MCL coexpression mm9:503

Phase1 CAGE Peaks

	Short description
Mm9::chr10:114622071..114622085,-	p1@Tph2
Mm9::chr13:73674229..73674258,+	p1@Slc6a3
Mm9::chr19:40804786..40804795,-	p@chr19:40804786..40804795 -
Mm9::chr1:183734229..183734244,+	p@chr1:183734229..183734244 +
Mm9::chr2:144300607..144300618,-	p@chr2:144300607..144300618 -
Mm9::chr7:126874249..126874254,+	p@chr7:126874249..126874254 +
Mm9::chr7:134085595..134085606,+	p6@Kctd13
Mm9::chr7:142460262..142460264,+	p1@Nps
Mm9::chr8:74243126..74243137,-	p@chr8:74243126..74243137 -
Mm9::chr9:120088834..120088845,+	p@chr9:120088834..120088845 +
Mm9::chr9:120088982..120088991,+	p@chr9:120088982..120088991 +
Mm9::chr9:120089021..120089032,+	p@chr9:120089021..120089032 +
Mm9::chr9:44961019..44961022,+	p@chr9:44961019..44961022 +
Mm9::chr9:46721556..46721563,+	p5@2900052N01Rik

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

---

GO ID	GO name	FDR corrected p-value
GO:0042136	neurotransmitter biosynthetic process	0.000245733661229158
GO:0042401	biogenic amine biosynthetic process	0.000396736791075821
GO:0042398	amino acid derivative biosynthetic process	0.000396736791075821
GO:0042133	neurotransmitter metabolic process	0.000524086817436587
GO:0009309	amine biosynthetic process	0.00107626548464798
GO:0006576	biogenic amine metabolic process	0.00127972276824526
GO:0044271	nitrogen compound biosynthetic process	0.00127972276824526
GO:0006575	amino acid derivative metabolic process	0.00133631109211284
GO:0001505	regulation of neurotransmitter levels	0.00133631109211284
GO:0006725	aromatic compound metabolic process	0.00198630802753521
GO:0005329	dopamine transmembrane transporter activity	0.00261476320206392
GO:0007268	synaptic transmission	0.00383477591649904
GO:0004510	tryptophan 5-monooxygenase activity	0.00383477591649904
GO:0006587	serotonin biosynthetic process from tryptophan	0.00383477591649904
GO:0042427	serotonin biosynthetic process	0.00383477591649904
GO:0019226	transmission of nerve impulse	0.00454093319721234
GO:0042435	indole derivative biosynthetic process	0.00454093319721234
GO:0046219	indolalkylamine biosynthetic process	0.00454093319721234
GO:0015844	monoamine transport	0.00454093319721234
GO:0042424	catecholamine catabolic process	0.0050013335388711
GO:0008504	monoamine transmembrane transporter activity	0.0050013335388711
GO:0042420	dopamine catabolic process	0.0050013335388711
GO:0042416	dopamine biosynthetic process	0.0050013335388711
GO:0006519	amino acid and derivative metabolic process	0.00514984371433935
GO:0060134	prepulse inhibition	0.00522809391882235
GO:0042428	serotonin metabolic process	0.00522809391882235
GO:0015872	dopamine transport	0.00522809391882235
GO:0007267	cell-cell signaling	0.00522809391882235
GO:0009308	amine metabolic process	0.00522809391882235
GO:0042069	regulation of catecholamine metabolic process	0.00522809391882235
GO:0042053	regulation of dopamine metabolic process	0.00522809391882235
GO:0021984	adenohypophysis development	0.00522809391882235
GO:0016714	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen	0.00522809391882235
GO:0006807	nitrogen compound metabolic process	0.00559084963740589
GO:0048585	negative regulation of response to stimulus	0.00559084963740589
GO:0032102	negative regulation of response to external stimulus	0.00559084963740589
GO:0016597	amino acid binding	0.00605291905027066
GO:0006568	tryptophan metabolic process	0.00605291905027066
GO:0032101	regulation of response to external stimulus	0.00663456693294463
GO:0042135	neurotransmitter catabolic process	0.0070117596717797
GO:0042423	catecholamine biosynthetic process	0.0070117596717797
GO:0006586	indolalkylamine metabolic process	0.00714522281916839
GO:0042434	indole derivative metabolic process	0.00714522281916839
GO:0042430	indole and derivative metabolic process	0.00714522281916839
GO:0008324	cation transmembrane transporter activity	0.00714522281916839
GO:0001964	startle response	0.00749871236088418
GO:0042402	biogenic amine catabolic process	0.00838305815551868
GO:0015238	drug transporter activity	0.00838305815551868
GO:0043176	amine binding	0.00862210157262331
GO:0007595	lactation	0.00862210157262331
GO:0042219	amino acid derivative catabolic process	0.00901608267680635
GO:0021983	pituitary gland development	0.00975926500261984
GO:0005328	neurotransmitter:sodium symporter activity	0.00975926500261984
GO:0021536	diencephalon development	0.0102615942627065
GO:0042417	dopamine metabolic process	0.0102615942627065
GO:0005326	neurotransmitter transporter activity	0.0102615942627065
GO:0015075	ion transmembrane transporter activity	0.0103706484546386
GO:0040018	positive regulation of multicellular organism growth	0.0108973261830475
GO:0009072	aromatic amino acid family metabolic process	0.012171436752033
GO:0045927	positive regulation of growth	0.0124466403825088
GO:0022891	substrate-specific transmembrane transporter activity	0.0128093772529445
GO:0018958	phenol metabolic process	0.0132195317952135
GO:0006584	catecholamine metabolic process	0.0132195317952135
GO:0005275	amine transmembrane transporter activity	0.0152524120061469
GO:0005887	integral to plasma membrane	0.0153533224358322
GO:0031226	intrinsic to plasma membrane	0.0153533224358322
GO:0042446	hormone biosynthetic process	0.0153533224358322
GO:0022857	transmembrane transporter activity	0.0153533224358322
GO:0044249	cellular biosynthetic process	0.0156394999726839
GO:0015370	solute:sodium symporter activity	0.0164005598667272
GO:0022892	substrate-specific transporter activity	0.0175356412586621
GO:0048583	regulation of response to stimulus	0.0175356412586621
GO:0050905	neuromuscular process	0.0183605712295719
GO:0006836	neurotransmitter transport	0.0183605712295719
GO:0035270	endocrine system development	0.0183605712295719
GO:0015294	solute:cation symporter activity	0.019369730084487
GO:0040014	regulation of multicellular organism growth	0.019369730084487
GO:0015837	amine transport	0.0194880506720306
GO:0008076	voltage-gated potassium channel complex	0.0196033360204182
GO:0044270	nitrogen compound catabolic process	0.0198252506733136
GO:0009310	amine catabolic process	0.0198252506733136
GO:0035264	multicellular organism growth	0.0213261550776926
GO:0046483	heterocycle metabolic process	0.022789946925116
GO:0009058	biosynthetic process	0.0232665618871751
GO:0048609	reproductive process in a multicellular organism	0.0236547437368107
GO:0032504	multicellular organism reproduction	0.0236547437368107
GO:0048732	gland development	0.0243668471794751
GO:0042445	hormone metabolic process	0.0263586050610545
GO:0005249	voltage-gated potassium channel activity	0.0267030274387872
GO:0030900	forebrain development	0.0317851837882304
GO:0044459	plasma membrane part	0.0349696633938186
GO:0022843	voltage-gated cation channel activity	0.0360376064106183
GO:0005267	potassium channel activity	0.0374817260078045
GO:0004497	monooxygenase activity	0.0375887222634755
GO:0016705	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	0.0375887222634755
GO:0015293	symporter activity	0.0395604078330576
GO:0040008	regulation of growth	0.0431677574714076
GO:0050877	neurological system process	0.0431677574714076
GO:0006813	potassium ion transport	0.0440818140889795
GO:0022832	voltage-gated channel activity	0.0471263956989121
GO:0005244	voltage-gated ion channel activity	0.0471263956989121
GO:0042802	identical protein binding	0.0478395716640774
GO:0003008	system process	0.0478395716640774
GO:0015291	secondary active transmembrane transporter activity	0.0482096120638034
GO:0007420	brain development	0.0495169241756483
GO:0005886	plasma membrane	0.0495169241756483

Relative expression of the co-expression cluster over median <br>Analyst:

---

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>

---

Cell Type

Ontology term	p-value	n
raphe nuclei neuron	4.53e-15	3
neuron of the substantia nigra	6.22e-15	3
CNS neuron (sensu Vertebrata)	2.81e-09	23
neuroblast (sensu Vertebrata)	2.81e-09	23

Uber Anatomy

Ontology term	p-value	n
regional part of midbrain	3.62e-19	4
midbrain	3.62e-19	4
presumptive midbrain	3.62e-19	4
midbrain neural tube	3.62e-19	4
regional part of nervous system	1.45e-16	54
raphe nuclei	4.53e-15	3
reticular formation	4.53e-15	3
substantia nigra	6.22e-15	3
telencephalic nucleus	6.22e-15	3
midbrain nucleus	6.22e-15	3
neural nucleus	6.22e-15	3
nucleus of brain	6.22e-15	3
central nervous system	2.07e-13	73
nervous system	5.54e-13	75
neural tube	1.86e-12	52
neural rod	1.86e-12	52
future spinal cord	1.86e-12	52
neural keel	1.86e-12	52
regional part of brain	3.86e-10	46
medulla oblongata	4.20e-10	2
brainstem	4.20e-10	2
myelencephalon	4.20e-10	2
future myelencephalon	4.20e-10	2
brain	6.91e-10	47
future brain	6.91e-10	47
neurectoderm	1.01e-09	64
neural plate	1.01e-09	64
presumptive neural plate	1.01e-09	64
ectoderm-derived structure	1.08e-09	95
ectoderm	1.08e-09	95
presumptive ectoderm	1.08e-09	95
basal ganglion	1.65e-09	8
nuclear complex of neuraxis	1.65e-09	8
aggregate regional part of brain	1.65e-09	8
collection of basal ganglia	1.65e-09	8
cerebral subcortex	1.65e-09	8
posterior neural tube	5.09e-09	12
chordal neural plate	5.09e-09	12
ecto-epithelium	2.95e-08	73
segmental subdivision of hindbrain	3.39e-07	6
segmental subdivision of nervous system	3.39e-07	6
hindbrain	3.39e-07	6
presumptive hindbrain	3.39e-07	6

TFBS overrepresentation<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}}}