Coexpression cluster:C194

Full id: C194_MCF7_breast_prostate_Intestinal_diffuse_Wilms_Alveolar

Phase1 CAGE Peaks

Hg19::chr10:109305043..109305046,+	p@chr10:109305043..109305046 +
Hg19::chr10:118030368..118030379,+	p@chr10:118030368..118030379 +
Hg19::chr10:8091813..8091823,+	p@chr10:8091813..8091823 +
Hg19::chr10:8093055..8093080,-	p@chr10:8093055..8093080 -
Hg19::chr10:8093191..8093214,+	p1@ENST00000418270
Hg19::chr10:8093226..8093237,+	p2@ENST00000418270
Hg19::chr10:8094059..8094066,+	p@chr10:8094059..8094066 +
Hg19::chr10:8095431..8095449,-	p1@FLJ45983
Hg19::chr10:8096323..8096329,-	p@chr10:8096323..8096329 -
Hg19::chr10:8100452..8100463,+	p20@GATA3
Hg19::chr10:8910201..8910211,+	p@chr10:8910201..8910211 +
Hg19::chr11:72493920..72493932,-	p19@STARD10
Hg19::chr11:9113106..9113118,-	p3@SCUBE2
Hg19::chr11:9113137..9113151,-	p1@SCUBE2
Hg19::chr12:3324464..3324485,+	p4@TSPAN9
Hg19::chr12:53297486..53297500,-	p15@KRT8
Hg19::chr12:53359307..53359335,+	p@chr12:53359307..53359335 +
Hg19::chr13:24289325..24289337,+	p@chr13:24289325..24289337 +
Hg19::chr14:100438174..100438181,+	p28@EVL
Hg19::chr14:100625961..100625988,-	p1@DEGS2
Hg19::chr14:105267423..105267443,+	p2@ZBTB42
Hg19::chr14:38064198..38064200,-	p11@FOXA1
Hg19::chr14:38064307..38064323,-	p3@FOXA1
Hg19::chr14:38064429..38064486,-	p1@FOXA1
Hg19::chr14:38065203..38065215,-	p9@FOXA1
Hg19::chr15:99194008..99194023,-	p@chr15:99194008..99194023 -
Hg19::chr15:99395486..99395494,-	p@chr15:99395486..99395494 -
Hg19::chr16:68271763..68271795,+	p@chr16:68271763..68271795 +
Hg19::chr16:68386079..68386100,+	p4@PRMT7
Hg19::chr16:78085184..78085211,+	p@chr16:78085184..78085211 +
Hg19::chr17:4542343..4542380,+	p@chr17:4542343..4542380 +
Hg19::chr17:57914914..57914926,+	p6@AK310806
Hg19::chr17:57970074..57970117,-	p2@TUBD1
Hg19::chr17:58677539..58677610,+	p1@PPM1D
Hg19::chr17:58677652..58677698,+	p2@PPM1D
Hg19::chr17:59469536..59469541,+	p@chr17:59469536..59469541 +
Hg19::chr17:61523756..61523792,+	p@chr17:61523756..61523792 +
Hg19::chr17:73521554..73521574,-	p@chr17:73521554..73521574 -
Hg19::chr17:74574500..74574512,-	p@chr17:74574500..74574512 -
Hg19::chr19:14183628..14183639,+	p3@LOC113230
Hg19::chr1:109792128..109792139,+	p@chr1:109792128..109792139 +
Hg19::chr1:150953891..150953894,+	p@chr1:150953891..150953894 +
Hg19::chr1:96504230..96504238,-	p@chr1:96504230..96504238 -
Hg19::chr20:19738569..19738582,-	p2@LOC100287166
Hg19::chr20:45986315..45986328,-	p@chr20:45986315..45986328 -
Hg19::chr20:46414348..46414364,+	p@chr20:46414348..46414364 +
Hg19::chr20:46414380..46414395,+	p@chr20:46414380..46414395 +
Hg19::chr20:49347516..49347535,-	p@chr20:49347516..49347535 -
Hg19::chr20:49347538..49347547,-	p@chr20:49347538..49347547 -
Hg19::chr20:49347901..49347919,+	p4@PARD6B
Hg19::chr20:49411523..49411535,+	p4@BCAS4
Hg19::chr20:49411543..49411635,+	p1@BCAS4
Hg19::chr20:52210553..52210568,-	p7@ZNF217
Hg19::chr20:52482691..52482707,-	p@chr20:52482691..52482707 -
Hg19::chr20:55204118..55204122,-	p@chr20:55204118..55204122 -
Hg19::chr21:41711178..41711186,-	p@chr21:41711178..41711186 -
Hg19::chr2:11679963..11679986,+	p8@GREB1
Hg19::chr2:11682790..11682822,+	p4@GREB1
Hg19::chr2:189470761..189470766,-	p@chr2:189470761..189470766 -
Hg19::chr2:227660810..227660851,-	p@chr2:227660810..227660851 -
Hg19::chr2:227661562..227661575,-	p@chr2:227661562..227661575 -
Hg19::chr2:227661576..227661601,-	p@chr2:227661576..227661601 -
Hg19::chr2:227662026..227662050,-	p@chr2:227662026..227662050 -
Hg19::chr2:227662613..227662634,+	p@chr2:227662613..227662634 +
Hg19::chr2:227662666..227662677,+	p@chr2:227662666..227662677 +
Hg19::chr2:75136085..75136090,+	p@chr2:75136085..75136090 +
Hg19::chr3:161089270..161089273,-	p3@SPTSSB
Hg19::chr3:161089297..161089312,-	p1@SPTSSB
Hg19::chr3:161089631..161089635,+	p@chr3:161089631..161089635 +
Hg19::chr5:116790756..116790798,+	p2@ENST00000504107
Hg19::chr5:116790848..116790851,+	p4@ENST00000504107
Hg19::chr5:179740905..179740933,+	p@chr5:179740905..179740933 +
Hg19::chr6:26272822..26272838,-	p3@HIST1H2APS4
Hg19::chr7:156518511..156518549,-	p5@LMBR1
Hg19::chr7:80551671..80551680,-	p38@SEMA3C
Hg19::chr8:100905448..100905460,-	p10@COX6C
Hg19::chr8:91871372..91871381,-	p1@ENST00000517884
Hg19::chr8:91871468..91871473,-	p2@ENST00000517884
Hg19::chr8:91871545..91871568,-	p3@ENST00000517884
Hg19::chr9:131940726..131940731,+	p@chr9:131940726..131940731 +
Hg19::chr9:134420902..134420915,+	p@chr9:134420902..134420915 +
Hg19::chr9:136739422..136739457,+	p@chr9:136739422..136739457 +
Hg19::chr9:137249109..137249127,+	p@chr9:137249109..137249127 +
Hg19::chr9:91150087..91150100,+	p1@NXNL2
Hg19::chrX:139586386..139586401,-	p@chrX:139586386..139586401 -
Hg19::chrX:139586415..139586427,-	p@chrX:139586415..139586427 -
Hg19::chrX:71960688..71960693,-	p1@ENST00000364401

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:0016277	[myelin basic protein]-arginine N-methyltransferase activity	0.0467473959727593
GO:0042415	norepinephrine metabolic process	0.0467473959727593
GO:0042421	norepinephrine biosynthetic process	0.0467473959727593
GO:0035243	protein-arginine omega-N symmetric methyltransferase activity	0.0467473959727593
GO:0007275	multicellular organismal development	0.0467473959727593
GO:0042445	hormone metabolic process	0.0467473959727593
GO:0048485	sympathetic nervous system development	0.0467473959727593
GO:0035241	protein-arginine omega-N monomethyltransferase activity	0.0467473959727593

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>disease_data<br>

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Uber Anatomy

Ontology term	p-value	n
breast	7.11e-22	10
chest	6.41e-20	11
prostate gland	1.64e-11	11
male accessory sex gland	1.64e-11	11
embryonic cloacal epithelium	1.64e-11	11
epithelium of hindgut	1.64e-11	11
urogenital sinus epithelium	1.64e-11	11
prostate bud	1.64e-11	11
prostate field	1.64e-11	11
sex gland	1.34e-10	12
male reproductive gland	1.34e-10	12
male organism	6.57e-10	22
male reproductive system	6.57e-10	22
cloaca	3.64e-09	14
anal region	3.64e-09	14
embryonic cloaca	3.64e-09	14
terminal part of digestive tract	3.64e-09	14
primitive urogenital sinus	3.64e-09	14
proctodeum	3.64e-09	14
genitourinary system	1.37e-08	15
reproductive structure	9.33e-08	59
reproductive system	9.33e-08	59
mixed endoderm/mesoderm-derived structure	1.34e-07	29
urinary system structure	5.42e-07	47
hindgut	6.91e-07	19
renal system	7.62e-07	48

Disease

Ontology term	p-value	n
thoracic cancer	5.37e-54	4
breast cancer	5.37e-54	4
disease of anatomical entity	1.29e-08	39

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
BHLHE40#8553	6	3.09460783082603	0.0133190259581251	0.0470831895491681
E2F1#1869	51	2.87674540182581	6.95797147555338e-15	1.21518993801893e-12
EP300#2033	28	2.18011917625574	3.32779437008602e-05	0.00066124717697377
ESR1#2099	9	3.18295896167115	0.00210674322298697	0.0121796930786347
FOXA1#3169	30	3.82117922392602	4.93171208322702e-11	5.56223626630828e-09
FOXA2#3170	14	3.96352290272774	1.08014361323558e-05	0.000280062360533046
GATA3#2625	16	5.00901450247467	1.06378187758549e-07	6.21366417858784e-06
HDAC2#3066	15	2.31303797183211	0.00186060122573813	0.0109753929067983
HNF4G#3174	8	2.64399287599511	0.0109263525724861	0.0402148765265674
MYC#4609	39	2.34102290796284	4.27933857225565e-08	2.81264846537324e-06
POLR2A#5430	67	1.65378577964817	6.53632711446568e-09	5.14041767701567e-07
SUZ12#23512	7	4.03230421123495	0.00182352915567753	0.0109139003719087

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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