Coexpression cluster:C701

Full id: C701_Mast_thalamus_globus_middle_substantia_corpus_medial

Phase1 CAGE Peaks

Hg19::chr15:42696918..42696927,+	p9@CAPN3
Hg19::chr6:134638696..134638707,-	p25@SGK1
Hg19::chr6:134639042..134639056,-	p14@SGK1
Hg19::chr6:134639058..134639085,-	p10@SGK1
Hg19::chr6:134639090..134639119,-	p6@SGK1
Hg19::chr6:134639126..134639137,-	p32@SGK1
Hg19::chr6:134639140..134639171,-	p7@SGK1
Hg19::chr6:134639180..134639220,-	p4@SGK1
Hg19::chr6:134639235..134639255,-	p8@SGK1
Hg19::chr7:104909435..104909535,-	p2@SRPK2
Hg19::chr7:117513474..117513500,-	p1@CTTNBP2
Hg19::chr7:117513540..117513587,-	p2@CTTNBP2

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:0031116	positive regulation of microtubule polymerization	0.0186801036130093
GO:0050998	nitric-oxide synthase binding	0.0186801036130093
GO:0031112	positive regulation of microtubule polymerization or depolymerization	0.0186801036130093
GO:0030321	transepithelial chloride transport	0.0186801036130093
GO:0031113	regulation of microtubule polymerization	0.0186801036130093
GO:0046785	microtubule polymerization	0.0186801036130093
GO:0032502	developmental process	0.0186801036130093
GO:0001937	negative regulation of endothelial cell proliferation	0.0186801036130093
GO:0051130	positive regulation of cellular component organization and biogenesis	0.0186801036130093
GO:0045178	basal part of cell	0.0186801036130093
GO:0009925	basal plasma membrane	0.0186801036130093
GO:0001936	regulation of endothelial cell proliferation	0.0186801036130093
GO:0019905	syntaxin binding	0.0186801036130093
GO:0042311	vasodilation	0.0186801036130093
GO:0001935	endothelial cell proliferation	0.0186801036130093
GO:0030317	sperm motility	0.0186801036130093
GO:0000149	SNARE binding	0.0186801036130093
GO:0007595	lactation	0.0186801036130093
GO:0043434	response to peptide hormone stimulus	0.0186801036130093
GO:0043627	response to estrogen stimulus	0.0186801036130093
GO:0016599	caveolar membrane	0.0186801036130093
GO:0005901	caveola	0.0186801036130093
GO:0031110	regulation of microtubule polymerization or depolymerization	0.0186801036130093
GO:0004198	calcium-dependent cysteine-type endopeptidase activity	0.0186801036130093
GO:0000245	spliceosome assembly	0.0186801036130093
GO:0031109	microtubule polymerization or depolymerization	0.0186801036130093
GO:0019861	flagellum	0.0186801036130093
GO:0005925	focal adhesion	0.0186801036130093
GO:0001764	neuron migration	0.0186801036130093
GO:0048545	response to steroid hormone stimulus	0.0186801036130093
GO:0048513	organ development	0.0186801036130093
GO:0005924	cell-substrate adherens junction	0.0186801036130093
GO:0004672	protein kinase activity	0.0186801036130093
GO:0006468	protein amino acid phosphorylation	0.0186801036130093
GO:0030055	cell-matrix junction	0.0186801036130093
GO:0030324	lung development	0.0186801036130093
GO:0035150	regulation of tube size	0.0186801036130093
GO:0050880	regulation of blood vessel size	0.0186801036130093
GO:0030323	respiratory tube development	0.0186801036130093
GO:0003018	vascular process in circulatory system	0.0186801036130093
GO:0046777	protein amino acid autophosphorylation	0.0186801036130093
GO:0045121	lipid raft	0.0186801036130093
GO:0016540	protein autoprocessing	0.0186801036130093
GO:0044267	cellular protein metabolic process	0.019975165662148
GO:0044260	cellular macromolecule metabolic process	0.0202967030143573
GO:0005912	adherens junction	0.02039706182063
GO:0016310	phosphorylation	0.02039706182063
GO:0016773	phosphotransferase activity, alcohol group as acceptor	0.02039706182063
GO:0019538	protein metabolic process	0.0207095077449335
GO:0048609	reproductive process in a multicellular organism	0.0208765004351701
GO:0032504	multicellular organism reproduction	0.0208765004351701
GO:0042493	response to drug	0.0211450960231025
GO:0016324	apical plasma membrane	0.0218118710033986
GO:0000398	nuclear mRNA splicing, via spliceosome	0.0218118710033986
GO:0000375	RNA splicing, via transesterification reactions	0.0218118710033986
GO:0000377	RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	0.0218118710033986
GO:0048731	system development	0.0225153910667357
GO:0009725	response to hormone stimulus	0.0228608169243905
GO:0016301	kinase activity	0.0233437865526716
GO:0006793	phosphorus metabolic process	0.0233437865526716
GO:0006796	phosphate metabolic process	0.0233437865526716
GO:0035239	tube morphogenesis	0.0233437865526716
GO:0016323	basolateral plasma membrane	0.0233437865526716
GO:0045177	apical part of cell	0.0233437865526716
GO:0006821	chloride transport	0.0233437865526716
GO:0048869	cellular developmental process	0.0242610472914439
GO:0030154	cell differentiation	0.0242610472914439
GO:0051258	protein polymerization	0.0245550436696403
GO:0019900	kinase binding	0.0245550436696403
GO:0016485	protein processing	0.0245550436696403
GO:0051128	regulation of cellular component organization and biogenesis	0.0245550436696403
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0246968259458888
GO:0030659	cytoplasmic vesicle membrane	0.0250727235879941
GO:0044433	cytoplasmic vesicle part	0.0252035395469867
GO:0016772	transferase activity, transferring phosphorus-containing groups	0.0253631517374223
GO:0012506	vesicle membrane	0.0258025127592807
GO:0048856	anatomical structure development	0.0258025127592807
GO:0035295	tube development	0.0261380241335892
GO:0005737	cytoplasm	0.0267665293047419
GO:0007420	brain development	0.0297900844702313
GO:0022618	protein-RNA complex assembly	0.0297900844702313
GO:0043687	post-translational protein modification	0.0297900844702313
GO:0004197	cysteine-type endopeptidase activity	0.0297900844702313
GO:0007275	multicellular organismal development	0.0309125018910617
GO:0008015	blood circulation	0.0323781891794638
GO:0003013	circulatory system process	0.0323781891794638
GO:0007517	muscle development	0.0343943065693929
GO:0006464	protein modification process	0.0404822434922459
GO:0043412	biopolymer modification	0.0429476695999892
GO:0008285	negative regulation of cell proliferation	0.0429476695999892
GO:0008380	RNA splicing	0.0429476695999892
GO:0016477	cell migration	0.0434120560477655
GO:0005625	soluble fraction	0.0434120560477655
GO:0007417	central nervous system development	0.0434120560477655
GO:0048699	generation of neurons	0.0442254649823763
GO:0022613	ribonucleoprotein complex biogenesis and assembly	0.0444829172976253
GO:0015698	inorganic anion transport	0.0463873480793026
GO:0022008	neurogenesis	0.0463873480793026
GO:0006397	mRNA processing	0.0478311459301994

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	7.20e-42	115
neural tube	3.29e-28	57
neural rod	3.29e-28	57
future spinal cord	3.29e-28	57
neural keel	3.29e-28	57
central nervous system	8.79e-28	82
regional part of nervous system	8.94e-28	94
nervous system	8.94e-28	94
ectoderm	8.25e-25	173
presumptive ectoderm	8.25e-25	173
regional part of brain	1.91e-24	59
ectoderm-derived structure	1.69e-23	169
anterior neural tube	1.27e-22	42
regional part of forebrain	1.81e-22	41
forebrain	1.81e-22	41
future forebrain	1.81e-22	41
brain	2.21e-22	69
future brain	2.21e-22	69
neurectoderm	6.68e-22	90
neural plate	1.41e-20	86
presumptive neural plate	1.41e-20	86
anterior region of body	5.56e-20	129
craniocervical region	5.56e-20	129
head	5.25e-19	123
telencephalon	1.20e-18	34
gray matter	1.21e-18	34
brain grey matter	1.21e-18	34
regional part of telencephalon	4.71e-18	33
cerebral hemisphere	2.61e-17	32
pre-chordal neural plate	1.28e-15	61
regional part of cerebral cortex	1.21e-14	22
neocortex	2.12e-13	20
cerebral cortex	4.78e-13	25
pallium	4.78e-13	25
nucleus of brain	3.57e-07	9
neural nucleus	3.57e-07	9
basal ganglion	4.66e-07	9
nuclear complex of neuraxis	4.66e-07	9
aggregate regional part of brain	4.66e-07	9
collection of basal ganglia	4.66e-07	9
cerebral subcortex	4.66e-07	9
posterior neural tube	7.56e-07	15
chordal neural plate	7.56e-07	15

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.