Coexpression cluster:C3191

Full id: C3191_bile_Smooth_leiomyoma_Hair_prostate_Preadipocyte_Myoblast

Phase1 CAGE Peaks

Hg19::chr11:65686732..65686756,+	p2@DRAP1
Hg19::chr11:65686776..65686787,+	p9@DRAP1
Hg19::chr11:65686802..65686818,+	p6@DRAP1

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

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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

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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>

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Cell Type

Ontology term	p-value	n
animal cell	4.78e-31	679
eukaryotic cell	4.78e-31	679
non-terminally differentiated cell	2.75e-30	180
somatic cell	6.03e-30	591
mesodermal cell	2.29e-24	119
embryonic cell	2.76e-20	248
native cell	1.78e-19	722
muscle precursor cell	1.29e-17	57
myoblast	1.29e-17	57
multi-potent skeletal muscle stem cell	1.29e-17	57
fibroblast	6.18e-17	75
muscle cell	3.69e-16	54
contractile cell	5.28e-16	59
smooth muscle cell	6.25e-16	42
smooth muscle myoblast	6.25e-16	42
vascular associated smooth muscle cell	3.91e-14	32
electrically responsive cell	3.89e-13	60
electrically active cell	3.89e-13	60
somatic stem cell	1.22e-10	436
multi fate stem cell	2.20e-10	430
stem cell	4.08e-09	444
skin fibroblast	3.67e-08	23
squamous epithelial cell	8.19e-08	62
lining cell	8.59e-07	57
barrier cell	8.59e-07	57

Uber Anatomy

Ontology term	p-value	n
somite	1.20e-21	83
paraxial mesoderm	1.20e-21	83
presomitic mesoderm	1.20e-21	83
presumptive segmental plate	1.20e-21	83
trunk paraxial mesoderm	1.20e-21	83
presumptive paraxial mesoderm	1.20e-21	83
multilaminar epithelium	2.07e-20	82
trunk mesenchyme	2.83e-18	143
dermomyotome	2.86e-18	70
artery	1.25e-16	42
arterial blood vessel	1.25e-16	42
arterial system	1.25e-16	42
vessel	2.33e-15	69
blood vessel	1.26e-14	60
epithelial tube open at both ends	1.26e-14	60
blood vasculature	1.26e-14	60
vascular cord	1.26e-14	60
skeletal muscle tissue	1.90e-14	61
striated muscle tissue	1.90e-14	61
myotome	1.90e-14	61
vasculature	2.84e-14	79
vascular system	2.84e-14	79
systemic artery	7.95e-14	33
systemic arterial system	7.95e-14	33
surface structure	2.15e-13	95
trunk	3.66e-13	216
muscle tissue	6.56e-13	63
musculature	6.56e-13	63
musculature of body	6.56e-13	63
unilaminar epithelium	1.08e-12	138
epithelial tube	1.18e-11	118
splanchnic layer of lateral plate mesoderm	2.01e-11	84
integument	1.89e-09	45
integumental system	1.89e-09	45
mesenchyme	1.91e-09	238
entire embryonic mesenchyme	1.91e-09	238
organism subdivision	2.06e-09	365
mesoderm	3.09e-09	448
mesoderm-derived structure	3.09e-09	448
presumptive mesoderm	3.09e-09	448
musculoskeletal system	1.85e-08	167
cell layer	2.28e-08	312
epithelium	2.77e-08	309
skin of body	3.40e-08	40
cardiovascular system	3.51e-08	110
anatomical system	1.19e-07	625
anatomical group	1.33e-07	626
circulatory system	1.49e-07	113
aorta	4.01e-07	21
aortic system	4.01e-07	21

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

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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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
BCL11A#53335	3	28.3694551036071	4.37778126761649e-05	0.000776645316474602
BCL3#602	3	34.5471028037383	2.42397750207122e-05	0.000526425007982567
BCLAF1#9774	3	21.6526476101218	9.8473954032885e-05	0.00138867422160957
CCNT2#905	3	6.33620157696263	0.00393075003576489	0.0189251153874815
CTCF#10664	3	5.36025637307503	0.006492509252767	0.0278457218943671
E2F1#1869	3	4.90738921487932	0.00846098534723939	0.0323814301982606
E2F4#1874	3	12.6680603152844	0.000491798700629898	0.00435759434080648
E2F6#1876	3	5.01715573169739	0.0079176980688633	0.0320646969100785
EBF1#1879	3	8.906466846569	0.0014152328356098	0.00912661328300416
EGR1#1958	3	4.98817909481014	0.00805648813738344	0.0319224358669167
ELF1#1997	3	4.25809795880754	0.0129517987505461	0.0460280696103268
EP300#2033	3	6.7739417262232	0.00321688050010379	0.0166940513068492
ETS1#2113	3	9.72876092220234	0.00108584009258484	0.00760182688225417
FOSL1#8061	3	39.713579716373	1.59554825631833e-05	0.000370223204491514
FOSL2#2355	3	16.9302006045617	0.000206016205317162	0.00242407914230724
FOXA1#3169	3	11.0814197493855	0.00073475527569867	0.00579672958443068
GABPB1#2553	3	7.06768383618217	0.00283221282541742	0.0153666930891875
GATA3#2625	3	27.236516357206	4.94721007899563e-05	0.000848967586986895
HDAC2#3066	3	13.4156202366263	0.000414076139985721	0.00389987356695542
HMGN3#9324	3	8.17854772335059	0.00182776694216421	0.0108367954398347
HNF4A#3172	3	23.1322903629537	8.07584663437677e-05	0.00122520823162068
HNF4G#3174	3	28.7534225264468	4.20470658818262e-05	0.00075517687250766
IRF1#3659	3	7.6371637535639	0.00224469274729724	0.0127666212402645
JUND#3727	3	6.99466394187103	0.00292184504273499	0.0156217146727859
MEF2A#4205	3	18.7432309096441	0.000151824390562247	0.00194867734127202
MEF2C#4208	3	41.3113544926241	1.41744912101957e-05	0.000340002224965923
MXI1#4601	3	9.9615716287593	0.00101147054125902	0.00718423366829101
MYC#4609	3	5.2222818716094	0.00702084375574015	0.0293311692870013
NFKB1#4790	3	5.48806342419384	0.00604938181565543	0.0268675903655215
NR2C2#7182	3	32.6146109052409	2.88098172333076e-05	0.000603947912892295
NR3C1#2908	3	14.973023331173	0.000297833119467548	0.0030797418974328
PAX5#5079	3	6.66956553117783	0.00337029099967726	0.0172383477014199
PBX3#5090	3	21.9145126867441	9.49854535978121e-05	0.00136135388888458
POU2F2#5452	3	9.10612405774252	0.00132416519268213	0.00879847872239019
RAD21#5885	3	10.3550338954563	0.000900491207356542	0.00662065478388665
RXRA#6256	3	20.0746171391333	0.000123573034843222	0.00164867708047922
SIN3A#25942	3	5.40888472681514	0.00631896197799152	0.0275551594997685
SMC3#9126	3	15.0449328449328	0.000293582542037187	0.0030812448103529
SP1#6667	3	5.6983813781409	0.00540396270171217	0.0245544685927395
SP2#6668	3	26.1535304938446	5.58768218891694e-05	0.000937766254424387
SRF#6722	3	13.7971782621678	0.000380661502580019	0.00374032427019989
STAT1#6772	3	20.7065874971992	0.000112599244104667	0.00154509952109411
STAT2#6773	3	65.2637711864407	3.59360517547754e-06	0.000118171451801542
TAF7#6879	3	11.4330694049239	0.000669018198194583	0.00540843653543185
TCF12#6938	3	10.6344649021864	0.000831352399020207	0.0062794252694924
TCF7L2#6934	3	10.7701765631373	0.000800318129839838	0.00611981440638035
USF1#7391	3	6.36149927720796	0.0038840405729056	0.0189598183404388
YY1#7528	3	4.91117074985386	0.00844145534180826	0.032810463507373
ZEB1#6935	3	16.8884320175439	0.000207548691732758	0.00242056703694891
ZNF143#7702	3	13.5008765522279	0.000406280496299717	0.00387892209096317

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

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This analysis result is provided for C0 - C305 clusters.