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Coexpression cluster:C141

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Full id: C141_Hodgkin_acute_thymus_chronic_vein_CD4_B



Phase1 CAGE Peaks

Hg19::chr10:73637839..73637853,+p1@ENST00000441348
Hg19::chr10:73637855..73637875,+p2@ENST00000441348
Hg19::chr10:73638582..73638591,-p@chr10:73638582..73638591
-
Hg19::chr10:92706978..92707003,+p@chr10:92706978..92707003
+
Hg19::chr10:92707051..92707066,+p@chr10:92707051..92707066
+
Hg19::chr11:118213455..118213462,-p4@CD3D
Hg19::chr11:118214883..118214897,+p5@CD3G
Hg19::chr11:134594759..134594800,+p@chr11:134594759..134594800
+
Hg19::chr12:123528254..123528260,-p@chr12:123528254..123528260
-
Hg19::chr12:133423989..133423993,-p9@CHFR
Hg19::chr12:96312497..96312514,+p@chr12:96312497..96312514
+
Hg19::chr13:100993767..100993771,+p@chr13:100993767..100993771
+
Hg19::chr13:105489602..105489620,-p@chr13:105489602..105489620
-
Hg19::chr13:105490171..105490180,-p@chr13:105490171..105490180
-
Hg19::chr13:105490195..105490246,-p@chr13:105490195..105490246
-
Hg19::chr13:105490252..105490261,-p@chr13:105490252..105490261
-
Hg19::chr13:105490265..105490298,-p@chr13:105490265..105490298
-
Hg19::chr13:105490330..105490339,-p@chr13:105490330..105490339
-
Hg19::chr13:105493631..105493638,-p@chr13:105493631..105493638
-
Hg19::chr13:105493668..105493673,-p@chr13:105493668..105493673
-
Hg19::chr14:22433576..22433585,+p3@TRAV12-3
Hg19::chr14:22433621..22433634,+p1@TRAV12-3
Hg19::chr14:22433639..22433648,+p2@TRAV12-3
Hg19::chr14:22433668..22433669,+p5@TRAV12-3
Hg19::chr14:22433675..22433678,+p4@TRAV12-3
Hg19::chr14:22433688..22433700,+p1@uc010tmk.1
Hg19::chr14:22782730..22782741,-p@chr14:22782730..22782741
-
Hg19::chr14:22782867..22782896,+p1@uc001wdq.2
Hg19::chr15:100656334..100656337,-p@chr15:100656334..100656337
-
Hg19::chr15:100875730..100875747,-p@chr15:100875730..100875747
-
Hg19::chr15:100875760..100875766,-p@chr15:100875760..100875766
-
Hg19::chr15:100875799..100875802,-p@chr15:100875799..100875802
-
Hg19::chr15:100879294..100879309,-p4@ADAMTS17
Hg19::chr15:100879323..100879339,-p3@ADAMTS17
Hg19::chr15:23749153..23749162,+p@chr15:23749153..23749162
+
Hg19::chr15:23749170..23749178,+p@chr15:23749170..23749178
+
Hg19::chr15:58702742..58702777,+p1@LIPC
Hg19::chr15:93774987..93775010,+p@chr15:93774987..93775010
+
Hg19::chr15:99816268..99816283,+p@chr15:99816268..99816283
+
Hg19::chr16:70729549..70729555,-p9@VAC14
Hg19::chr17:54889185..54889192,-p@chr17:54889185..54889192
-
Hg19::chr17:66177017..66177028,+p@chr17:66177017..66177028
+
Hg19::chr17:78695021..78695044,+p1@BC127818
Hg19::chr18:13612668..13612678,+p@chr18:13612668..13612678
+
Hg19::chr18:66382562..66382574,+p5@CCDC102B
Hg19::chr18:76438418..76438431,-p@chr18:76438418..76438431
-
Hg19::chr1:151798753..151798775,+p@chr1:151798753..151798775
+
Hg19::chr1:158218146..158218178,+p@chr1:158218146..158218178
+
Hg19::chr1:158223689..158223707,+p15@CD1A
Hg19::chr1:158301588..158301605,-p17@CD1B
Hg19::chr1:199147944..199147956,-p@chr1:199147944..199147956
-
Hg19::chr1:199147989..199147994,-p@chr1:199147989..199147994
-
Hg19::chr1:199253025..199253034,-p@chr1:199253025..199253034
-
Hg19::chr1:199253117..199253122,-p@chr1:199253117..199253122
-
Hg19::chr1:31971796..31971801,+p1@uc001bsx.2
p2@uc001bsw.1
Hg19::chr1:31971816..31971824,+p1@uc001bsw.1
Hg19::chr1:31971828..31971840,+p1@LOC149086
Hg19::chr1:31978612..31978615,+p@chr1:31978612..31978615
+
Hg19::chr1:31993101..31993106,+p@chr1:31993101..31993106
+
Hg19::chr1:31999815..31999818,+p@chr1:31999815..31999818
+
Hg19::chr20:30272415..30272424,-p@chr20:30272415..30272424
-
Hg19::chr20:43251533..43251545,-p@chr20:43251533..43251545
-
Hg19::chr20:61638313..61638318,-p1@BHLHE23
Hg19::chr20:61638491..61638530,+p@chr20:61638491..61638530
+
Hg19::chr20:61639423..61639436,+p@chr20:61639423..61639436
+
Hg19::chr20:61644926..61644929,+p@chr20:61644926..61644929
+
Hg19::chr21:47052212..47052255,+p@chr21:47052212..47052255
+
Hg19::chr22:20088313..20088348,+p@chr22:20088313..20088348
+
Hg19::chr22:24823536..24823551,-p@chr22:24823536..24823551
-
Hg19::chr22:41080903..41080912,-p@chr22:41080903..41080912
-
Hg19::chr22:41080919..41080941,-p@chr22:41080919..41080941
-
Hg19::chr2:128399735..128399738,-p54@LIMS2
Hg19::chr2:128399756..128399791,-p12@LIMS2
Hg19::chr2:128399812..128399825,-p31@LIMS2
Hg19::chr2:132162757..132162798,+p@chr2:132162757..132162798
+
Hg19::chr2:147655803..147655815,-p@chr2:147655803..147655815
-
Hg19::chr2:156002395..156002400,-p@chr2:156002395..156002400
-
Hg19::chr2:40146823..40146848,+p1@ENST00000418854
Hg19::chr3:109282218..109282225,+p@chr3:109282218..109282225
+
Hg19::chr3:140950191..140950210,+p2@ACPL2
Hg19::chr3:141685754..141685759,-p@chr3:141685754..141685759
-
Hg19::chr3:141868293..141868355,-p2@TFDP2
Hg19::chr3:45920084..45920088,-p@chr3:45920084..45920088
-
Hg19::chr3:45957190..45957235,-p2@LZTFL1
Hg19::chr3:69435554..69435561,-p41@FRMD4B
Hg19::chr4:169433194..169433201,+p48@PALLD
Hg19::chr4:8231045..8231053,+p@chr4:8231045..8231053
+
Hg19::chr4:8231096..8231103,+p@chr4:8231096..8231103
+
Hg19::chr5:150591651..150591662,+p13@GM2A
Hg19::chr5:150591663..150591668,+p20@GM2A
Hg19::chr5:150591678..150591733,+p7@GM2A
Hg19::chr5:150591738..150591749,+p14@GM2A
Hg19::chr5:150592248..150592272,+p@chr5:150592248..150592272
+
Hg19::chr5:150592285..150592315,+p@chr5:150592285..150592315
+
Hg19::chr5:150595990..150595994,+p@chr5:150595990..150595994
+
Hg19::chr5:61434588..61434602,-p@chr5:61434588..61434602
-
Hg19::chr6:150312342..150312382,-p@chr6:150312342..150312382
-
Hg19::chr6:25094713..25094717,-p@chr6:25094713..25094717
-
Hg19::chr6:25167681..25167698,-p@chr6:25167681..25167698
-
Hg19::chr6:25167706..25167719,-p@chr6:25167706..25167719
-
Hg19::chr6:41978449..41978456,+p@chr6:41978449..41978456
+
Hg19::chr7:133168808..133168816,-p@chr7:133168808..133168816
-
Hg19::chr7:133168901..133168912,-p@chr7:133168901..133168912
-
Hg19::chr7:133168986..133168997,-p@chr7:133168986..133168997
-
Hg19::chr7:133169045..133169060,-p@chr7:133169045..133169060
-
Hg19::chr7:142045038..142045063,+p2@TRBV4-2
Hg19::chr7:142045246..142045258,+p1@TRBV4-2
Hg19::chr7:142045295..142045317,+p1@uc003vxp.3
Hg19::chr7:142045601..142045622,+p1@S82067
Hg19::chr7:142494672..142494705,+p1@TRBJ2-4
Hg19::chr7:38403077..38403086,-p1@TRGV2
Hg19::chr7:49618973..49619001,+p@chr7:49618973..49619001
+
Hg19::chr7:49619037..49619042,+p@chr7:49619037..49619042
+
Hg19::chr8:124084747..124084757,+p6@WDR67
Hg19::chr8:130253461..130253480,-p2@LOC728724
Hg19::chr8:130253482..130253510,-p1@LOC728724
Hg19::chr8:130253513..130253524,-p1@ENST00000509893
p1@uc003ysp.1
p1@uc010mdr.1
Hg19::chr8:130427796..130427799,+p3@ENST00000519048
Hg19::chr8:134072500..134072514,-p6@SLA
Hg19::chr8:2162920..2162931,+p@chr8:2162920..2162931
+
Hg19::chr8:61969632..61969641,+p8@CLVS1
Hg19::chr9:112179928..112179940,-p9@PTPN3
Hg19::chr9:112179990..112179998,-p17@PTPN3
Hg19::chr9:136568685..136568722,-p4@SARDH


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

p.valueFDRnGenesnPathwayName
1.63118747922973e-060.00103254167435242488Hematopoietic cell lineage (KEGG):04640
8.45420275641347e-060.002675755172404864133T Cell Receptor Signaling Pathway (Wikipathways):WP69



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

GO IDGO nameFDR corrected p-value
GO:0042101T cell receptor complex0.00668629716819874
GO:0001772immunological synapse0.00687743094890173
GO:0044242cellular lipid catabolic process0.023972953605579
GO:0030290sphingolipid activator protein activity0.023972953605579
GO:0032428beta-N-acetylgalactosaminidase activity0.023972953605579
GO:0043395heparan sulfate proteoglycan binding0.023972953605579
GO:0043394proteoglycan binding0.023972953605579
GO:0044248cellular catabolic process0.023972953605579
GO:0005889hydrogen:potassium-exchanging ATPase complex0.023972953605579
GO:0051371muscle alpha-actinin binding0.023972953605579
GO:0043368positive T cell selection0.023972953605579
GO:0016004phospholipase activator activity0.023972953605579
GO:0046337phosphatidylethanolamine metabolic process0.023972953605579
GO:0045179apical cortex0.023972953605579
GO:0009313oligosaccharide catabolic process0.023972953605579
GO:0045059positive thymic T cell selection0.023972953605579
GO:0005319lipid transporter activity0.0244925688648456
GO:0042110T cell activation0.0244925688648456
GO:0046982protein heterodimerization activity0.0244925688648456
GO:0019898extrinsic to membrane0.0244925688648456
GO:0051393alpha-actinin binding0.0244925688648456
GO:0046461neutral lipid catabolic process0.0244925688648456
GO:0042608T cell receptor binding0.0244925688648456
GO:0043235receptor complex0.0244925688648456
GO:0009056catabolic process0.0252198311256358
GO:0008480sarcosine dehydrogenase activity0.0264389011852018
GO:0004563beta-N-acetylhexosaminidase activity0.0264389011852018
GO:0006689ganglioside catabolic process0.0264389011852018
GO:0046473phosphatidic acid metabolic process0.0264389011852018
GO:0006869lipid transport0.0290350396039018
GO:0046479glycosphingolipid catabolic process0.0290350396039018
GO:0045061thymic T cell selection0.0290350396039018
GO:0042805actinin binding0.0290350396039018
GO:0016042lipid catabolic process0.0301622994414704
GO:0001948glycoprotein binding0.0311582336324494
GO:0009898internal side of plasma membrane0.0311582336324494
GO:0046649lymphocyte activation0.0311582336324494
GO:0046470phosphatidylcholine metabolic process0.0343771378066479
GO:0019377glycolipid catabolic process0.0343771378066479
GO:0008092cytoskeletal protein binding0.0350739049383545
GO:0019915sequestering of lipid0.0350739049383545
GO:0001573ganglioside metabolic process0.0350739049383545
GO:0006658phosphatidylserine metabolic process0.0350739049383545
GO:0045321leukocyte activation0.0350739049383545
GO:0045058T cell selection0.0366564909979633
GO:0033077T cell differentiation in the thymus0.0366564909979633
GO:0015012heparan sulfate proteoglycan biosynthetic process0.0366564909979633
GO:0005768endosome0.036817275616302
GO:0001775cell activation0.0420860864985067
GO:0002376immune system process0.043307848271674
GO:0004047aminomethyltransferase activity0.043307848271674
GO:0000209protein polyubiquitination0.043307848271674
GO:0030201heparan sulfate proteoglycan metabolic process0.043307848271674
GO:0044459plasma membrane part0.0456633991087196



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>

Uber Anatomy
Ontology termp-valuen
adult organism7.42e-22115
blood4.81e-0915
haemolymphatic fluid4.81e-0915
organism substance4.81e-0915
neural tube2.63e-0857
neural rod2.63e-0857
future spinal cord2.63e-0857
neural keel2.63e-0857
central nervous system7.99e-0882
anterior neural tube3.88e-0742
regional part of forebrain4.34e-0741
forebrain4.34e-0741
future forebrain4.34e-0741
regional part of brain7.93e-0759
Disease
Ontology termp-valuen
hematologic cancer8.64e-0951
immune system cancer8.64e-0951


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

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

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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