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Coexpression cluster:C142: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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}}
}}

Revision as of 17:17, 8 August 2012


Full id: C142_Preadipocyte_Fibroblast_hepatic_Ewing_Adipocyte_Olfactory_Hair



Phase1 CAGE Peaks

Hg19::chr15:39873268..39873287,+p1@THBS1
Hg19::chr15:39873352..39873390,-p@chr15:39873352..39873390
-
Hg19::chr15:39874384..39874412,+p@chr15:39874384..39874412
+
Hg19::chr15:39874415..39874435,+p@chr15:39874415..39874435
+
Hg19::chr15:39874416..39874433,-p@chr15:39874416..39874433
-
Hg19::chr15:39874450..39874555,+p@chr15:39874450..39874555
+
Hg19::chr15:39874545..39874592,-p@chr15:39874545..39874592
-
Hg19::chr15:39874573..39874603,+p@chr15:39874573..39874603
+
Hg19::chr15:39874611..39874645,-p@chr15:39874611..39874645
-
Hg19::chr15:39874624..39874636,+p@chr15:39874624..39874636
+
Hg19::chr15:39874646..39874658,+p@chr15:39874646..39874658
+
Hg19::chr15:39874647..39874660,-p@chr15:39874647..39874660
-
Hg19::chr15:39874673..39874718,+p@chr15:39874673..39874718
+
Hg19::chr15:39874750..39874781,-p@chr15:39874750..39874781
-
Hg19::chr15:39874775..39874799,+p@chr15:39874775..39874799
+
Hg19::chr15:39874801..39874813,+p@chr15:39874801..39874813
+
Hg19::chr15:39874814..39874827,+p@chr15:39874814..39874827
+
Hg19::chr15:39874833..39874882,-p@chr15:39874833..39874882
-
Hg19::chr15:39874839..39874842,+p@chr15:39874839..39874842
+
Hg19::chr15:39874845..39874911,+p@chr15:39874845..39874911
+
Hg19::chr15:39874927..39874939,+p@chr15:39874927..39874939
+
Hg19::chr15:39875809..39875867,+p@chr15:39875809..39875867
+
Hg19::chr15:39876176..39876314,+p@chr15:39876176..39876314
+
Hg19::chr15:39876228..39876300,-p@chr15:39876228..39876300
-
Hg19::chr15:39876325..39876356,+p@chr15:39876325..39876356
+
Hg19::chr15:39876334..39876355,-p@chr15:39876334..39876355
-
Hg19::chr15:39876490..39876590,+p@chr15:39876490..39876590
+
Hg19::chr15:39876528..39876544,-p@chr15:39876528..39876544
-
Hg19::chr15:39876566..39876609,-p@chr15:39876566..39876609
-
Hg19::chr15:39876615..39876625,-p@chr15:39876615..39876625
-
Hg19::chr15:39877655..39877744,+p15@THBS1
Hg19::chr15:39877742..39877767,-p@chr15:39877742..39877767
-
Hg19::chr15:39879545..39879692,+p7@THBS1
Hg19::chr15:39879648..39879683,-p@chr15:39879648..39879683
-
Hg19::chr15:39880241..39880341,+p8@THBS1
Hg19::chr15:39880315..39880385,-p@chr15:39880315..39880385
-
Hg19::chr15:39880345..39880367,+p19@THBS1
Hg19::chr15:39880370..39880395,+p25@THBS1
Hg19::chr15:39880723..39880752,+p2@THBS1
Hg19::chr15:39880753..39880767,+p9@THBS1
Hg19::chr15:39880777..39880827,+p3@THBS1
Hg19::chr15:39880843..39880887,-p@chr15:39880843..39880887
-
Hg19::chr15:39880854..39880863,+p35@THBS1
Hg19::chr15:39881152..39881262,+p4@THBS1
Hg19::chr15:39881200..39881244,-p@chr15:39881200..39881244
-
Hg19::chr15:39881392..39881514,+p@chr15:39881392..39881514
+
Hg19::chr15:39881480..39881526,-p@chr15:39881480..39881526
-
Hg19::chr15:39881517..39881536,+p@chr15:39881517..39881536
+
Hg19::chr15:39881528..39881548,-p@chr15:39881528..39881548
-
Hg19::chr15:39881997..39882024,+p@chr15:39881997..39882024
+
Hg19::chr15:39882038..39882076,+p@chr15:39882038..39882076
+
Hg19::chr15:39882038..39882106,-p@chr15:39882038..39882106
-
Hg19::chr15:39882120..39882131,-p@chr15:39882120..39882131
-
Hg19::chr15:39882147..39882159,+p@chr15:39882147..39882159
+
Hg19::chr15:39882160..39882178,+p@chr15:39882160..39882178
+
Hg19::chr15:39882174..39882185,-p@chr15:39882174..39882185
-
Hg19::chr15:39882188..39882206,+p@chr15:39882188..39882206
+
Hg19::chr15:39882711..39882733,+p14@THBS1
Hg19::chr15:39882740..39882785,+p6@THBS1
Hg19::chr15:39882788..39882816,-p@chr15:39882788..39882816
-
Hg19::chr15:39883385..39883407,+p5@THBS1
Hg19::chr15:39883443..39883468,+p10@THBS1
Hg19::chr15:39883501..39883528,-p@chr15:39883501..39883528
-
Hg19::chr15:39883509..39883520,+p23@THBS1
Hg19::chr15:39883697..39883741,+p@chr15:39883697..39883741
+
Hg19::chr15:39883769..39883790,+p@chr15:39883769..39883790
+
Hg19::chr15:39884760..39884827,+p17@THBS1
Hg19::chr15:39884839..39884858,+p29@THBS1
Hg19::chr15:39884859..39884872,+p36@THBS1
Hg19::chr15:39884872..39884923,-p@chr15:39884872..39884923
-
Hg19::chr15:39884878..39884898,+p30@THBS1
Hg19::chr15:39884901..39884916,+p22@THBS1
Hg19::chr15:39884917..39884949,+p24@THBS1
Hg19::chr15:39884924..39884945,-p@chr15:39884924..39884945
-
Hg19::chr15:39884950..39884967,+p28@THBS1
Hg19::chr15:39885197..39885322,+p13@THBS1
Hg19::chr15:39885323..39885396,+p16@THBS1
Hg19::chr15:39885590..39885644,+p20@THBS1
Hg19::chr15:39885653..39885673,+p32@THBS1
Hg19::chr15:39885701..39885737,+p27@THBS1
Hg19::chr15:39885742..39885808,+p18@THBS1
Hg19::chr15:39885810..39885845,+p21@THBS1
Hg19::chr15:39886290..39886353,+p11@THBS1
Hg19::chr15:39886357..39886368,+p31@THBS1
Hg19::chr15:39886495..39886505,+p39@THBS1
Hg19::chr15:39886511..39886611,+p12@THBS1
Hg19::chr15:39887636..39887649,+p@chr15:39887636..39887649
+
Hg19::chr15:39887636..39887649,-p@chr15:39887636..39887649
-
Hg19::chr15:39887667..39887675,+p@chr15:39887667..39887675
+
Hg19::chr15:39887702..39887713,+p@chr15:39887702..39887713
+
Hg19::chr15:39887744..39887747,+p@chr15:39887744..39887747
+
Hg19::chr15:39887886..39887897,+p@chr15:39887886..39887897
+
Hg19::chr15:39887918..39887929,+p@chr15:39887918..39887929
+
Hg19::chr15:39887951..39887958,+p@chr15:39887951..39887958
+
Hg19::chr15:39887969..39887972,+p@chr15:39887969..39887972
+
Hg19::chr15:39888008..39888026,+p@chr15:39888008..39888026
+
Hg19::chr15:39888011..39888097,-p@chr15:39888011..39888097
-
Hg19::chr15:39888029..39888054,+p@chr15:39888029..39888054
+
Hg19::chr15:39888070..39888084,+p@chr15:39888070..39888084
+
Hg19::chr15:39888092..39888103,+p@chr15:39888092..39888103
+
Hg19::chr15:39888108..39888125,+p@chr15:39888108..39888125
+
Hg19::chr15:39888129..39888145,+p@chr15:39888129..39888145
+
Hg19::chr15:39888147..39888161,+p@chr15:39888147..39888161
+
Hg19::chr15:39888222..39888232,+p@chr15:39888222..39888232
+
Hg19::chr15:39888305..39888312,+p@chr15:39888305..39888312
+
Hg19::chr15:39888341..39888350,+p@chr15:39888341..39888350
+
Hg19::chr15:39888375..39888402,-p@chr15:39888375..39888402
-
Hg19::chr15:39888386..39888393,+p@chr15:39888386..39888393
+
Hg19::chr15:39888428..39888447,+p@chr15:39888428..39888447
+
Hg19::chr15:39888451..39888489,+p@chr15:39888451..39888489
+
Hg19::chr15:39888509..39888542,+p@chr15:39888509..39888542
+
Hg19::chr15:39888616..39888632,+p@chr15:39888616..39888632
+
Hg19::chr15:39888645..39888657,+p@chr15:39888645..39888657
+
Hg19::chr15:39888667..39888675,+p@chr15:39888667..39888675
+
Hg19::chr15:39888763..39888780,+p@chr15:39888763..39888780
+
Hg19::chr15:39888814..39888825,+p@chr15:39888814..39888825
+
Hg19::chr15:39888860..39888866,+p@chr15:39888860..39888866
+
Hg19::chr15:39888868..39888879,+p@chr15:39888868..39888879
+
Hg19::chr15:39888881..39888913,+p@chr15:39888881..39888913
+
Hg19::chr15:39888950..39888983,+p@chr15:39888950..39888983
+
Hg19::chr15:39888995..39889015,+p@chr15:39888995..39889015
+
Hg19::chr15:39889494..39889515,+p1@BC015134
Hg19::chr1:231005310..231005347,-p2@C1orf198


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:0008201heparin binding0.0154244672082892
GO:0007596blood coagulation0.0154244672082892
GO:0050817coagulation0.0154244672082892
GO:0007599hemostasis0.0154244672082892
GO:0005539glycosaminoglycan binding0.0154244672082892
GO:0030247polysaccharide binding0.0154244672082892
GO:0050878regulation of body fluid levels0.0154244672082892
GO:0001871pattern binding0.0154244672082892
GO:0042060wound healing0.0154244672082892
GO:0004866endopeptidase inhibitor activity0.0256253813300793
GO:0030414protease inhibitor activity0.0256253813300793
GO:0051674localization of cell0.0298834334157541
GO:0006928cell motility0.0298834334157541
GO:0004857enzyme inhibitor activity0.0298834334157541
GO:0009611response to wounding0.0298834334157541
GO:0030246carbohydrate binding0.0316584245849523
GO:0009605response to external stimulus0.039458100442579
GO:0007399nervous system development0.042152360767691
GO:0065008regulation of biological quality0.0484432557904829
GO:0022610biological adhesion0.0484432557904829
GO:0007155cell adhesion0.0484432557904829



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
non-terminally differentiated cell8.74e-23180
mesodermal cell1.85e-19119
somatic cell1.36e-17591
fibroblast1.37e-1775
embryonic cell1.00e-15248
animal cell6.53e-13679
eukaryotic cell6.53e-13679
endothelial cell8.93e-1235
endothelial cell of vascular tree2.24e-1124
meso-epithelial cell1.18e-1044
muscle precursor cell1.97e-1057
myoblast1.97e-1057
multi-potent skeletal muscle stem cell1.97e-1057
muscle cell1.02e-0954
smooth muscle cell1.16e-0942
smooth muscle myoblast1.16e-0942
contractile cell1.79e-0959
lining cell2.47e-0957
barrier cell2.47e-0957
vascular associated smooth muscle cell5.61e-0932
electrically responsive cell1.13e-0860
electrically active cell1.13e-0860
blood vessel endothelial cell1.20e-0818
embryonic blood vessel endothelial progenitor cell1.20e-0818
skin fibroblast2.21e-0723
preadipocyte4.15e-0712
Uber Anatomy
Ontology termp-valuen
multi-cellular organism1.33e-22659
splanchnic layer of lateral plate mesoderm5.25e-2184
vasculature1.04e-2079
vascular system1.04e-2079
vessel2.14e-2069
anatomical system1.18e-19625
anatomical group1.37e-19626
circulatory system8.61e-19113
cardiovascular system9.10e-19110
blood vessel1.66e-1860
epithelial tube open at both ends1.66e-1860
blood vasculature1.66e-1860
vascular cord1.66e-1860
epithelial tube1.07e-17118
unilaminar epithelium1.01e-14138
mesoderm1.23e-14448
mesoderm-derived structure1.23e-14448
presumptive mesoderm1.23e-14448
artery3.78e-1442
arterial blood vessel3.78e-1442
arterial system3.78e-1442
trunk mesenchyme1.56e-12143
somite3.55e-1283
paraxial mesoderm3.55e-1283
presomitic mesoderm3.55e-1283
presumptive segmental plate3.55e-1283
trunk paraxial mesoderm3.55e-1283
presumptive paraxial mesoderm3.55e-1283
trunk5.12e-12216
multilaminar epithelium5.14e-1282
surface structure7.20e-1295
systemic artery1.03e-1033
systemic arterial system1.03e-1033
germ layer1.85e-10604
embryonic tissue1.85e-10604
presumptive structure1.85e-10604
epiblast (generic)1.85e-10604
embryonic structure2.09e-10605
developing anatomical structure2.09e-10605
dermomyotome3.47e-1070
lateral plate mesoderm4.20e-10216
embryo8.52e-10612
skeletal muscle tissue1.74e-0961
striated muscle tissue1.74e-0961
myotome1.74e-0961
muscle tissue2.23e-0963
musculature2.23e-0963
musculature of body2.23e-0963
organism subdivision4.34e-09365
integument5.58e-0945
integumental system5.58e-0945
endothelium1.20e-0818
blood vessel endothelium1.20e-0818
cardiovascular system endothelium1.20e-0818
anatomical cluster1.73e-08286
simple squamous epithelium2.06e-0822
skin of body4.96e-0840
squamous epithelium7.54e-0825
epithelium8.42e-08309
aorta8.80e-0821
aortic system8.80e-0821
cell layer1.32e-07312
organ component layer1.45e-0757
mesenchyme1.58e-07238
entire embryonic mesenchyme1.58e-07238
anatomical conduit5.51e-07241


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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