Coexpression cluster:C1633

Full id: C1633_uterus_kidney_ovary_Hepatic_Mesothelial_Renal_spleen

Phase1 CAGE Peaks

Hg19::chr11:32456954..32456965,-	p4@WT1
Hg19::chr11:32457075..32457095,-	p1@WT1
Hg19::chr11:32457185..32457193,-	p7@WT1
Hg19::chr11:32457307..32457323,+	p4@WT1-AS
Hg19::chr11:32457350..32457361,+	p5@WT1-AS

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
mesothelial cell	1.75e-09	19
cardiocyte	1.18e-07	16

Uber Anatomy

Ontology term	p-value	n
compound organ	8.13e-14	69
body cavity precursor	4.80e-12	63
primary circulatory organ	4.80e-12	27
heart	5.23e-11	24
primitive heart tube	5.23e-11	24
primary heart field	5.23e-11	24
anterior lateral plate mesoderm	5.23e-11	24
heart tube	5.23e-11	24
heart primordium	5.23e-11	24
cardiac mesoderm	5.23e-11	24
cardiogenic plate	5.23e-11	24
heart rudiment	5.23e-11	24
reproductive structure	3.06e-10	59
reproductive system	3.06e-10	59
reproductive organ	4.18e-10	48
anatomical cavity	4.78e-10	70
gonad	1.09e-09	21
indifferent external genitalia	1.09e-09	21
indifferent gonad	1.09e-09	21
gonad primordium	1.09e-09	21
external genitalia	5.71e-09	22
body cavity or lining	6.73e-09	49
body cavity	1.59e-08	46
intermediate mesoderm	3.77e-08	37
anatomical space	4.94e-08	104
abdominal segment of trunk	7.51e-08	61
abdomen	7.51e-08	61
immaterial anatomical entity	1.98e-07	126
abdomen element	2.16e-07	55
abdominal segment element	2.16e-07	55
female gonad	6.49e-07	13
female reproductive organ	8.42e-07	37
female reproductive system	8.42e-07	37

Disease

Ontology term	p-value	n
myeloid leukemia	6.10e-20	31
leukemia	1.10e-15	39
hematologic cancer	3.23e-10	51
immune system cancer	3.23e-10	51
disease of cellular proliferation	1.12e-09	239
ovarian cancer	2.82e-09	14
organ system cancer	5.39e-09	137
cancer	3.05e-08	235

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
CCNT2#905	5	6.33620157696263	9.78880505817628e-05	0.00138866206393762
CTCF#10664	5	5.36025637307503	0.000225927829993709	0.00249425757259122
CTCFL#140690	5	19.7464743589744	3.32745051287657e-07	1.65562460273614e-05
E2F6#1876	5	5.01715573169739	0.000314497859929779	0.00322460651808425
EGR1#1958	5	4.98817909481014	0.000323739800059071	0.00330412009951816
ELF1#1997	5	4.25809795880754	0.000714241693977684	0.00572572062306842
HEY1#23462	5	4.04011104310571	0.000928885220517799	0.00673599802427846
HMGN3#9324	5	8.17854772335059	2.73180911341838e-05	0.000581429411037909
MAX#4149	5	6.45255550900712	8.93743970843928e-05	0.00130547869330026
SUZ12#23512	5	50.1157809110629	3.15480790456198e-09	2.61081602808676e-07
TAF1#6872	5	3.34304628574529	0.00239460009087031	0.0135139759478226
TBP#6908	5	3.70677068709639	0.00142875510672112	0.00917698367717388
YY1#7528	5	4.91117074985386	0.0003499314082136	0.00352459121828721
ZBTB7A#51341	5	7.3519093078759	4.65425347594289e-05	0.000815169509934595
ZNF263#10127	5	8.22184163701068	2.6606316672286e-05	0.000570582568159524

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.