Coexpression cluster:C991

Full id: C991_cerebellum_occipital_thalamus_middle_medial_parietal_hippocampus

Phase1 CAGE Peaks

Hg19::chr11:17760741..17760754,+	p@chr11:17760741..17760754 +
Hg19::chr12:50274906..50274914,-	p11@AK127601
Hg19::chr17:8030284..8030295,-	p@chr17:8030284..8030295 -
Hg19::chr2:122247959..122247960,-	p28@CLASP1
Hg19::chr5:87981099..87981108,-	p25@LINC00461
Hg19::chr6:123318409..123318423,+	p@chr6:123318409..123318423 +
Hg19::chr7:70664156..70664170,+	p@chr7:70664156..70664170 +
Hg19::chr8:42552503..42552524,+	p1@CHRNB3

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:0030981	cortical microtubule cytoskeleton	0.00777076248082068
GO:0051010	microtubule plus-end binding	0.00777076248082068
GO:0043515	kinetochore binding	0.00777076248082068
GO:0005828	kinetochore microtubule	0.00777076248082068
GO:0001578	microtubule bundle formation	0.0103604066223044
GO:0005881	cytoplasmic microtubule	0.0103604066223044
GO:0007271	synaptic transmission, cholinergic	0.0126258162454333
GO:0005892	nicotinic acetylcholine-gated receptor-channel complex	0.0126258162454333
GO:0005876	spindle microtubule	0.012762682403163
GO:0007026	negative regulation of microtubule depolymerization	0.012762682403163
GO:0031114	regulation of microtubule depolymerization	0.012762682403163
GO:0031111	negative regulation of microtubule polymerization or depolymerization	0.012762682403163
GO:0007019	microtubule depolymerization	0.012762682403163
GO:0004889	nicotinic acetylcholine-activated cation-selective channel activity	0.012762682403163
GO:0030863	cortical cytoskeleton	0.0129472675530594
GO:0007163	establishment and/or maintenance of cell polarity	0.0130822061173456
GO:0031110	regulation of microtubule polymerization or depolymerization	0.0130822061173456
GO:0000776	kinetochore	0.0130822061173456
GO:0031109	microtubule polymerization or depolymerization	0.0130822061173456
GO:0044448	cell cortex part	0.0170111473719583
GO:0051261	protein depolymerization	0.0170111473719583
GO:0008017	microtubule binding	0.0172961434962173
GO:0051129	negative regulation of cellular component organization and biogenesis	0.0175562678351748
GO:0005938	cell cortex	0.0207037327184926
GO:0015631	tubulin binding	0.0208063317787594
GO:0005231	excitatory extracellular ligand-gated ion channel activity	0.0214974962065383
GO:0000775	chromosome, pericentric region	0.0216235457381674
GO:0005819	spindle	0.0216235457381674
GO:0051128	regulation of cellular component organization and biogenesis	0.0260312826246814
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0260312826246814
GO:0051248	negative regulation of protein metabolic process	0.0260312826246814
GO:0043235	receptor complex	0.026670319353467
GO:0043234	protein complex	0.028798453302904
GO:0005813	centrosome	0.0290304848428203
GO:0005230	extracellular ligand-gated ion channel activity	0.0290304848428203
GO:0030594	neurotransmitter receptor activity	0.0296249349141213
GO:0042165	neurotransmitter binding	0.0296249349141213
GO:0005815	microtubule organizing center	0.0296249349141213
GO:0045211	postsynaptic membrane	0.0296249349141213
GO:0044456	synapse part	0.0302715179621065
GO:0015276	ligand-gated ion channel activity	0.0302715179621065
GO:0022834	ligand-gated channel activity	0.0302715179621065
GO:0032991	macromolecular complex	0.0400958062269846
GO:0007067	mitosis	0.0412409419109716
GO:0000087	M phase of mitotic cell cycle	0.0412409419109716
GO:0051301	cell division	0.0412409419109716
GO:0007268	synaptic transmission	0.0477454162708972
GO:0005874	microtubule	0.0480347143358087
GO:0000279	M phase	0.0483119055317247
GO:0007017	microtubule-based process	0.0487317017888626
GO:0000278	mitotic cell cycle	0.0490778226376123
GO:0019226	transmission of nerve impulse	0.0490778226376123

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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.