Coexpression cluster:C643

Full id: C643_duodenum_temporal_pancreas_stomach_mesothelioma_small_amygdala

Phase1 CAGE Peaks

Hg19::chr10:118349920..118349930,+	p3@PNLIPRP1
Hg19::chr11:2182437..2182439,-	p16@IGF2 p1@INS-IGF2 p1@INS
Hg19::chr16:75238049..75238067,-	p@chr16:75238049..75238067 -
Hg19::chr17:42019840..42019844,-	p1@PPY
Hg19::chr19:35068562..35068576,-	p1@SCGB1B2P
Hg19::chr2:79252804..79252815,+	p4@REG3G
Hg19::chr2:79252822..79252833,+	p3@REG3G
Hg19::chr2:79252834..79252861,+	p1@REG3G
Hg19::chr2:79252866..79252876,+	p2@REG3G
Hg19::chr3:187388173..187388189,-	p1@SST
Hg19::chr6:24777040..24777071,+	p3@GMNN
Hg19::chr6:35762794..35762810,-	p@chr6:35762794..35762810 -
Hg19::chr7:117257347..117257378,+	p@chr7:117257347..117257378 +

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:0005179	hormone activity	0.000633575236815349
GO:0007586	digestion	0.00720146382152343
GO:0005102	receptor binding	0.0132442531978175
GO:0035081	induction of programmed cell death by hormones	0.0132442531978175
GO:0008628	induction of apoptosis by hormones	0.0132442531978175
GO:0006349	genetic imprinting	0.0220688823926765
GO:0018445	prothoracicotrophic hormone activity	0.0252178678920457
GO:0005159	insulin-like growth factor receptor binding	0.030333549648849
GO:0008156	negative regulation of DNA replication	0.0374867421143574
GO:0004806	triacylglycerol lipase activity	0.0374867421143574
GO:0051053	negative regulation of DNA metabolic process	0.0380825283826149
GO:0006275	regulation of DNA replication	0.044046913908284
GO:0009605	response to external stimulus	0.044046913908284
GO:0006953	acute-phase response	0.044046913908284
GO:0008286	insulin receptor signaling pathway	0.044046913908284
GO:0005184	neuropeptide hormone activity	0.044046913908284
GO:0008624	induction of apoptosis by extracellular signals	0.044046913908284
GO:0008283	cell proliferation	0.0471826142917586
GO:0007584	response to nutrient	0.0486547819409185

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
adult organism	3.06e-39	115
neural tube	1.02e-32	57
neural rod	1.02e-32	57
future spinal cord	1.02e-32	57
neural keel	1.02e-32	57
central nervous system	6.63e-32	82
anterior neural tube	6.10e-30	42
regional part of nervous system	1.11e-29	94
nervous system	1.11e-29	94
regional part of forebrain	2.03e-29	41
forebrain	2.03e-29	41
future forebrain	2.03e-29	41
regional part of brain	3.65e-27	59
gray matter	1.32e-24	34
brain grey matter	1.32e-24	34
telencephalon	1.40e-24	34
cerebral hemisphere	7.23e-24	32
regional part of telencephalon	9.55e-24	33
brain	1.32e-23	69
future brain	1.32e-23	69
neural plate	6.58e-23	86
presumptive neural plate	6.58e-23	86
neurectoderm	8.91e-22	90
pre-chordal neural plate	2.94e-20	61
regional part of cerebral cortex	6.94e-19	22
cerebral cortex	3.48e-18	25
pallium	3.48e-18	25
neocortex	1.83e-17	20
organ	2.49e-12	511
ectoderm-derived structure	1.32e-11	169
anterior region of body	1.62e-11	129
craniocervical region	1.62e-11	129
ectoderm	2.84e-11	173
presumptive ectoderm	2.84e-11	173
head	1.33e-10	123
organ part	1.58e-10	219
multi-cellular organism	4.07e-09	659
tube	6.79e-09	194
basal ganglion	4.69e-08	9
nuclear complex of neuraxis	4.69e-08	9
aggregate regional part of brain	4.69e-08	9
collection of basal ganglia	4.69e-08	9
cerebral subcortex	4.69e-08	9
nucleus of brain	7.23e-08	9
neural nucleus	7.23e-08	9
temporal lobe	9.58e-08	7
embryo	3.49e-07	612
anatomical system	3.72e-07	625
anatomical group	4.70e-07	626
anatomical conduit	6.73e-07	241

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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This analysis result is provided for C0 - C305 clusters.