MCL coexpression mm9:1379

Phase1 CAGE Peaks

	Short description
Mm9::chr16:3884740..3884761,+	p5@Nat15
Mm9::chr2:178149217..178149296,+	p1@9030418K01Rik
Mm9::chr6:51473923..51473940,+	p4@Snx10
Mm9::chr6:51473944..51473975,+	p1@Snx10
Mm9::chr6:51473978..51473996,+	p3@Snx10
Mm9::chr9:74919334..74919376,+	p1@Myo5a

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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GO ID	GO name	FDR corrected p-value
GO:0042641	actomyosin	0.00639146828849399
GO:0031585	regulation of inositol-1,4,5-triphosphate receptor activity	0.00639146828849399
GO:0032252	secretory granule localization	0.00639146828849399
GO:0030050	vesicle transport along actin filament	0.00639146828849399
GO:0031987	locomotion during locomotory behavior	0.00639146828849399
GO:0051643	ER localization	0.00639146828849399
GO:0032402	melanosome transport	0.00684743893447205
GO:0051904	pigment granule transport	0.00684743893447205
GO:0032401	establishment of melanosome localization	0.00684743893447205
GO:0042759	long-chain fatty acid biosynthetic process	0.00684743893447205
GO:0051010	microtubule plus-end binding	0.00684743893447205
GO:0051905	establishment of pigment granule localization	0.00684743893447205
GO:0000146	microfilament motor activity	0.00684743893447205
GO:0032400	melanosome localization	0.00684743893447205
GO:0051875	pigment granule localization	0.00766892149341399
GO:0033059	cellular pigmentation	0.00912866790551806
GO:0042640	anagen	0.00912866790551806
GO:0042438	melanin biosynthetic process	0.00912866790551806
GO:0048770	pigment granule	0.00912866790551806
GO:0006582	melanin metabolic process	0.00912866790551806
GO:0042470	melanosome	0.00912866790551806
GO:0051650	establishment of vesicle localization	0.0095848386593006
GO:0051648	vesicle localization	0.0100012967142336
GO:0048820	hair follicle maturation	0.0103830061576734
GO:0001676	long-chain fatty acid metabolic process	0.0106486534370301
GO:0030048	actin filament-based movement	0.0106486534370301
GO:0001750	photoreceptor outer segment	0.0106486534370301
GO:0030318	melanocyte differentiation	0.0108610311850524
GO:0050931	pigment cell differentiation	0.0108610311850524
GO:0031513	nonmotile primary cilium	0.0108610311850524
GO:0051656	establishment of organelle localization	0.0129823520730131
GO:0030073	insulin secretion	0.0137736750069838
GO:0046148	pigment biosynthetic process	0.0138911611130087
GO:0042552	myelination	0.0138911611130087
GO:0051640	organelle localization	0.0138911611130087
GO:0030072	peptide hormone secretion	0.0138911611130087
GO:0007272	ensheathment of neurons	0.0138911611130087
GO:0002790	peptide secretion	0.0138911611130087
GO:0048066	pigmentation during development	0.0138911611130087
GO:0008366	axon ensheathment	0.0138911611130087
GO:0042440	pigment metabolic process	0.0144862029615817
GO:0050885	neuromuscular process controlling balance	0.0145970639054319
GO:0001508	regulation of action potential	0.0155391195341524
GO:0042476	odontogenesis	0.0155391195341524
GO:0030141	secretory granule	0.0155391195341524
GO:0015833	peptide transport	0.0155391195341524
GO:0022404	molting cycle process	0.0155391195341524
GO:0001942	hair follicle development	0.0155391195341524
GO:0022405	hair cycle process	0.0155391195341524
GO:0046879	hormone secretion	0.0155391195341524
GO:0019748	secondary metabolic process	0.0155391195341524
GO:0042633	hair cycle	0.0155391195341524
GO:0042303	molting cycle	0.0155391195341524
GO:0050808	synapse organization and biogenesis	0.0156056127985497
GO:0008017	microtubule binding	0.0160174445644905
GO:0050905	neuromuscular process	0.0160729652707262
GO:0048589	developmental growth	0.0161265194510242
GO:0015631	tubulin binding	0.0181562253050883
GO:0016459	myosin complex	0.01818823858615
GO:0043025	cell soma	0.01818823858615
GO:0005929	cilium	0.0210229101406554
GO:0006633	fatty acid biosynthetic process	0.0213000895559757
GO:0046394	carboxylic acid biosynthetic process	0.02182826583531
GO:0016053	organic acid biosynthetic process	0.02182826583531
GO:0006887	exocytosis	0.0250172083399141
GO:0003001	generation of a signal involved in cell-cell signaling	0.0252164962971195
GO:0021700	developmental maturation	0.0259793518783454
GO:0008544	epidermis development	0.0270000399031442
GO:0030705	cytoskeleton-dependent intracellular transport	0.0270460255594416
GO:0043062	extracellular structure organization and biogenesis	0.0270460255594416
GO:0007398	ectoderm development	0.0272022899553399
GO:0005516	calmodulin binding	0.028413330086811
GO:0007601	visual perception	0.0286757235298887
GO:0050953	sensory perception of light stimulus	0.0286757235298887
GO:0005882	intermediate filament	0.0300718626747224
GO:0045111	intermediate filament cytoskeleton	0.0304281505131191
GO:0006810	transport	0.0347970781176703
GO:0051234	establishment of localization	0.0362315960432765
GO:0006631	fatty acid metabolic process	0.0386661471464807
GO:0035091	phosphoinositide binding	0.0388845594676022
GO:0030029	actin filament-based process	0.0388845594676022
GO:0045045	secretory pathway	0.040727047671163
GO:0016023	cytoplasmic membrane-bound vesicle	0.0421438815831945
GO:0051179	localization	0.0421438815831945
GO:0015629	actin cytoskeleton	0.0421438815831945
GO:0007268	synaptic transmission	0.0421438815831945
GO:0031988	membrane-bound vesicle	0.0425318253242861
GO:0005543	phospholipid binding	0.043280992698455
GO:0007626	locomotory behavior	0.043280992698455
GO:0032940	secretion by cell	0.0436428101117104
GO:0032787	monocarboxylic acid metabolic process	0.0446213235502635
GO:0019226	transmission of nerve impulse	0.046607445879055
GO:0008610	lipid biosynthetic process	0.0483457131246586
GO:0003779	actin binding	0.0490393355486805

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

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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
electrically responsive cell	7.79e-11	39
electrically active cell	7.79e-11	39
neuron	9.41e-11	33
neuronal stem cell	9.41e-11	33
neuroblast	9.41e-11	33
electrically signaling cell	9.41e-11	33
CNS neuron (sensu Vertebrata)	1.48e-08	23
neuroblast (sensu Vertebrata)	1.48e-08	23
non-terminally differentiated cell	9.74e-08	49
neural cell	2.35e-07	43
ectodermal cell	3.59e-07	44
neurectodermal cell	3.59e-07	44

Uber Anatomy

Ontology term	p-value	n
nervous system	6.65e-19	75
central nervous system	8.94e-19	73
ectoderm-derived structure	1.15e-16	95
ectoderm	1.15e-16	95
presumptive ectoderm	1.15e-16	95
neurectoderm	1.59e-16	64
neural plate	1.59e-16	64
presumptive neural plate	1.59e-16	64
structure with developmental contribution from neural crest	1.86e-15	92
regional part of nervous system	2.23e-15	54
neural tube	3.27e-14	52
neural rod	3.27e-14	52
future spinal cord	3.27e-14	52
neural keel	3.27e-14	52
gray matter	1.73e-13	34
ecto-epithelium	8.78e-13	73
pre-chordal neural plate	2.29e-12	49
brain	4.46e-12	47
future brain	4.46e-12	47
regional part of brain	1.35e-11	46
brain grey matter	2.28e-11	29
regional part of telencephalon	2.28e-11	29
telencephalon	2.28e-11	29
anterior neural tube	3.93e-11	40
regional part of forebrain	1.27e-10	39
forebrain	1.27e-10	39
future forebrain	1.27e-10	39
cerebral cortex	7.49e-08	21
cerebral hemisphere	7.49e-08	21
pallium	7.49e-08	21
occipital lobe	1.45e-07	10
visual cortex	1.45e-07	10
neocortex	1.45e-07	10
regional part of cerebral cortex	4.04e-07	17

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

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
MA0003.1	6.22897
MA0004.1	0.536396
MA0006.1	1.68531
MA0007.1	1.29371
MA0009.1	0.987341
MA0014.1	3.9794
MA0017.1	0.387481
MA0019.1	0.800946
MA0024.1	0.942716
MA0025.1	1.22395
MA0027.1	2.64231
MA0028.1	0.370592
MA0029.1	0.920529
MA0030.1	0.927235
MA0031.1	0.890871
MA0038.1	0.686534
MA0040.1	1.00009
MA0041.1	0.457338
MA0042.1	1.12834
MA0043.1	1.08567
MA0046.1	1.02391
MA0048.1	0.486223
MA0050.1	0.57678
MA0051.1	0.695779
MA0052.1	1.00829
MA0055.1	0.0585191
MA0056.1	0
MA0057.1	0.149949
MA0058.1	0.436487
MA0059.1	0.449345
MA0060.1	0.275911
MA0061.1	0.307097
MA0063.1	0
MA0066.1	0.675169
MA0067.1	1.33603
MA0068.1	0.153907
MA0069.1	1.00864
MA0070.1	0.998765
MA0071.1	0.575909
MA0072.1	0.990133
MA0073.1	13.2193
MA0074.1	0.638014
MA0076.1	0.407465
MA0077.1	0.968053
MA0078.1	0.729877
MA0081.1	0.473489
MA0083.1	1.08487
MA0084.1	1.66561
MA0087.1	1.04109
MA0088.1	1.74419
MA0089.1	0
MA0090.1	0.500693
MA0091.1	0.55008
MA0092.1	0.501022
MA0093.1	0.379257
MA0095.1	0
MA0098.1	0
MA0100.1	0.626021
MA0101.1	1.16089
MA0103.1	0.398766
MA0105.1	0.199622
MA0106.1	0.737893
MA0107.1	0.392331
MA0108.2	0.824407
MA0109.1	0
MA0111.1	0.515457
MA0113.1	0.708789
MA0114.1	0.304661
MA0115.1	1.08851
MA0116.1	0.359483
MA0117.1	1.05576
MA0119.1	0.459301
MA0122.1	1.07591
MA0124.1	1.28237
MA0125.1	1.20757
MA0130.1	0
MA0131.1	0.796279
MA0132.1	0
MA0133.1	0
MA0135.1	1.1226
MA0136.1	0.658622
MA0139.1	0.682297
MA0140.1	0.625902
MA0141.1	0.419361
MA0142.1	0.876028
MA0143.1	0.725672
MA0144.1	0.829535
MA0145.1	0.379391
MA0146.1	3.00399
MA0147.1	1.54778
MA0148.1	0.553294
MA0149.1	0.464445
MA0062.2	0.591842
MA0035.2	0.630778
MA0039.2	4.12392
MA0138.2	0.788113
MA0002.2	0.246463
MA0137.2	0.416331
MA0104.2	1.33199
MA0047.2	0.685741
MA0112.2	0.119197
MA0065.2	0.119561
MA0150.1	0.520653
MA0151.1	0
MA0152.1	0.685852
MA0153.1	1.13945
MA0154.1	0.159217
MA0155.1	0.132921
MA0156.1	0.406559
MA0157.1	0.843181
MA0158.1	0
MA0159.1	0.331229
MA0160.1	1.36931
MA0161.1	0
MA0162.1	1.08528
MA0163.1	1.95647
MA0164.1	0.658997
MA0080.2	0.393257
MA0018.2	0.669032
MA0099.2	1.83891
MA0079.2	4.55588
MA0102.2	1.7182
MA0258.1	0.290587
MA0259.1	0.833237
MA0442.1	0