Coexpression cluster:C122

Full id: C122_chronic_Reticulocytes_skeletal_leukemia_acute_colon_Tracheal

Phase1 CAGE Peaks

Hg19::chr10:1205766..1205784,+	p1@LINC00200
Hg19::chr10:133812422..133812433,-	p@chr10:133812422..133812433 -
Hg19::chr10:23344774..23344789,-	p@chr10:23344774..23344789 -
Hg19::chr10:32261513..32261517,-	p@chr10:32261513..32261517 -
Hg19::chr10:74386276..74386278,+	p@chr10:74386276..74386278 +
Hg19::chr10:7706496..7706498,-	p@chr10:7706496..7706498 -
Hg19::chr11:107123494..107123497,-	p@chr11:107123494..107123497 -
Hg19::chr11:12786182..12786188,+	p@chr11:12786182..12786188 +
Hg19::chr11:66636028..66636036,-	p@chr11:66636028..66636036 -
Hg19::chr11:73499170..73499182,-	p@chr11:73499170..73499182 -
Hg19::chr11:74857404..74857406,-	p@chr11:74857404..74857406 -
Hg19::chr12:127384780..127384784,-	p@chr12:127384780..127384784 -
Hg19::chr12:131484807..131484812,+	p@chr12:131484807..131484812 +
Hg19::chr12:40834251..40834284,+	p@chr12:40834251..40834284 +
Hg19::chr12:40834308..40834315,+	p@chr12:40834308..40834315 +
Hg19::chr12:56360072..56360078,+	p6@CDK2
Hg19::chr12:83544470..83544473,-	p@chr12:83544470..83544473 -
Hg19::chr14:21288539..21288543,-	p@chr14:21288539..21288543 -
Hg19::chr14:21288980..21288985,+	p@chr14:21288980..21288985 +
Hg19::chr14:57476704..57476716,+	p@chr14:57476704..57476716 +
Hg19::chr15:29741976..29741979,-	p@chr15:29741976..29741979 -
Hg19::chr15:31292147..31292151,-	p@chr15:31292147..31292151 -
Hg19::chr15:55529745..55529773,-	p@chr15:55529745..55529773 -
Hg19::chr15:56614511..56614514,+	p@chr15:56614511..56614514 +
Hg19::chr15:58838947..58838952,+	p@chr15:58838947..58838952 +
Hg19::chr16:15776378..15776383,+	p@chr16:15776378..15776383 +
Hg19::chr16:18944204..18944211,-	p@chr16:18944204..18944211 -
Hg19::chr16:202850..202864,+	p1@HBZ
Hg19::chr16:204428..204475,+	p@chr16:204428..204475 +
Hg19::chr16:3032177..3032182,-	p@chr16:3032177..3032182 -
Hg19::chr16:57717053..57717056,-	p@chr16:57717053..57717056 -
Hg19::chr16:85602486..85602494,+	p@chr16:85602486..85602494 +
Hg19::chr16:87808740..87808748,-	p@chr16:87808740..87808748 -
Hg19::chr17:42607348..42607359,+	p@chr17:42607348..42607359 +
Hg19::chr17:45253914..45253921,+	p@chr17:45253914..45253921 +
Hg19::chr17:47841886..47841889,-	p9@FAM117A
Hg19::chr17:56743816..56743819,-	p@chr17:56743816..56743819 -
Hg19::chr17:56744054..56744060,-	p1@ENST00000362556
Hg19::chr17:68125012..68125027,-	p1@ENST00000435112
Hg19::chr17:74438976..74438981,-	p@chr17:74438976..74438981 -
Hg19::chr17:79323902..79323907,-	p@chr17:79323902..79323907 -
Hg19::chr18:57647728..57647732,+	p@chr18:57647728..57647732 +
Hg19::chr18:74587496..74587504,+	p@chr18:74587496..74587504 +
Hg19::chr18:9014300..9014305,-	p@chr18:9014300..9014305 -
Hg19::chr19:10949257..10949260,-	p@chr19:10949257..10949260 -
Hg19::chr19:17377560..17377565,-	p@chr19:17377560..17377565 -
Hg19::chr19:38993672..38993677,-	p@chr19:38993672..38993677 -
Hg19::chr19:42751534..42751542,-	p@chr19:42751534..42751542 -
Hg19::chr19:436927..436931,-	p@chr19:436927..436931 -
Hg19::chr19:46440375..46440384,-	p@chr19:46440375..46440384 -
Hg19::chr19:49467870..49467873,+	p@chr19:49467870..49467873 +
Hg19::chr19:5434724..5434729,-	p@chr19:5434724..5434729 -
Hg19::chr19:5435171..5435175,+	p@chr19:5435171..5435175 +
Hg19::chr1:100113372..100113376,-	p@chr1:100113372..100113376 -
Hg19::chr1:155804252..155804267,-	p@chr1:155804252..155804267 -
Hg19::chr1:16158432..16158434,-	p@chr1:16158432..16158434 -
Hg19::chr1:185126828..185126842,+	p@chr1:185126828..185126842 +
Hg19::chr1:21055891..21055895,+	p@chr1:21055891..21055895 +
Hg19::chr1:230875702..230875707,-	p@chr1:230875702..230875707 -
Hg19::chr1:245725174..245725179,+	p@chr1:245725174..245725179 +
Hg19::chr1:247268412..247268417,+	p@chr1:247268412..247268417 +
Hg19::chr1:25215144..25215151,+	p@chr1:25215144..25215151 +
Hg19::chr1:27392741..27392745,+	p@chr1:27392741..27392745 +
Hg19::chr1:46503176..46503184,+	p@chr1:46503176..46503184 +
Hg19::chr1:65946823..65946834,-	p@chr1:65946823..65946834 -
Hg19::chr20:57596336..57596338,-	p@chr20:57596336..57596338 -
Hg19::chr21:15825365..15825368,+	p@chr21:15825365..15825368 +
Hg19::chr21:16572678..16572681,+	p@chr21:16572678..16572681 +
Hg19::chr21:33889412..33889416,+	p@chr21:33889412..33889416 +
Hg19::chr21:40277730..40277733,+	p@chr21:40277730..40277733 +
Hg19::chr21:46587991..46587996,+	p@chr21:46587991..46587996 +
Hg19::chr22:19678914..19678918,-	p@chr22:19678914..19678918 -
Hg19::chr22:20188191..20188215,+	p@chr22:20188191..20188215 +
Hg19::chr22:20255641..20255651,-	p8@RTN4R
Hg19::chr22:30605270..30605275,+	p@chr22:30605270..30605275 +
Hg19::chr22:39835764..39835768,+	p@chr22:39835764..39835768 +
Hg19::chr2:106217257..106217261,-	p@chr2:106217257..106217261 -
Hg19::chr2:108972782..108972789,+	p@chr2:108972782..108972789 +
Hg19::chr2:119972623..119972627,+	p@chr2:119972623..119972627 +
Hg19::chr2:136006392..136006395,-	p@chr2:136006392..136006395 -
Hg19::chr2:145116694..145116698,+	p@chr2:145116694..145116698 +
Hg19::chr2:152685303..152685308,+	p@chr2:152685303..152685308 +
Hg19::chr2:169310156..169310163,-	p@chr2:169310156..169310163 -
Hg19::chr2:180658273..180658279,+	p@chr2:180658273..180658279 +
Hg19::chr2:181848643..181848652,+	p20@UBE2E3
Hg19::chr2:217785498..217785504,-	p@chr2:217785498..217785504 -
Hg19::chr2:226321257..226321288,-	p@chr2:226321257..226321288 -
Hg19::chr2:241721829..241721844,-	p@chr2:241721829..241721844 -
Hg19::chr2:54816567..54816573,-	p@chr2:54816567..54816573 -
Hg19::chr2:70944889..70944893,+	p@chr2:70944889..70944893 +
Hg19::chr2:8820960..8820963,-	p@chr2:8820960..8820963 -
Hg19::chr2:8820995..8821000,-	p@chr2:8820995..8821000 -
Hg19::chr3:128740865..128740872,+	p@chr3:128740865..128740872 +
Hg19::chr3:13044317..13044322,-	p@chr3:13044317..13044322 -
Hg19::chr3:138582577..138582582,+	p@chr3:138582577..138582582 +
Hg19::chr3:156322310..156322314,-	p@chr3:156322310..156322314 -
Hg19::chr3:193660436..193660439,+	p@chr3:193660436..193660439 +
Hg19::chr3:197833253..197833259,+	p@chr3:197833253..197833259 +
Hg19::chr3:25634199..25634205,-	p@chr3:25634199..25634205 -
Hg19::chr3:37000324..37000332,+	p@chr3:37000324..37000332 +
Hg19::chr3:49507014..49507019,-	p@chr3:49507014..49507019 -
Hg19::chr3:65013149..65013151,-	p@chr3:65013149..65013151 -
Hg19::chr3:65561104..65561130,-	p@chr3:65561104..65561130 -
Hg19::chr4:127566945..127566951,-	p@chr4:127566945..127566951 -
Hg19::chr4:13532999..13533030,-	p1@LOC285547
Hg19::chr4:138399813..138399819,+	p@chr4:138399813..138399819 +
Hg19::chr4:151977012..151977014,-	p@chr4:151977012..151977014 -
Hg19::chr4:155378912..155378919,+	p@chr4:155378912..155378919 +
Hg19::chr4:37563274..37563279,-	p@chr4:37563274..37563279 -
Hg19::chr4:4661645..4661651,-	p@chr4:4661645..4661651 -
Hg19::chr4:6592942..6592947,-	p@chr4:6592942..6592947 -
Hg19::chr4:787481..787486,+	p@chr4:787481..787486 +
Hg19::chr4:99534450..99534465,-	p@chr4:99534450..99534465 -
Hg19::chr5:132002122..132002127,+	p@chr5:132002122..132002127 +
Hg19::chr5:141031076..141031082,-	p4@FCHSD1
Hg19::chr5:174972159..174972164,+	p@chr5:174972159..174972164 +
Hg19::chr5:176038782..176038807,+	p@chr5:176038782..176038807 +
Hg19::chr5:54614660..54614666,-	p@chr5:54614660..54614666 -
Hg19::chr5:91793945..91793990,-	p@chr5:91793945..91793990 -
Hg19::chr6:14640833..14640843,+	p@chr6:14640833..14640843 +
Hg19::chr6:147208136..147208142,-	p@chr6:147208136..147208142 -
Hg19::chr6:147769856..147769862,+	p@chr6:147769856..147769862 +
Hg19::chr6:16267976..16267985,-	p@chr6:16267976..16267985 -
Hg19::chr6:27286882..27286887,+	p@chr6:27286882..27286887 +
Hg19::chr6:27760588..27760611,-	p@chr6:27760588..27760611 -
Hg19::chr6:28188420..28188425,+	p@chr6:28188420..28188425 +
Hg19::chr6:28688272..28688277,+	p@chr6:28688272..28688277 +
Hg19::chr6:3209188..3209193,-	p@chr6:3209188..3209193 -
Hg19::chr6:43727334..43727337,+	p@chr6:43727334..43727337 +
Hg19::chr6:6873326..6873331,+	p@chr6:6873326..6873331 +
Hg19::chr7:130983477..130983481,+	p@chr7:130983477..130983481 +
Hg19::chr7:150706223..150706226,+	p@chr7:150706223..150706226 +
Hg19::chr7:150759072..150759077,-	p@chr7:150759072..150759077 -
Hg19::chr7:65392949..65392957,+	p@chr7:65392949..65392957 +
Hg19::chr8:110078877..110078879,+	p@chr8:110078877..110078879 +
Hg19::chr8:11208442..11208447,+	p@chr8:11208442..11208447 +
Hg19::chr8:40551471..40551475,+	p@chr8:40551471..40551475 +
Hg19::chr9:101552135..101552140,+	p@chr9:101552135..101552140 +
Hg19::chr9:101552164..101552169,+	p@chr9:101552164..101552169 +
Hg19::chr9:104134757..104134761,-	p@chr9:104134757..104134761 -
Hg19::chr9:130700476..130700480,+	p@chr9:130700476..130700480 +
Hg19::chr9:138852986..138853002,-	p3@UBAC1
Hg19::chr9:138853016..138853090,-	p2@UBAC1
Hg19::chr9:32940992..32941030,+	p@chr9:32940992..32941030 +
Hg19::chr9:75972827..75972836,+	p@chr9:75972827..75972836 +
Hg19::chrX:48379794..48379808,-	p@chrX:48379794..48379808 -
Hg19::chrX:89713597..89713607,+	p@chrX:89713597..89713607 +

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:0035173	histone kinase activity	0.0211939244083363
GO:0005737	cytoplasm	0.0353148896437898
GO:0007089	traversing start control point of mitotic cell cycle	0.0353148896437898
GO:0000307	cyclin-dependent protein kinase holoenzyme complex	0.0356299415866237
GO:0000902	cell morphogenesis	0.0356299415866237
GO:0032989	cellular structure morphogenesis	0.0356299415866237
GO:0000086	G2/M transition of mitotic cell cycle	0.0356299415866237
GO:0000080	G1 phase of mitotic cell cycle	0.0356299415866237
GO:0006512	ubiquitin cycle	0.0356299415866237
GO:0043687	post-translational protein modification	0.0356299415866237
GO:0051318	G1 phase	0.0356299415866237
GO:0005344	oxygen transporter activity	0.0356299415866237
GO:0005833	hemoglobin complex	0.0356299415866237
GO:0006275	regulation of DNA replication	0.0356299415866237
GO:0004693	cyclin-dependent protein kinase activity	0.0356299415866237
GO:0015671	oxygen transport	0.0356299415866237
GO:0006464	protein modification process	0.0356299415866237
GO:0015669	gas transport	0.0356299415866237
GO:0007346	regulation of progression through mitotic cell cycle	0.0356299415866237
GO:0043412	biopolymer modification	0.0360107307507381
GO:0051052	regulation of DNA metabolic process	0.0493129337502005

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
bladder cell	6.40e-23	1
lower urinary tract cell	6.40e-23	1
epithelial cell of large intestine	2.59e-12	2
intestinal epithelial cell	8.61e-07	4

Uber Anatomy

Ontology term	p-value	n
urinary bladder urothelium	6.40e-23	1
wall of urinary bladder	6.40e-23	1
mucosa of urinary bladder	6.40e-23	1
urinary bladder	3.62e-12	2
lower urinary tract	3.62e-12	2
epithelium of mucosa	6.88e-12	8
hindgut	5.19e-11	19
mucosa	1.77e-10	20
tongue	1.40e-08	3
gustatory system	1.40e-08	3
future tongue	1.40e-08	3
anatomical wall	3.07e-08	12
cloaca	3.55e-07	14
anal region	3.55e-07	14
embryonic cloaca	3.55e-07	14
terminal part of digestive tract	3.55e-07	14
primitive urogenital sinus	3.55e-07	14
proctodeum	3.55e-07	14
rectum	8.61e-07	4
intestinal mucosa	8.61e-07	4
wall of intestine	8.61e-07	4
gastrointestinal system mucosa	8.61e-07	4
gastrointestinal system epithelium	8.61e-07	4
intestinal epithelium	8.61e-07	4
genitourinary system	9.36e-07	15
mucosa of oral region	9.63e-07	4
respiratory system mucosa	9.63e-07	4

Disease

Ontology term	p-value	n
chronic leukemia	5.29e-69	8
myeloid leukemia	4.26e-18	31
leukemia	1.95e-14	39
hematologic cancer	4.38e-11	51
immune system cancer	4.38e-11	51
cancer	2.69e-07	235
disease of cellular proliferation	3.89e-07	239

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
BCL3#602	10	2.35014304787336	0.0108376243390943	0.0399671839106874
BCLAF1#9774	30	4.41890767553507	6.60443440592223e-12	8.44260128421189e-10
CEBPB#1051	31	1.68099031565013	0.0024684138322988	0.0138683453779899
FOSL1#8061	12	3.24192487480596	0.000374295378510848	0.00371941341924781
GATA1#2623	30	2.7674098252654	3.16538239521499e-07	1.58860822668841e-05
GATA2#2624	36	3.12120777148261	6.40110507421014e-10	6.1052512588624e-08
GTF2B#2959	49	10.6479433114414	2.30968522203392e-36	1.19416443021783e-33
GTF2F1#2962	26	2.25327335235169	7.81193240696417e-05	0.00120334868532586
HDAC2#3066	20	1.82525445396276	0.00659986857418695	0.0281685195757871
HEY1#23462	84	2.30863488177469	6.42594888985933e-17	1.30822548948932e-14
JUNB#3726	21	4.37294752283159	1.64384562941445e-08	1.19223328951678e-06
JUND#3727	34	1.61781342873207	0.00276782091612268	0.0151646442481868
MAFK#7975	12	2.2123047459453	0.00859067144115041	0.0327278447013317
POLR2A#5430	93	1.35859282598572	3.39871836445388e-05	0.00067431372960714
POU5F1#5460	3	6.8456979888144	0.00995254961087334	0.0373360031900144
SMARCA4#6597	5	5.33217358190095	0.00265410613088054	0.0146484273214096
STAT2#6773	9	3.99574109304739	0.0004776663017821	0.00435200129912072
TAF7#6879	64	4.97766287017096	3.42445470951413e-29	1.31006089892654e-26
TAL1#6886	37	7.51795113649855	4.97957745754765e-22	1.39054034783107e-19
TBP#6908	89	2.24423531395632	1.55179694714623e-17	3.28738582886421e-15

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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