Coexpression cluster:C3620

Full id: C3620_small_salivary_colon_seminal_submaxillary_duodenum_rectum

Phase1 CAGE Peaks

Hg19::chr17:26800693..26800705,+	p2@SLC13A2
Hg19::chr17:26800716..26800725,+	p8@SLC13A2
Hg19::chr19:1907961..1907987,+	p2@ADAT3

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:0015361	low affinity sodium:dicarboxylate symporter activity	0.00323796067349582
GO:0017153	sodium:dicarboxylate symporter activity	0.0183441228500482
GO:0005310	dicarboxylic acid transmembrane transporter activity	0.0183441228500482
GO:0005343	organic acid:sodium symporter activity	0.0252419675056647
GO:0015296	anion:cation symporter activity	0.0252419675056647
GO:0015370	solute:sodium symporter activity	0.0320095731496459
GO:0008033	tRNA processing	0.0320095731496459
GO:0031402	sodium ion binding	0.0320095731496459
GO:0046943	carboxylic acid transmembrane transporter activity	0.0320095731496459
GO:0005342	organic acid transmembrane transporter activity	0.0320095731496459
GO:0015294	solute:cation symporter activity	0.0335012354596173
GO:0006814	sodium ion transport	0.0465624244549352
GO:0008509	anion transmembrane transporter activity	0.0477659391038415
GO:0006399	tRNA metabolic process	0.0477659391038415
GO:0031420	alkali metal ion binding	0.0477659391038415
GO:0015293	symporter activity	0.0488004368474531

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
major salivary gland	4.85e-18	2
open tracheal system trachea	1.04e-17	2
saliva-secreting gland	1.72e-13	6
gland of oral region	1.72e-13	6
gland of foregut	1.72e-13	6
oral gland	1.72e-13	6
oral cavity	1.72e-13	6
male genital duct	2.27e-12	3
internal male genitalia	2.27e-12	3
adult organism	5.41e-12	114
intestine	7.92e-12	17
submandibular gland	4.87e-10	1
submandibular gland primordium	4.87e-10	1
seminal vesicle	6.31e-10	1
seminal fluid secreting gland	6.31e-10	1
vas deferens	6.88e-10	1
spermatic cord	6.88e-10	1
parotid gland	9.70e-10	1
cheek	9.70e-10	1
parotid gland primordium	9.70e-10	1
duct of male reproductive system	1.69e-09	4
gland of gut	2.71e-08	10
subdivision of digestive tract	3.59e-08	118
gastrointestinal system	3.96e-08	25
small intestine	8.83e-08	4
large intestine	1.28e-07	11
digestive system	1.66e-07	145
digestive tract	1.66e-07	145
primitive gut	1.66e-07	145

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)
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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

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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
NR3C1#2908	2	9.98201555411536	0.0127847436554717	0.0460375079348278

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.