Coexpression cluster:C149

Full id: C149_occipital_medial_brain_amygdala_parietal_cerebral_cerebellum

Phase1 CAGE Peaks

Hg19::chr11:109295305..109295312,+	p13@C11orf87
Hg19::chr11:117708272..117708286,-	p@chr11:117708272..117708286 -
Hg19::chr11:117711055..117711088,-	p@chr11:117711055..117711088 -
Hg19::chr11:124616783..124616814,+	p@chr11:124616783..124616814 +
Hg19::chr11:124616829..124616838,+	p@chr11:124616829..124616838 +
Hg19::chr11:124616862..124616874,+	p@chr11:124616862..124616874 +
Hg19::chr11:124616993..124617007,+	p@chr11:124616993..124617007 +
Hg19::chr11:1579486..1579500,-	p@chr11:1579486..1579500 -
Hg19::chr11:35276496..35276513,-	p@chr11:35276496..35276513 -
Hg19::chr11:62475766..62475783,+	p2@GNG3
Hg19::chr11:62476322..62476329,+	p@chr11:62476322..62476329 +
Hg19::chr11:62476418..62476427,+	p@chr11:62476418..62476427 +
Hg19::chr11:788371..788384,-	p7@CEND1
Hg19::chr11:788579..788588,-	p10@CEND1
Hg19::chr12:50264369..50264380,-	p13@FAIM2
Hg19::chr12:50284493..50284508,-	p@chr12:50284493..50284508 -
Hg19::chr12:50291815..50291826,-	p@chr12:50291815..50291826 -
Hg19::chr12:57957251..57957258,+	p@chr12:57957251..57957258 +
Hg19::chr12:57974899..57974914,+	p12@KIF5A
Hg19::chr12:6804679..6804701,-	p@chr12:6804679..6804701 -
Hg19::chr12:99145213..99145224,-	p21@ANKS1B
Hg19::chr14:103986341..103986353,-	p@chr14:103986341..103986353 -
Hg19::chr14:60063355..60063387,-	p@chr14:60063355..60063387 -
Hg19::chr14:60063439..60063448,-	p@chr14:60063439..60063448 -
Hg19::chr14:60063478..60063487,-	p@chr14:60063478..60063487 -
Hg19::chr14:90873274..90873290,+	p43@CALM1
Hg19::chr15:43813238..43813252,+	p17@MAP1A
Hg19::chr15:43823079..43823119,+	p@chr15:43823079..43823119 +
Hg19::chr15:90809459..90809470,+	p16@NGRN
Hg19::chr16:19871596..19871607,-	p@chr16:19871596..19871607 -
Hg19::chr16:56388775..56388786,+	p@chr16:56388775..56388786 +
Hg19::chr16:743174..743190,-	p@chr16:743174..743190 -
Hg19::chr16:743985..744004,-	p@chr16:743985..744004 -
Hg19::chr16:747239..747260,-	p13@FBXL16
Hg19::chr16:7568245..7568260,+	p@chr16:7568245..7568260 +
Hg19::chr17:26369560..26369599,+	p5@NLK
Hg19::chr17:7560287..7560299,+	p13@ATP1B2
Hg19::chr17:77111716..77111739,-	p1@AB528944
Hg19::chr18:3814105..3814117,-	p@chr18:3814105..3814117 -
Hg19::chr19:18308079..18308090,-	p@chr19:18308079..18308090 -
Hg19::chr19:18731255..18731287,+	p@chr19:18731255..18731287 +
Hg19::chr19:36523273..36523285,-	p13@CLIP3
Hg19::chr19:42474687..42474704,-	p7@ATP1A3
Hg19::chr19:42485760..42485786,-	p@chr19:42485760..42485786 -
Hg19::chr19:47112153..47112167,+	p3@AK124456
Hg19::chr19:49933161..49933172,-	p@chr19:49933161..49933172 -
Hg19::chr19:55684730..55684739,-	p@chr19:55684730..55684739 -
Hg19::chr19:6494544..6494555,-	p@chr19:6494544..6494555 -
Hg19::chr1:155851785..155851821,+	p@chr1:155851785..155851821 +
Hg19::chr1:20810135..20810150,-	p12@CAMK2N1
Hg19::chr1:240370881..240370888,+	p@chr1:240370881..240370888 +
Hg19::chr1:26609014..26609025,-	p@chr1:26609014..26609025 -
Hg19::chr1:41107481..41107490,-	p5@RIMS3
Hg19::chr1:50661281..50661326,+	p@chr1:50661281..50661326 +
Hg19::chr1:77987565..77987576,+	p@chr1:77987565..77987576 +
Hg19::chr1:78024449..78024457,+	p@chr1:78024449..78024457 +
Hg19::chr20:10256108..10256138,+	p5@SNAP25
Hg19::chr20:10256139..10256151,+	p6@SNAP25
Hg19::chr20:10258344..10258353,+	p@chr20:10258344..10258353 +
Hg19::chr20:10277603..10277615,+	p@chr20:10277603..10277615 +
Hg19::chr20:23356084..23356097,-	p@chr20:23356084..23356097 -
Hg19::chr20:34820071..34820089,+	p@chr20:34820071..34820089 +
Hg19::chr20:36572681..36572688,+	p@chr20:36572681..36572688 +
Hg19::chr20:44038648..44038659,+	p@chr20:44038648..44038659 +
Hg19::chr21:27394184..27394203,-	p35@APP
Hg19::chr2:149679712..149679726,+	p@chr2:149679712..149679726 +
Hg19::chr2:149679731..149679740,+	p@chr2:149679731..149679740 +
Hg19::chr2:166246839..166246855,+	p6@SCN2A
Hg19::chr2:17836942..17836979,+	p@chr2:17836942..17836979 +
Hg19::chr2:210557572..210557587,+	p@chr2:210557572..210557587 +
Hg19::chr2:241724426..241724440,-	p@chr2:241724426..241724440 -
Hg19::chr2:26205144..26205178,-	p8@KIF3C
Hg19::chr2:44546521..44546539,-	p@chr2:44546521..44546539 -
Hg19::chr3:149684096..149684130,-	p@chr3:149684096..149684130 -
Hg19::chr3:49662624..49662643,+	p@chr3:49662624..49662643 +
Hg19::chr3:85008200..85008248,+	p2@CADM2
Hg19::chr4:176556169..176556177,-	p@chr4:176556169..176556177 -
Hg19::chr4:780193..780202,-	p@chr4:780193..780202 -
Hg19::chr4:786348..786365,-	p7@CPLX1
Hg19::chr5:149601723..149601751,-	p@chr5:149601723..149601751 -
Hg19::chr5:149601763..149601781,-	p@chr5:149601763..149601781 -
Hg19::chr5:149602244..149602265,-	p@chr5:149602244..149602265 -
Hg19::chr5:149644556..149644576,-	p@chr5:149644556..149644576 -
Hg19::chr5:175305938..175305959,+	p@chr5:175305938..175305959 +
Hg19::chr5:175307176..175307188,+	p@chr5:175307176..175307188 +
Hg19::chr5:176047349..176047358,-	p@chr5:176047349..176047358 -
Hg19::chr5:176047426..176047433,-	p@chr5:176047426..176047433 -
Hg19::chr5:176047734..176047748,-	p@chr5:176047734..176047748 -
Hg19::chr6:17463258..17463269,+	p@chr6:17463258..17463269 +
Hg19::chr6:31513145..31513194,-	p@chr6:31513145..31513194 -
Hg19::chr6:31513206..31513220,-	p@chr6:31513206..31513220 -
Hg19::chr6:31513929..31513944,-	p@chr6:31513929..31513944 -
Hg19::chr6:46191004..46191017,-	p@chr6:46191004..46191017 -
Hg19::chr6:5999372..5999383,-	p@chr6:5999372..5999383 -
Hg19::chr6:96463946..96463957,+	p4@FUT9
Hg19::chr7:104844144..104844161,-	p7@SRPK2
Hg19::chr7:54617830..54617836,+	p@chr7:54617830..54617836 +
Hg19::chr7:75959123..75959144,-	p@chr7:75959123..75959144 -
Hg19::chr7:98445661..98445681,-	p11@TMEM130
Hg19::chr7:98452904..98452938,-	p@chr7:98452904..98452938 -
Hg19::chr7:98457898..98457907,-	p@chr7:98457898..98457907 -
Hg19::chr7:98457936..98457953,-	p@chr7:98457936..98457953 -
Hg19::chr8:107531209..107531222,+	p@chr8:107531209..107531222 +
Hg19::chr8:24810399..24810424,-	p@chr8:24810399..24810424 -
Hg19::chr8:24811752..24811777,-	p@chr8:24811752..24811777 -
Hg19::chr9:130454420..130454442,+	p@chr9:130454420..130454442 +
Hg19::chr9:137982097..137982113,+	p@chr9:137982097..137982113 +
Hg19::chr9:138011822..138011833,+	p17@OLFM1
Hg19::chr9:35748867..35748868,-	p13@GBA2
Hg19::chr9:93375167..93375214,-	p6@DIRAS2
Hg19::chr9:99220754..99220765,+	p6@HABP4
Hg19::chrX:38525424..38525435,+	p8@TSPAN7
Hg19::chrX:38547270..38547317,+	p@chrX:38547270..38547317 +
Hg19::chrX:48689784..48689807,-	p@chrX:48689784..48689807 -

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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p.value	FDR	nGenes	nPathway	Name
0.00026644132796545	0.033731472120426	2	23	Proximal tubule bicarbonate reclamation (KEGG):04964
0.000111903295006833	0.0177086964348314	3	89	Salivary secretion (KEGG):04970
6.45586159951881e-05	0.0136218679749847	3	74	Gastric acid secretion (KEGG):04971
4.34530766860615e-07	0.000275057975422769	7	466	Hemostasis (Reactome):REACT_604
5.23845554546341e-05	0.0136218679749847	4	197	Synaptic Transmission (Reactome):REACT_13685

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:0006836	neurotransmitter transport	0.00897919041513745
GO:0031402	sodium ion binding	0.00897919041513745
GO:0005391	sodium:potassium-exchanging ATPase activity	0.00897919041513745
GO:0006887	exocytosis	0.00897919041513745
GO:0005871	kinesin complex	0.0173895998883744
GO:0044459	plasma membrane part	0.0184246069135385
GO:0006814	sodium ion transport	0.018569695369367
GO:0005875	microtubule associated complex	0.018569695369367
GO:0005886	plasma membrane	0.018569695369367
GO:0031420	alkali metal ion binding	0.0217426956653378
GO:0044425	membrane part	0.0217426956653378
GO:0016142	O-glycoside catabolic process	0.0217426956653378
GO:0033130	acetylcholine receptor binding	0.0217426956653378
GO:0016140	O-glycoside metabolic process	0.0217426956653378
GO:0045045	secretory pathway	0.0229413380745906
GO:0016020	membrane	0.0231312271272513
GO:0016192	vesicle-mediated transport	0.0266852479449219
GO:0007268	synaptic transmission	0.0266852479449219
GO:0051649	establishment of cellular localization	0.0266852479449219
GO:0016137	glycoside metabolic process	0.0266852479449219
GO:0016139	glycoside catabolic process	0.0266852479449219
GO:0035235	ionotropic glutamate receptor signaling pathway	0.0266852479449219
GO:0032940	secretion by cell	0.0266852479449219
GO:0005874	microtubule	0.0266852479449219
GO:0051641	cellular localization	0.026699697161869
GO:0005794	Golgi apparatus	0.0294353054527756
GO:0019226	transmission of nerve impulse	0.0294353054527756
GO:0005737	cytoplasm	0.0294353054527756
GO:0035253	ciliary rootlet	0.0294353054527756
GO:0016081	synaptic vesicle docking during exocytosis	0.0294353054527756
GO:0008422	beta-glucosidase activity	0.0294353054527756
GO:0006810	transport	0.0351884991944362
GO:0007243	protein kinase cascade	0.0374902103733455
GO:0046903	secretion	0.0380766997085923
GO:0051234	establishment of localization	0.0380766997085923
GO:0044464	cell part	0.0403543762700639
GO:0004348	glucosylceramidase activity	0.0410719101615185
GO:0030054	cell junction	0.0467409041374484
GO:0046920	alpha(1,3)-fucosyltransferase activity	0.0467409041374484
GO:0000287	magnesium ion binding	0.0476209460943883
GO:0044441	cilium part	0.0476209460943883
GO:0008542	visual learning	0.0476209460943883
GO:0003777	microtubule motor activity	0.0476209460943883
GO:0030955	potassium ion binding	0.0476209460943883
GO:0015662	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	0.0476209460943883
GO:0051179	localization	0.0476209460943883
GO:0016079	synaptic vesicle exocytosis	0.0476209460943883
GO:0001504	neurotransmitter uptake	0.0476209460943883
GO:0050796	regulation of insulin secretion	0.0476209460943883
GO:0006878	cellular copper ion homeostasis	0.0476209460943883
GO:0005890	sodium:potassium-exchanging ATPase complex	0.0476209460943883

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
neural tube	4.56e-112	56
neural rod	4.56e-112	56
future spinal cord	4.56e-112	56
neural keel	4.56e-112	56
regional part of nervous system	2.46e-106	53
regional part of brain	2.46e-106	53
telencephalon	8.20e-96	34
brain grey matter	1.14e-95	34
gray matter	1.14e-95	34
cerebral hemisphere	5.57e-95	32
regional part of cerebral cortex	2.09e-92	22
regional part of forebrain	8.95e-91	41
forebrain	8.95e-91	41
anterior neural tube	8.95e-91	41
future forebrain	8.95e-91	41
brain	2.73e-90	68
future brain	2.73e-90	68
central nervous system	5.12e-88	81
regional part of telencephalon	7.14e-88	32
neocortex	1.41e-83	20
cerebral cortex	3.94e-81	25
pallium	3.94e-81	25
nervous system	1.28e-78	89
neural plate	1.69e-74	82
presumptive neural plate	1.69e-74	82
neurectoderm	1.04e-70	86
pre-chordal neural plate	2.81e-59	61
ecto-epithelium	3.14e-57	104
adult organism	2.13e-49	114
structure with developmental contribution from neural crest	3.30e-46	132
ectoderm-derived structure	1.01e-37	171
ectoderm	1.01e-37	171
presumptive ectoderm	1.01e-37	171
organ system subdivision	1.89e-30	223
gyrus	1.38e-27	6
tube	1.80e-27	192
temporal lobe	1.35e-23	6
occipital lobe	2.70e-23	5
parietal lobe	3.72e-23	5
limbic system	4.68e-23	5
posterior neural tube	1.05e-21	15
chordal neural plate	1.05e-21	15
anatomical conduit	2.21e-20	240
brainstem	2.02e-17	6
basal ganglion	2.48e-17	9
nuclear complex of neuraxis	2.48e-17	9
aggregate regional part of brain	2.48e-17	9
collection of basal ganglia	2.48e-17	9
cerebral subcortex	2.48e-17	9
neural nucleus	1.18e-16	9
nucleus of brain	1.18e-16	9
segmental subdivision of hindbrain	1.36e-16	12
hindbrain	1.36e-16	12
presumptive hindbrain	1.36e-16	12
organ part	2.22e-16	218
segmental subdivision of nervous system	2.99e-15	13
anatomical cluster	5.91e-15	373
frontal cortex	1.72e-14	3
epithelium	3.05e-14	306
cell layer	5.03e-14	309
pons	2.30e-13	3
multi-tissue structure	6.85e-12	342
regional part of metencephalon	7.51e-12	9
metencephalon	7.51e-12	9
future metencephalon	7.51e-12	9
middle temporal gyrus	1.60e-10	2
amygdala	1.68e-10	2
middle frontal gyrus	2.12e-10	2
corpus striatum	2.16e-10	4
striatum	2.16e-10	4
ventral part of telencephalon	2.16e-10	4
future corpus striatum	2.16e-10	4
Ammon's horn	2.32e-10	2
lobe parts of cerebral cortex	2.32e-10	2
hippocampal formation	2.32e-10	2
limbic lobe	2.32e-10	2
telencephalic nucleus	4.36e-10	7
locus ceruleus	1.94e-09	2
brainstem nucleus	1.94e-09	2
hindbrain nucleus	1.94e-09	2
organ	4.30e-08	503
germ layer	4.71e-07	560
germ layer / neural crest	4.71e-07	560
embryonic tissue	4.71e-07	560
presumptive structure	4.71e-07	560
germ layer / neural crest derived structure	4.71e-07	560
epiblast (generic)	4.71e-07	560
embryonic structure	6.11e-07	564
spinal cord	7.60e-07	3
dorsal region element	7.60e-07	3
dorsum	7.60e-07	3
caudate-putamen	9.35e-07	3
dorsal striatum	9.35e-07	3

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)
MA0003.1	0.000327514
MA0004.1	0.0249869
MA0006.1	0.0318687
MA0007.1	0.11131
MA0009.1	0.262535
MA0014.1	0.00770461
MA0017.1	0.29019
MA0019.1	0.638291
MA0024.1	0.0423208
MA0025.1	0.419231
MA0027.1	1.38672
MA0028.1	0.00691171
MA0029.1	0.0476412
MA0030.1	0.684347
MA0031.1	0.119734
MA0038.1	0.0246698
MA0040.1	0.185063
MA0041.1	0.160263
MA0042.1	0.342304
MA0043.1	0.0759646
MA0046.1	0.251177
MA0048.1	0.0221717
MA0050.1	0.213935
MA0051.1	0.0729745
MA0052.1	0.188518
MA0055.1	0.266805
MA0056.1	0
MA0057.1	1.75598
MA0058.1	0.0173673
MA0059.1	0.246164
MA0060.1	0.000444443
MA0061.1	0.818896
MA0063.1	0
MA0066.1	0.169271
MA0067.1	0.242109
MA0068.1	1.51014
MA0069.1	0.902654
MA0070.1	0.235864
MA0071.1	0.233944
MA0072.1	0.231376
MA0073.1	1.77967
MA0074.1	0.298588
MA0076.1	0.0533899
MA0077.1	0.0623143
MA0078.1	0.157627
MA0081.1	0.152582
MA0083.1	0.270505
MA0084.1	0.375921
MA0087.1	0.228951
MA0088.1	0.087507
MA0089.1	0
MA0090.1	1.70368
MA0091.1	0.244301
MA0092.1	0.431225
MA0093.1	0.00518638
MA0095.1	0
MA0098.1	0
MA0100.1	0.0856023
MA0101.1	0.419607
MA0103.1	1.2507
MA0105.1	1.62451
MA0106.1	0.399943
MA0107.1	0.237075
MA0108.2	0.0282636
MA0109.1	0
MA0111.1	0.968397
MA0113.1	0.680075
MA0114.1	0.69755
MA0115.1	0.565982
MA0116.1	1.14438
MA0117.1	0.0906476
MA0119.1	0.0683278
MA0122.1	0.333238
MA0124.1	0.170074
MA0125.1	0.396467
MA0130.1	0
MA0131.1	0.177204
MA0132.1	0
MA0133.1	0
MA0135.1	0.0876866
MA0136.1	0.0806983
MA0139.1	0.136671
MA0140.1	0.229198
MA0141.1	0.691697
MA0142.1	0.459423
MA0143.1	0.121515
MA0144.1	0.174622
MA0145.1	0.0237877
MA0146.1	0.064469
MA0147.1	0.0392101
MA0148.1	0.29296
MA0149.1	0.0136783
MA0062.2	0.00288726
MA0035.2	0.050504
MA0039.2	0.110662
MA0138.2	0.0593553
MA0002.2	0.323846
MA0137.2	0.354105
MA0104.2	0.00883115
MA0047.2	0.208801
MA0112.2	1.21901
MA0065.2	1.7924
MA0150.1	0.202225
MA0151.1	0
MA0152.1	0.399298
MA0153.1	0.375488
MA0154.1	0.807806
MA0155.1	1.07795
MA0156.1	0.0221579
MA0157.1	0.0182125
MA0158.1	0
MA0159.1	0.490096
MA0160.1	0.328823
MA0161.1	0
MA0162.1	3.60806e-05
MA0163.1	0.269883
MA0164.1	0.132852
MA0080.2	0.0668917
MA0018.2	0.229007
MA0099.2	0.127336
MA0079.2	0.942882
MA0102.2	0.404812
MA0258.1	0.300436
MA0259.1	0.0236506
MA0442.1	0

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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