Coexpression cluster:C111

Full id: C111_medulla_lung_trachea_testis_caudate_epididymis_throat

Phase1 CAGE Peaks

Hg19::chr10:104679225..104679235,+	p8@CNNM2
Hg19::chr10:105992059..105992138,-	p1@WDR96
Hg19::chr10:127585118..127585175,+	p1@FANK1
Hg19::chr10:134756030..134756103,-	p1@TTC40
Hg19::chr10:23216944..23217002,+	p1@ARMC3
Hg19::chr10:49482711..49482753,-	p1@FRMPD2
Hg19::chr10:82116531..82116550,+	p1@DYDC2
Hg19::chr11:3026677..3026691,-	p@chr11:3026677..3026691 -
Hg19::chr11:31391276..31391292,-	p1@DCDC1
Hg19::chr11:71791849..71791904,+	p1@LRTOMT
Hg19::chr11:86085923..86085934,+	p3@CCDC81
Hg19::chr11:86085937..86085948,+	p6@CCDC81
Hg19::chr11:94245596..94245613,+	p2@LOC643037
Hg19::chr11:94245617..94245660,+	p1@LOC643037
Hg19::chr12:113587513..113587556,+	p1@CCDC42B
Hg19::chr12:113587558..113587572,+	p2@CCDC42B
Hg19::chr12:113658826..113658870,-	p2@IQCD
Hg19::chr12:119772487..119772496,+	p3@CCDC60
Hg19::chr12:119772502..119772522,+	p2@CCDC60
Hg19::chr12:119772527..119772541,+	p1@CCDC60
Hg19::chr12:25801481..25801520,-	p1@IFLTD1
Hg19::chr12:7014126..7014191,+	p3@LRRC23
Hg19::chr12:75723814..75723850,-	p4@CAPS2
Hg19::chr12:85430110..85430161,+	p1@LRRIQ1
Hg19::chr12:96883347..96883400,+	p1@C12orf63
Hg19::chr13:103046837..103046881,-	p3@FGF14-IT1
Hg19::chr13:114944748..114944765,+	p@chr13:114944748..114944765 +
Hg19::chr13:31506775..31506817,+	p2@C13orf26
Hg19::chr13:43355683..43355705,+	p3@C13orf30
Hg19::chr13:52703187..52703214,-	p1@NEK5
Hg19::chr14:60386853..60386872,+	p@chr14:60386853..60386872 +
Hg19::chr14:89816607..89816659,+	p1@ENST00000555407 p1@ENST00000556942
Hg19::chr15:74610894..74610905,+	p1@CCDC33
Hg19::chr15:81426596..81426639,+	p2@C15orf26
Hg19::chr15:81426643..81426656,+	p5@C15orf26
Hg19::chr15:82555125..82555168,+	p1@FAM154B
Hg19::chr16:22103828..22103869,+	p1@VWA3A
Hg19::chr16:53078146..53078165,-	p@chr16:53078146..53078165 -
Hg19::chr16:71264580..71264638,-	p1@HYDIN
Hg19::chr16:84178874..84178931,+	p1@DNAAF1
Hg19::chr16:89752965..89753012,-	p1@BC031657 p2@AK090745
Hg19::chr17:11501773..11501806,+	p1@DNAH9
Hg19::chr17:11501822..11501834,+	p2@DNAH9
Hg19::chr17:17876159..17876272,+	p1@LRRC48
Hg19::chr17:40086852..40086934,+	p1@TTC25
Hg19::chr17:45909077..45909086,+	p3@LRRC46
Hg19::chr17:62075703..62075725,+	p1@C17orf72
Hg19::chr17:6735012..6735030,-	p2@TEKT1
Hg19::chr17:6735035..6735068,-	p1@TEKT1
Hg19::chr17:74137321..74137337,-	p1@FOXJ1
Hg19::chr17:7621045..7621069,+	p1@DNAH2
Hg19::chr17:78010428..78010465,+	p1@CCDC40
Hg19::chr17:9479949..9479965,+	p1@WDR16
Hg19::chr17:9479971..9480003,+	p2@WDR16
Hg19::chr18:47792851..47792911,-	p1@CCDC11
Hg19::chr18:71814968..71814976,-	p5@FBXO15
Hg19::chr18:71815013..71815043,-	p2@FBXO15
Hg19::chr19:18539843..18539882,+	p@chr19:18539843..18539882 +
Hg19::chr19:48824038..48824075,-	p2@CCDC114
Hg19::chr19:50554309..50554324,-	p@chr19:50554309..50554324 -
Hg19::chr1:109655355..109655374,-	p1@C1orf194
Hg19::chr1:109655377..109655396,-	p3@C1orf194
Hg19::chr1:109655404..109655415,-	p5@C1orf194
Hg19::chr1:1109255..1109268,+	p2@TTLL10
Hg19::chr1:1109272..1109282,+	p4@TTLL10
Hg19::chr1:111889212..111889269,+	p1@C1orf88
Hg19::chr1:118727781..118727859,-	p1@SPAG17
Hg19::chr1:154178834..154178835,-	p4@C1orf189
Hg19::chr1:156890418..156890458,+	p1@LRRC71
Hg19::chr1:159116916..159116923,-	p13@AIM2
Hg19::chr1:159869912..159869966,-	p3@CCDC19
Hg19::chr1:161337662..161337675,-	p1@C1orf192
Hg19::chr1:183622423..183622434,-	p2@APOBEC4
Hg19::chr1:1935234..1935245,-	p5@C1orf222 p5@KIAA1751
Hg19::chr1:211849095..211849113,+	p1@ENST00000415202
Hg19::chr1:24120009..24120027,-	p@chr1:24120009..24120027 -
Hg19::chr1:3585622..3585657,+	p@chr1:3585622..3585657 +
Hg19::chr1:36549680..36549720,+	p1@TEKT2
Hg19::chr1:38022513..38022571,+	p1@DNALI1
Hg19::chr1:43613566..43613608,+	p1@FAM183A
Hg19::chr1:43637996..43638036,+	p1@WDR65
Hg19::chr1:43638039..43638053,+	p2@WDR65
Hg19::chr1:60539405..60539418,-	p2@C1orf87
Hg19::chr1:60539422..60539447,-	p1@C1orf87
Hg19::chr1:67390474..67390548,-	p1@WDR78
Hg19::chr1:67600640..67600658,-	p1@C1orf141
Hg19::chr1:85528018..85528039,+	p1@WDR63
Hg19::chr1:85528056..85528077,+	p3@WDR63
Hg19::chr20:20033161..20033219,+	p1@C20orf26
Hg19::chr20:271347..271422,-	p2@C20orf96
Hg19::chr20:30467600..30467641,+	p1@TTLL9
Hg19::chr20:3762087..3762100,-	p1@SPEF1
Hg19::chr21:43916312..43916363,-	p1@RSPH1
Hg19::chr21:43916365..43916386,-	p2@RSPH1
Hg19::chr22:21400229..21400252,+	p1@LOC400891
Hg19::chr22:39052300..39052336,-	p3@LOC646851
Hg19::chr22:44208092..44208107,-	p3@EFCAB6
Hg19::chr2:11273246..11273261,+	p2@C2orf50
Hg19::chr2:134901352..134901396,+	p@chr2:134901352..134901396 +
Hg19::chr2:135805008..135805028,-	p1@YSK4
Hg19::chr2:135805029..135805039,-	p2@YSK4
Hg19::chr2:170550877..170550936,-	p1@C2orf77
Hg19::chr2:171627597..171627621,+	p3@ENST00000426475 p3@ENST00000429172
Hg19::chr2:182706018..182706043,+	p@chr2:182706018..182706043 +
Hg19::chr2:202222054..202222084,-	p1@ALS2CR12
Hg19::chr2:202938048..202938058,+	p5@LOC100652824
Hg19::chr2:207629997..207630030,-	p1@MDH1B
Hg19::chr2:219221573..219221610,+	p1@C2orf62
Hg19::chr2:219906220..219906250,-	p1@CCDC108
Hg19::chr2:241845747..241845758,+	p@chr2:241845747..241845758 +
Hg19::chr2:26624775..26624809,+	p1@CCDC164
Hg19::chr2:29204161..29204178,+	p5@FAM179A
Hg19::chr2:84743562..84743651,+	p1@DNAH6
Hg19::chr2:98703623..98703635,+	p2@VWA3B
Hg19::chr3:113160334..113160373,-	p1@WDR52
Hg19::chr3:126113734..126113794,+	p1@CCDC37
Hg19::chr3:129147432..129147488,-	p1@C3orf25
Hg19::chr3:167098059..167098120,-	p1@ZBBX
Hg19::chr3:169530299..169530319,-	p8@LRRC34
Hg19::chr3:169530320..169530344,-	p2@LRRC34
Hg19::chr3:180397256..180397301,-	p2@CCDC39
Hg19::chr3:19975665..19975719,-	p2@EFHB
Hg19::chr3:38080691..38080770,+	p1@DLEC1
Hg19::chr3:52351872..52351896,+	p1@DNAH1
Hg19::chr3:57530107..57530118,-	p2@DNAH12
Hg19::chr4:81256871..81256921,+	p1@C4orf22
Hg19::chr5:110062349..110062380,-	p2@TMEM232
Hg19::chr5:121659052..121659068,-	p1@ENST00000512105
Hg19::chr5:35618058..35618078,+	p2@SPEF2
Hg19::chr5:35938674..35938730,-	p1@CAPSL
Hg19::chr5:68530376..68530408,+	p7@CDK7
Hg19::chr5:7851192..7851256,-	p1@C5orf49
Hg19::chr5:94728500..94728543,+	p1@FAM81B
Hg19::chr6:109761774..109761866,-	p1@PPIL6
Hg19::chr6:110011718..110011750,-	p3@AKD1
Hg19::chr6:146920097..146920113,+	p2@C6orf103
Hg19::chr6:146920116..146920150,+	p1@C6orf103
Hg19::chr6:151815143..151815212,+	p1@C6orf97
Hg19::chr6:165723088..165723119,-	p1@C6orf118
Hg19::chr6:43612793..43612833,+	p1@RSPH9
Hg19::chr6:44265446..44265462,-	p2@TCTE1
Hg19::chr6:46714658..46714677,+	p1@LOC100287718
Hg19::chr6:46714680..46714685,+	p2@LOC100287718
Hg19::chr6:83767586..83767600,-	p3@UBE2CBP
Hg19::chr7:102389155..102389172,-	p3@RASA4
Hg19::chr7:102715263..102715289,-	p3@FBXL13
Hg19::chr7:105221898..105221948,-	p1@EFCAB10
Hg19::chr7:123174610..123174654,-	p1@IQUB
Hg19::chr7:12544061..12544073,+	p1@ENST00000424453
Hg19::chr7:133812086..133812122,+	p1@LRGUK
Hg19::chr7:76751926..76751960,+	p1@CCDC146
Hg19::chr7:91687055..91687071,+	p19@AKAP9
Hg19::chr8:101118185..101118205,-	p2@RGS22
Hg19::chr8:101118210..101118287,-	p1@RGS22
Hg19::chr8:133687814..133687844,-	p3@LRRC6
Hg19::chr8:49647808..49647873,-	p1@EFCAB1
Hg19::chr8:67940755..67940821,-	p1@PPP1R42
Hg19::chr9:100069597..100069628,+	p3@C9orf174
Hg19::chr9:100069645..100069665,+	p5@C9orf174
Hg19::chr9:130469257..130469288,+	p1@C9orf117
Hg19::chr9:130469295..130469308,+	p2@C9orf117
Hg19::chr9:135285558..135285565,+	p4@C9orf171
Hg19::chr9:135285579..135285613,+	p1@C9orf171
Hg19::chr9:135754263..135754338,+	p3@C9orf9
Hg19::chr9:34381482..34381503,-	p4@C9orf24
Hg19::chr9:34381511..34381522,-	p8@C9orf24
Hg19::chr9:34381538..34381602,-	p1@C9orf24
Hg19::chr9:3525848..3525863,-	p6@RFX3
Hg19::chr9:35812140..35812191,-	p1@SPAG8
Hg19::chrX:119030118..119030179,+	p1@AKAP14
Hg19::chrX:35937843..35937868,+	p2@CXorf22
Hg19::chrX:53449816..53449827,+	p3@RIBC1

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:0005858	axonemal dynein complex	6.56779292423636e-09
GO:0044447	axoneme part	6.56779292423636e-09
GO:0005930	axoneme	2.24507952120803e-08
GO:0030286	dynein complex	1.28207533327857e-06
GO:0044463	cell projection part	1.2841998354596e-06
GO:0001539	ciliary or flagellar motility	4.21304448100169e-05
GO:0015630	microtubule cytoskeleton	0.000158805532537098
GO:0003777	microtubule motor activity	0.000198807572737233
GO:0005875	microtubule associated complex	0.000576924799331525
GO:0042995	cell projection	0.000594200600940216
GO:0044430	cytoskeletal part	0.00584502357339293
GO:0006928	cell motility	0.0135935998424969
GO:0051674	localization of cell	0.0135935998424969
GO:0005856	cytoskeleton	0.0183506095553789
GO:0004835	tubulin-tyrosine ligase activity	0.0479675318110294

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	4.50e-71	56
neural rod	4.50e-71	56
future spinal cord	4.50e-71	56
neural keel	4.50e-71	56
regional part of nervous system	1.30e-64	53
regional part of brain	1.30e-64	53
adult organism	9.04e-61	114
regional part of forebrain	4.05e-56	41
forebrain	4.05e-56	41
anterior neural tube	4.05e-56	41
future forebrain	4.05e-56	41
central nervous system	2.58e-52	81
brain	6.67e-50	68
future brain	6.67e-50	68
neural plate	3.28e-47	82
presumptive neural plate	3.28e-47	82
nervous system	6.30e-46	89
brain grey matter	1.69e-44	34
gray matter	1.69e-44	34
neurectoderm	1.82e-44	86
telencephalon	3.56e-44	34
cerebral hemisphere	5.26e-40	32
regional part of telencephalon	6.65e-40	32
pre-chordal neural plate	3.49e-37	61
ecto-epithelium	1.02e-34	104
regional part of cerebral cortex	3.02e-33	22
structure with developmental contribution from neural crest	1.27e-30	132
cerebral cortex	8.45e-29	25
pallium	8.45e-29	25
neocortex	8.94e-29	20
ectoderm-derived structure	2.05e-19	171
ectoderm	2.05e-19	171
presumptive ectoderm	2.05e-19	171
tube	8.60e-19	192
organ system subdivision	9.35e-19	223
neural nucleus	1.45e-17	9
nucleus of brain	1.45e-17	9
basal ganglion	8.71e-17	9
nuclear complex of neuraxis	8.71e-17	9
aggregate regional part of brain	8.71e-17	9
collection of basal ganglia	8.71e-17	9
cerebral subcortex	8.71e-17	9
brainstem	2.63e-16	6
posterior neural tube	1.39e-15	15
chordal neural plate	1.39e-15	15
anatomical conduit	4.07e-14	240
diencephalon	2.71e-13	7
future diencephalon	2.71e-13	7
telencephalic nucleus	8.56e-13	7
limbic system	9.84e-13	5
temporal lobe	6.34e-12	6
corpus striatum	2.02e-11	4
striatum	2.02e-11	4
ventral part of telencephalon	2.02e-11	4
future corpus striatum	2.02e-11	4
anatomical cluster	4.11e-11	373
epithelium	8.95e-11	306
cell layer	1.52e-10	309
segmental subdivision of hindbrain	5.02e-10	12
hindbrain	5.02e-10	12
presumptive hindbrain	5.02e-10	12
gyrus	1.07e-09	6
medulla oblongata	2.77e-09	3
myelencephalon	2.77e-09	3
future myelencephalon	2.77e-09	3
segmental subdivision of nervous system	3.67e-09	13
caudate-putamen	4.35e-09	3
dorsal striatum	4.35e-09	3
pons	1.00e-08	3
multi-tissue structure	2.64e-08	342
spinal cord	3.56e-08	3
dorsal region element	3.56e-08	3
dorsum	3.56e-08	3
parietal lobe	5.97e-08	5
organ	7.41e-08	503
occipital lobe	1.13e-07	5
organ part	3.79e-07	218
caudate nucleus	8.91e-07	2
future caudate nucleus	8.91e-07	2
open tracheal system trachea	9.93e-07	2

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
CTCF#10664	53	1.65170690565684	8.4342581453866e-05	0.00126561133110062
CTCFL#140690	17	1.95168641920095	0.00671386396717387	0.0285407537800257
E2F1#1869	57	1.62628596074489	6.16331880240379e-05	0.00101002801255963
ELF1#1997	70	1.73294684370074	4.0382457522831e-07	1.94534293414527e-05
ESR1#2099	17	3.04108288392225	5.19823726916867e-05	0.000884487947466124
ETS1#2113	33	1.86656459553882	0.000327522424697366	0.00333783318822875
FOXA1#3169	40	2.5770743603222	2.08656383039225e-08	1.48344887598595e-06
FOXA2#3170	16	2.29120593048049	0.00184374340443823	0.0109098423465226
GABPB1#2553	40	1.6436474037633	0.000920551891409491	0.00669322744269812
HSF1#3297	9	8.5966046511628	1.34614153530798e-06	5.30326955134024e-05
MAX#4149	62	2.3259211718514	3.44289653179216e-11	3.95569494921717e-09
MXI1#4601	65	3.76454741784508	3.74901027033113e-22	1.05253463339546e-19
NFYA#4800	24	2.57101126044147	2.20338060213753e-05	0.000483138498229355
NFYB#4801	24	2.33857580281904	9.69844677762145e-05	0.00138015544761958
NRF1#4899	25	1.77474991972542	0.00367446094348844	0.0185479471472687
PBX3#5090	15	1.91114936221606	0.0127200327424247	0.0458851719945457
PPARGC1A#10891	3	6.10554307610994	0.0135301319454487	0.0477793220710302
RFX5#5993	34	2.38156376816647	1.80536333721812e-06	6.77507515543382e-05
SIN3A#25942	101	3.17614742679261	1.3042318688605e-31	5.58248656360336e-29
SIX5#147912	26	2.58287557698799	8.89168549069174e-06	0.000239710568136901
SMARCC1#6599	11	2.79242414253457	0.00219615383400548	0.0126559681217071
SP1#6667	52	1.72276646315888	3.27054741465856e-05	0.000650862617072265
SREBF1#6720	35	9.56514378149471	6.2171250565965e-24	1.89856819820433e-21
USF1#7391	39	1.44243297564599	0.0105054962490339	0.0388975616957796
USF2#7392	22	1.66179268878797	0.0131832238585175	0.0466473342105878
ZNF143#7702	23	1.80534977151885	0.00434857355667022	0.0206258537483574
ZNF263#10127	38	1.81645338492096	0.000183096292812672	0.00221760335440828

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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