Coexpression cluster:C1141

Full id: C1141_argyrophil_pituitary_nonsmall_small_medulla_locus_temporal

Phase1 CAGE Peaks

Hg19::chr11:45918158..45918189,+	p8@MAPK8IP1
Hg19::chr15:75488008..75488019,+	p@chr15:75488008..75488019 +
Hg19::chr16:8814563..8814603,+	p6@ABAT
Hg19::chr1:206223941..206223944,+	p1@AVPR1B
Hg19::chr1:240286448..240286474,+	p@chr1:240286448..240286474 +
Hg19::chr4:8012461..8012482,-	p6@ABLIM2
Hg19::chrX:118608746..118608769,+	p@chrX:118608746..118608769 +

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:0019899	enzyme binding	0.000532460199117048
GO:0019901	protein kinase binding	0.00275226657247145
GO:0019900	kinase binding	0.00275226657247145
GO:0003867	4-aminobutyrate transaminase activity	0.00275226657247145
GO:0047298	(S)-3-amino-2-methylpropionate transaminase activity	0.00275226657247145
GO:0032145	succinate-semialdehyde dehydrogenase binding	0.00275226657247145
GO:0032144	4-aminobutyrate transaminase complex	0.00275226657247145
GO:0042538	hyperosmotic salinity response	0.00275226657247145
GO:0009448	gamma-aminobutyric acid metabolic process	0.00293562138164337
GO:0009651	response to salt stress	0.00293562138164337
GO:0048148	behavioral response to cocaine	0.00293562138164337
GO:0019626	short-chain fatty acid catabolic process	0.00293562138164337
GO:0046359	butyrate catabolic process	0.00293562138164337
GO:0019605	butyrate metabolic process	0.00293562138164337
GO:0009450	gamma-aminobutyric acid catabolic process	0.00293562138164337
GO:0001992	regulation of systemic arterial blood pressure by vasopressin	0.00330242822745582
GO:0006972	hyperosmotic response	0.00330242822745582
GO:0005078	MAP-kinase scaffold activity	0.00330242822745582
GO:0042220	response to cocaine	0.00330242822745582
GO:0014073	response to tropane	0.00330242822745582
GO:0046459	short-chain fatty acid metabolic process	0.00419337448417358
GO:0009062	fatty acid catabolic process	0.00500323725885042
GO:0006970	response to osmotic stress	0.00647334823424654
GO:0042135	neurotransmitter catabolic process	0.00647334823424654
GO:0043279	response to alkaloid	0.00647334823424654
GO:0050886	endocrine process	0.00647334823424654
GO:0001990	regulation of systemic arterial blood pressure by hormone	0.00647334823424654
GO:0019894	kinesin binding	0.00647334823424654
GO:0017046	peptide hormone binding	0.00647334823424654
GO:0005000	vasopressin receptor activity	0.00647334823424654
GO:0046395	carboxylic acid catabolic process	0.00647334823424654
GO:0016054	organic acid catabolic process	0.00647334823424654
GO:0005080	protein kinase C binding	0.00647334823424654
GO:0001603	vasopressin-like receptor activity	0.00647334823424654
GO:0014070	response to organic cyclic substance	0.00691692952418288
GO:0003044	regulation of systemic arterial blood pressure mediated by a chemical signal	0.0073358134288381
GO:0042219	amino acid derivative catabolic process	0.00832640416780392
GO:0008092	cytoskeletal protein binding	0.00880142132979071
GO:0007202	phospholipase C activation	0.00880142132979071
GO:0003073	regulation of systemic arterial blood pressure	0.00880142132979071
GO:0030159	receptor signaling complex scaffold activity	0.00965924344639748
GO:0046328	regulation of JNK cascade	0.00995266979920516
GO:0005737	cytoplasm	0.00999984862400368
GO:0032947	protein complex scaffold	0.00999984862400368
GO:0019439	aromatic compound catabolic process	0.0102660578907856
GO:0042562	hormone binding	0.0124313000723987
GO:0030534	adult behavior	0.0126342003787232
GO:0042133	neurotransmitter metabolic process	0.0146586743863171
GO:0004860	protein kinase inhibitor activity	0.0179430566270281
GO:0005515	protein binding	0.0180997788971695
GO:0019210	kinase inhibitor activity	0.0180997788971695
GO:0008483	transaminase activity	0.0194389104962489
GO:0044242	cellular lipid catabolic process	0.0198996041632521
GO:0008217	regulation of blood pressure	0.0223724594128333
GO:0016769	transferase activity, transferring nitrogenous groups	0.0243116360946388
GO:0010033	response to organic substance	0.0243116360946388
GO:0007254	JNK cascade	0.0250375296718024
GO:0031098	stress-activated protein kinase signaling pathway	0.025609662230631
GO:0051480	cytosolic calcium ion homeostasis	0.025609662230631
GO:0007204	elevation of cytosolic calcium ion concentration	0.025609662230631
GO:0051345	positive regulation of hydrolase activity	0.0273417127902622
GO:0001505	regulation of neurotransmitter levels	0.0276061920576986
GO:0043229	intracellular organelle	0.0294816676800128
GO:0043226	organelle	0.0294816676800128
GO:0007200	G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)	0.029694844998741
GO:0006575	amino acid derivative metabolic process	0.0299069380436163
GO:0003008	system process	0.0323096681837383
GO:0019887	protein kinase regulator activity	0.0338427757439054
GO:0006874	cellular calcium ion homeostasis	0.0360979764961657
GO:0055074	calcium ion homeostasis	0.0360979764961657
GO:0030170	pyridoxal phosphate binding	0.0360979764961657
GO:0019207	kinase regulator activity	0.0364010246706387
GO:0006875	cellular metal ion homeostasis	0.0364010246706387
GO:0055065	metal ion homeostasis	0.0364010246706387
GO:0048015	phosphoinositide-mediated signaling	0.0376576776302515
GO:0007154	cell communication	0.0378359583518643
GO:0016042	lipid catabolic process	0.0409821848022357
GO:0001653	peptide receptor activity	0.0409821848022357
GO:0008528	peptide receptor activity, G-protein coupled	0.0409821848022357
GO:0000165	MAPKKK cascade	0.0410131733915982
GO:0042803	protein homodimerization activity	0.0416457691005139
GO:0007242	intracellular signaling cascade	0.0416457691005139
GO:0008015	blood circulation	0.0416457691005139
GO:0003013	circulatory system process	0.0416457691005139
GO:0009628	response to abiotic stimulus	0.04243256151255
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0439236533691728
GO:0044424	intracellular part	0.0439236533691728
GO:0031980	mitochondrial lumen	0.0439236533691728
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0439236533691728
GO:0006725	aromatic compound metabolic process	0.0439236533691728
GO:0005759	mitochondrial matrix	0.0439236533691728
GO:0006631	fatty acid metabolic process	0.0453076123791525
GO:0005768	endosome	0.0453076123791525
GO:0030003	cellular cation homeostasis	0.0464370468193041
GO:0055080	cation homeostasis	0.0466312757290864
GO:0042277	peptide binding	0.0472716745516595

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><br>

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Cell Type

Ontology term	p-value	n
neural cell	3.83e-07	25

Uber Anatomy

Ontology term	p-value	n
central nervous system	2.12e-52	82
regional part of nervous system	3.00e-50	94
nervous system	3.00e-50	94
neural tube	6.94e-49	57
neural rod	6.94e-49	57
future spinal cord	6.94e-49	57
neural keel	6.94e-49	57
brain	2.24e-43	69
future brain	2.24e-43	69
adult organism	3.50e-40	115
regional part of brain	5.74e-40	59
regional part of forebrain	1.10e-39	41
forebrain	1.10e-39	41
future forebrain	1.10e-39	41
neural plate	1.43e-39	86
presumptive neural plate	1.43e-39	86
neurectoderm	4.39e-39	90
anterior neural tube	2.44e-38	42
gray matter	5.44e-33	34
brain grey matter	5.44e-33	34
telencephalon	9.55e-33	34
regional part of telencephalon	7.75e-32	33
cerebral hemisphere	1.11e-30	32
pre-chordal neural plate	5.38e-30	61
anterior region of body	5.54e-26	129
craniocervical region	5.54e-26	129
ectoderm	1.83e-25	173
presumptive ectoderm	1.83e-25	173
ectoderm-derived structure	2.86e-25	169
head	1.03e-24	123
cerebral cortex	5.46e-24	25
pallium	5.46e-24	25
regional part of cerebral cortex	6.18e-22	22
neocortex	6.79e-20	20
posterior neural tube	1.96e-11	15
chordal neural plate	1.96e-11	15
tube	8.16e-11	194
nucleus of brain	2.14e-10	9
neural nucleus	2.14e-10	9
basal ganglion	4.54e-10	9
nuclear complex of neuraxis	4.54e-10	9
aggregate regional part of brain	4.54e-10	9
collection of basal ganglia	4.54e-10	9
cerebral subcortex	4.54e-10	9
segmental subdivision of nervous system	3.59e-09	13
organ	7.62e-09	511
temporal lobe	8.83e-09	7
segmental subdivision of hindbrain	1.62e-08	12
hindbrain	1.62e-08	12
presumptive hindbrain	1.62e-08	12
diencephalon	2.93e-08	7
future diencephalon	2.93e-08	7
telencephalic nucleus	3.23e-08	7
organ part	3.51e-08	219
brainstem	1.16e-07	8
anatomical conduit	1.53e-07	241
multi-tissue structure	2.81e-07	347
epithelium	5.58e-07	309
organism subdivision	5.86e-07	365
gyrus	8.39e-07	6

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.