Coexpression cluster:C289

Full id: C289_chorionic_skeletal_heart_Mast_amniotic_granulosa_left

Phase1 CAGE Peaks

Hg19::chr10:100150986..100150988,+	p@chr10:100150986..100150988 +
Hg19::chr10:134275596..134275597,+	p@chr10:134275596..134275597 +
Hg19::chr11:2150786..2150798,+	p3@BC127839
Hg19::chr11:57154835..57154847,+	p2@CU675194
Hg19::chr11:57154881..57154893,+	p1@CU675194
Hg19::chr11:57154962..57154970,+	p3@CU675194
Hg19::chr11:57156054..57156064,+	p@chr11:57156054..57156064 +
Hg19::chr11:57156676..57156686,+	p@chr11:57156676..57156686 +
Hg19::chr11:57156718..57156726,+	p@chr11:57156718..57156726 +
Hg19::chr11:63488452..63488456,+	p@chr11:63488452..63488456 +
Hg19::chr11:71710984..71711008,+	p9@IL18BP
Hg19::chr11:71711013..71711028,+	p6@IL18BP
Hg19::chr12:52301235..52301246,+	p13@ACVRL1
Hg19::chr12:95267095..95267097,+	p@chr12:95267095..95267097 +
Hg19::chr14:105359977..105359978,+	p4@KIAA0284
Hg19::chr14:34516082..34516087,-	p@chr14:34516082..34516087 -
Hg19::chr14:65105965..65105968,-	p@chr14:65105965..65105968 -
Hg19::chr16:66959429..66959444,-	p1@RRAD
Hg19::chr17:15686350..15686359,+	p4@IL6STP1
Hg19::chr17:18164614..18164617,-	p@chr17:18164614..18164617 -
Hg19::chr18:47766907..47766915,+	p@chr18:47766907..47766915 +
Hg19::chr19:4210133..4210148,-	p@chr19:4210133..4210148 -
Hg19::chr19:9783972..9783976,+	p@chr19:9783972..9783976 +
Hg19::chr1:103299100..103299144,+	p@chr1:103299100..103299144 +
Hg19::chr1:43988983..43989012,+	p@chr1:43988983..43989012 +
Hg19::chr1:799209..799212,+	p@chr1:799209..799212 +
Hg19::chr3:15493229..15493233,-	p@chr3:15493229..15493233 -
Hg19::chr3:194215056..194215071,-	p@chr3:194215056..194215071 -
Hg19::chr3:45596863..45596884,+	p13@LIMD1
Hg19::chr3:4723000..4723006,+	p@chr3:4723000..4723006 +
Hg19::chr3:97910197..97910206,+	p@chr3:97910197..97910206 +
Hg19::chr5:115265770..115265773,-	p@chr5:115265770..115265773 -
Hg19::chr5:127607810..127607838,-	p@chr5:127607810..127607838 -
Hg19::chr5:176152899..176152904,+	p@chr5:176152899..176152904 +
Hg19::chr5:2749492..2749495,-	p@chr5:2749492..2749495 -
Hg19::chr6:161459302..161459304,+	p@chr6:161459302..161459304 +
Hg19::chr6:36293751..36293753,-	p@chr6:36293751..36293753 -
Hg19::chr6:4488206..4488213,+	p@chr6:4488206..4488213 +
Hg19::chr6:80023101..80023112,-	p3@uc003piw.1
Hg19::chr7:138848445..138848454,+	p@chr7:138848445..138848454 +
Hg19::chr7:45932645..45932656,+	p2@AF042356
Hg19::chr8:102466479..102466487,+	p@chr8:102466479..102466487 +
Hg19::chr8:62490697..62490708,+	p1@uc003xuk.2
Hg19::chr9:4299962..4299963,+	p@chr9:4299962..4299963 +

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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GO ID	GO name	FDR corrected p-value
GO:0019838	growth factor binding	0.0135994348286824
GO:0019955	cytokine binding	0.0135994348286824
GO:0042007	interleukin-18 binding	0.0135994348286824
GO:0005057	receptor signaling protein activity	0.0174818995682708
GO:0035313	wound healing, spreading of epidermal cells	0.0174818995682708
GO:0050431	transforming growth factor beta binding	0.0174818995682708
GO:0051895	negative regulation of focal adhesion formation	0.0174818995682708
GO:0016361	activin receptor activity, type I	0.0176731998586883
GO:0051893	regulation of focal adhesion formation	0.0176731998586883
GO:0005025	transforming growth factor beta receptor activity, type I	0.0176731998586883
GO:0017002	activin receptor activity	0.0176731998586883
GO:0006349	genetic imprinting	0.0176731998586883
GO:0048185	activin binding	0.0176731998586883
GO:0007165	signal transduction	0.0176731998586883
GO:0001953	negative regulation of cell-matrix adhesion	0.0176731998586883
GO:0007167	enzyme linked receptor protein signaling pathway	0.0176731998586883
GO:0018445	prothoracicotrophic hormone activity	0.0176731998586883
GO:0007154	cell communication	0.0176731998586883
GO:0030547	receptor inhibitor activity	0.0176731998586883
GO:0048019	receptor antagonist activity	0.0176731998586883
GO:0005515	protein binding	0.0176731998586883
GO:0022408	negative regulation of cell-cell adhesion	0.018269524327721
GO:0005159	insulin-like growth factor receptor binding	0.018269524327721
GO:0030545	receptor regulator activity	0.018269524327721
GO:0042088	T-helper 1 type immune response	0.018269524327721
GO:0032502	developmental process	0.018269524327721
GO:0022407	regulation of cell-cell adhesion	0.018269524327721
GO:0048041	focal adhesion formation	0.018269524327721
GO:0001952	regulation of cell-matrix adhesion	0.018269524327721
GO:0046332	SMAD binding	0.021730292128721
GO:0004675	transmembrane receptor protein serine/threonine kinase activity	0.0229146203514971
GO:0005024	transforming growth factor beta receptor activity	0.0229146203514971
GO:0030336	negative regulation of cell migration	0.0234526246261097
GO:0051271	negative regulation of cell motility	0.0275452882691319
GO:0040013	negative regulation of locomotion	0.0279192182649181
GO:0007162	negative regulation of cell adhesion	0.0294004658922312
GO:0048856	anatomical structure development	0.0321170087531403
GO:0008286	insulin receptor signaling pathway	0.0342625499906871
GO:0005184	neuropeptide hormone activity	0.034424234422504
GO:0005520	insulin-like growth factor binding	0.0386319699557641
GO:0019965	interleukin binding	0.0396663923494634
GO:0007275	multicellular organismal development	0.041527046048951
GO:0008283	cell proliferation	0.0431655393324574
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0461615641177144
GO:0008217	regulation of blood pressure	0.049627418817607

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
chorionic membrane mesenchymal stem cell	9.61e-85	3
extraembryonic cell	2.45e-24	19
amnion mesenchymal stem cell	5.08e-07	5

Uber Anatomy

Ontology term	p-value	n
acellular anatomical structure	9.61e-85	3
egg chorion	9.61e-85	3
chorion	1.32e-64	7
extraembryonic membrane	1.37e-50	14
membranous layer	1.37e-50	14
extraembryonic structure	9.15e-30	24
organ component layer	4.31e-11	66
placenta	2.11e-08	4
allantois	2.11e-08	4

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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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

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