Coexpression cluster:C2528

Full id: C2528_left_heart_skeletal_salivary_parotid_melanoma_tongue

Phase1 CAGE Peaks

Hg19::chr1:153600869..153600926,+	p1@S100A1
Hg19::chr1:153603063..153603085,+	p2@S100A1
Hg19::chr3:42744146..42744193,-	p1@HHATL
Hg19::chr3:48057890..48057923,-	p6@MAP4

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

---

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

---

GO ID	GO name	FDR corrected p-value
GO:0048155	S100 alpha binding	0.00953642375842857
GO:0051117	ATPase binding	0.00953642375842857
GO:0048154	S100 beta binding	0.00953642375842857
GO:0007026	negative regulation of microtubule depolymerization	0.0198552699367001
GO:0031114	regulation of microtubule depolymerization	0.0198552699367001
GO:0007019	microtubule depolymerization	0.0198552699367001
GO:0031111	negative regulation of microtubule polymerization or depolymerization	0.0198552699367001
GO:0016528	sarcoplasm	0.0198552699367001
GO:0016529	sarcoplasmic reticulum	0.0198552699367001
GO:0031110	regulation of microtubule polymerization or depolymerization	0.0207264605348736
GO:0031109	microtubule polymerization or depolymerization	0.0207895971926477
GO:0008016	regulation of heart contraction	0.0223822396814111
GO:0051261	protein depolymerization	0.0223822396814111
GO:0060047	heart contraction	0.0223822396814111
GO:0003015	heart process	0.0223822396814111
GO:0051129	negative regulation of cellular component organization and biogenesis	0.0232122025618016
GO:0051128	regulation of cellular component organization and biogenesis	0.039034393714147
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.039034393714147
GO:0051248	negative regulation of protein metabolic process	0.039034393714147

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>

---

Uber Anatomy

Ontology term	p-value	n
adult organism	6.52e-75	114
neural tube	4.86e-39	56
neural rod	4.86e-39	56
future spinal cord	4.86e-39	56
neural keel	4.86e-39	56
regional part of nervous system	3.44e-36	53
regional part of brain	3.44e-36	53
brain	1.75e-31	68
future brain	1.75e-31	68
neural plate	9.16e-31	82
presumptive neural plate	9.16e-31	82
central nervous system	2.81e-30	81
regional part of forebrain	3.85e-29	41
forebrain	3.85e-29	41
anterior neural tube	3.85e-29	41
future forebrain	3.85e-29	41
neurectoderm	2.38e-28	86
nervous system	1.96e-27	89
ecto-epithelium	4.17e-23	104
telencephalon	6.80e-23	34
brain grey matter	9.01e-23	34
gray matter	9.01e-23	34
cerebral hemisphere	6.67e-21	32
regional part of telencephalon	7.46e-21	32
pre-chordal neural plate	1.68e-20	61
structure with developmental contribution from neural crest	2.65e-20	132
regional part of cerebral cortex	5.15e-16	22
organ system subdivision	1.74e-14	223
cerebral cortex	1.83e-14	25
pallium	1.83e-14	25
ectoderm-derived structure	1.84e-14	171
ectoderm	1.84e-14	171
presumptive ectoderm	1.84e-14	171
neocortex	3.54e-14	20
posterior neural tube	7.70e-11	15
chordal neural plate	7.70e-11	15
neural nucleus	2.85e-10	9
nucleus of brain	2.85e-10	9
tube	3.75e-10	192
basal ganglion	3.79e-10	9
nuclear complex of neuraxis	3.79e-10	9
aggregate regional part of brain	3.79e-10	9
collection of basal ganglia	3.79e-10	9
cerebral subcortex	3.79e-10	9
segmental subdivision of nervous system	4.41e-09	13
anatomical conduit	5.15e-09	240
multi-tissue structure	1.20e-08	342
telencephalic nucleus	2.64e-08	7
segmental subdivision of hindbrain	3.36e-08	12
hindbrain	3.36e-08	12
presumptive hindbrain	3.36e-08	12
gyrus	5.23e-08	6
diencephalon	8.60e-08	7
future diencephalon	8.60e-08	7
anatomical cluster	1.98e-07	373
brainstem	2.10e-07	6
organ	3.95e-07	503

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

---

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

---

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

---

This analysis result is provided for C0 - C305 clusters.