271,0.762094,2.16826,0.333216,1.45054,0.430728,0.414196,0.396746,1.12884,1.20029,0.73687,0.459024,1.14559,0.960908,1.24629,1.39759,0.169933,0.303648,0.993996,1.053,2.0169,1.63834,1.36973,1.23218,0.543775,0.642354,0.560075,0.450952,1.27663,1.05794,0.360456,0.569121,1.22626,1.27082,1.1798,1.09802,0.815119,1.16312,0.921547,0.743661,0.622396,0.703975,1.26794,0.684398,0.830777,1.58942,0.594137,0.188952,0.794219,1.10778,0.547323,1.44203,1.0504,0.850918,0.973172,1.70203,1.12965,0.930979,1.2374,1.48578,0.561252,1.37044,0.798812,1.50051,0.969553,1.65144,0.372828,0.788803,0.843556,1.60823,2.47382,2.06967,1.57016,0.932872,1.27296,1.09989,2.04753,1.08214,2.31409,0.773313,0.539692,1.54007,0.698641,1.37083,0.481626,0.941179,1.78371,1.03563,0.624795,0.744018,0.710709,1.56892,1.35169,1.19946,0.714443,1.11698,0.960047,1.3017,0.936473,0.0768232
}}
}}

Revision as of 16:10, 26 November 2012


Full id: C3512_Osteoblast_Hair_tenocyte_Smooth_leiomyoma_Olfactory_Synoviocyte



Phase1 CAGE Peaks

Hg19::chr15:74220039..74220089,+p@chr15:74220039..74220089
+
Hg19::chr15:74238792..74238813,+p@chr15:74238792..74238813
+
Hg19::chr15:74238829..74238853,+p@chr15:74238829..74238853
+


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

No GOStat results

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>

Uber Anatomy
Ontology termp-valuen
dense mesenchyme tissue2.95e-2373
somite4.08e-2371
presomitic mesoderm4.08e-2371
presumptive segmental plate4.08e-2371
dermomyotome4.08e-2371
trunk paraxial mesoderm4.08e-2371
paraxial mesoderm1.71e-2272
presumptive paraxial mesoderm1.71e-2272
muscle tissue4.20e-2264
musculature4.20e-2264
musculature of body4.20e-2264
skeletal muscle tissue1.37e-2162
striated muscle tissue1.37e-2162
myotome1.37e-2162
epithelial vesicle5.92e-2178
multilaminar epithelium9.64e-2083
trunk mesenchyme5.80e-13122
artery6.38e-1242
arterial blood vessel6.38e-1242
arterial system6.38e-1242
mesenchyme1.14e-11160
entire embryonic mesenchyme1.14e-11160
systemic artery1.17e-1033
systemic arterial system1.17e-1033
integument3.24e-1046
integumental system3.24e-1046
splanchnic layer of lateral plate mesoderm2.75e-0983
unilaminar epithelium4.52e-09148
vasculature1.69e-0878
vascular system1.69e-0878
surface structure3.91e-0899
organism subdivision1.02e-07264
circulatory system2.52e-07112
trunk2.75e-07199
skin of body2.78e-0741
cardiovascular system4.39e-07109
adipose tissue4.39e-0714
epithelial tube open at both ends5.46e-0759
blood vessel5.46e-0759
blood vasculature5.46e-0759
vascular cord5.46e-0759
mesoderm6.73e-07315
mesoderm-derived structure6.73e-07315
presumptive mesoderm6.73e-07315


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)

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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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