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Coexpression cluster:C70: Difference between revisions

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|pathway_enrichment=7.11110300328319e-12;4.50132820107826e-09;7;89;Salivary secretion (KEGG):04970
|pathway_enrichment=7.11110300328319e-12;4.50132820107826e-09;7;89;Salivary secretion (KEGG):04970
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}}
}}

Revision as of 13:19, 26 November 2012


Full id: C70_parotid_submaxillary_salivary_throat_trachea_aorta_tongue



Phase1 CAGE Peaks

Hg19::chr10:124320156..124320170,+p2@DMBT1
Hg19::chr10:124320195..124320216,+p3@DMBT1
Hg19::chr10:5541512..5541523,-p2@CALML5
Hg19::chr10:5541525..5541539,-p1@CALML5
Hg19::chr10:55624430..55624435,-p@chr10:55624430..55624435
-
Hg19::chr10:99569253..99569259,+p@chr10:99569253..99569259
+
Hg19::chr11:111114722..111114730,+p@chr11:111114722..111114730
+
Hg19::chr11:114549168..114549178,+p2@FAM55B
Hg19::chr11:18747734..18747737,-p1@IGSF22
Hg19::chr11:2476301..2476302,-p@chr11:2476301..2476302
-
Hg19::chr11:34654104..34654118,+p5@EHF
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Hg19::chr12:11506888..11506910,+p@chr12:11506888..11506910
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Hg19::chr12:11506903..11506911,-p@chr12:11506903..11506911
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Hg19::chr12:11544505..11544549,-p@chr12:11544505..11544549
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Hg19::chr12:11546872..11546887,+p@chr12:11546872..11546887
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Hg19::chr12:11546877..11546885,-p4@PRB2
Hg19::chr12:11546891..11546902,-p8@PRB2
Hg19::chr12:11547447..11547455,-p@chr12:11547447..11547455
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Hg19::chr12:11548496..11548505,-p10@PRB2
p1@PRB1
Hg19::chr12:19872772..19872786,+p@chr12:19872772..19872786
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Hg19::chr12:52450779..52450791,+p51@NR4A1
Hg19::chr12:55224189..55224198,+p9@MUCL1
Hg19::chr12:55224312..55224339,+p6@MUCL1
Hg19::chr12:55224343..55224377,+p4@MUCL1
Hg19::chr12:55224381..55224392,+p7@MUCL1
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Hg19::chr14:87710658..87710659,-p@chr14:87710658..87710659
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Hg19::chr15:36046765..36046769,+p@chr15:36046765..36046769
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Hg19::chr15:63682381..63682392,+p1@ENST00000559821
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Hg19::chr15:87737827..87737835,+p@chr15:87737827..87737835
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Hg19::chr16:16196292..16196300,+p@chr16:16196292..16196300
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Hg19::chr16:2533030..2533043,+p@chr16:2533030..2533043
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Hg19::chr17:56315898..56315927,+p3@LPO
Hg19::chr17:56320348..56320371,+p@chr17:56320348..56320371
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Hg19::chr17:68473195..68473200,-p@chr17:68473195..68473200
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Hg19::chr17:80849228..80849258,+p@chr17:80849228..80849258
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Hg19::chr18:20911174..20911182,-p13@TMEM241
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Hg19::chr18:59327320..59327325,+p@chr18:59327320..59327325
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Hg19::chr18:71497412..71497417,+p@chr18:71497412..71497417
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Hg19::chr1:104103993..104104023,+p4@AMY2B
Hg19::chr1:104104405..104104433,+p1@AMY2B
Hg19::chr1:104113700..104113710,+p2@AMY2B
Hg19::chr1:104159271..104159273,+p@chr1:104159271..104159273
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Hg19::chr1:104159538..104159544,+p1@AMY2A
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Hg19::chr1:27652420..27652431,+p@chr1:27652420..27652431
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Hg19::chr1:27652675..27652684,+p@chr1:27652675..27652684
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Hg19::chr1:65506801..65506806,+p@chr1:65506801..65506806
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Hg19::chr1:73249728..73249729,+p@chr1:73249728..73249729
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Hg19::chr1:84873943..84873958,+p2@DNASE2B
Hg19::chr1:9005917..9005935,+p1@CA6
Hg19::chr1:9009379..9009420,-p@chr1:9009379..9009420
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Hg19::chr1:9009432..9009443,+p@chr1:9009432..9009443
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Hg19::chr1:9009454..9009492,-p@chr1:9009454..9009492
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Hg19::chr1:9009469..9009476,+p@chr1:9009469..9009476
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Hg19::chr1:9017232..9017246,+p@chr1:9017232..9017246
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Hg19::chr1:9017236..9017243,-p@chr1:9017236..9017243
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Hg19::chr1:9017270..9017274,-p@chr1:9017270..9017274
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Hg19::chr1:9017276..9017317,+p@chr1:9017276..9017317
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Hg19::chr1:9019023..9019038,+p@chr1:9019023..9019038
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Hg19::chr1:9027764..9027769,+p@chr1:9027764..9027769
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Hg19::chr20:10412881..10412883,+p@chr20:10412881..10412883
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Hg19::chr20:23858235..23858249,-p@chr20:23858235..23858249
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Hg19::chr20:23860113..23860123,+p@chr20:23860113..23860123
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Hg19::chr20:25647072..25647079,+p@chr20:25647072..25647079
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Hg19::chr20:3148921..3148942,-p3@ProSAPiP1
Hg19::chr20:31749574..31749588,+p3@BPIFA2
Hg19::chr20:31749597..31749606,+p10@BPIFA2
Hg19::chr20:38579074..38579083,-p@chr20:38579074..38579083
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Hg19::chr22:36726420..36726440,-p@chr22:36726420..36726440
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Hg19::chr22:37620034..37620039,-p@chr22:37620034..37620039
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Hg19::chr2:168823560..168823568,-p@chr2:168823560..168823568
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Hg19::chr2:168975262..168975272,-p@chr2:168975262..168975272
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Hg19::chr2:207365716..207365733,+p@chr2:207365716..207365733
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Hg19::chr2:235903480..235903488,+p21@SH3BP4
Hg19::chr2:235903499..235903512,+p17@SH3BP4
Hg19::chr2:64121005..64121007,+p@chr2:64121005..64121007
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Hg19::chr3:109825435..109825440,-p@chr3:109825435..109825440
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Hg19::chr3:12113249..12113261,+p@chr3:12113249..12113261
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Hg19::chr3:141482175..141482178,-p@chr3:141482175..141482178
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Hg19::chr3:193523505..193523508,-p@chr3:193523505..193523508
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Hg19::chr3:306739..306742,-p@chr3:306739..306742
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Hg19::chr3:42897816..42897822,+p@chr3:42897816..42897822
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Hg19::chr3:46982400..46982405,+p@chr3:46982400..46982405
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Hg19::chr3:55350938..55350945,+p@chr3:55350938..55350945
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Hg19::chr3:58643295..58643304,-p8@FAM3D
Hg19::chr3:58643458..58643478,-p4@FAM3D
Hg19::chr3:58643483..58643499,-p1@FAM3D
Hg19::chr3:58643515..58643526,-p5@FAM3D
Hg19::chr3:58643556..58643567,-p7@FAM3D
Hg19::chr3:60043839..60043846,+p@chr3:60043839..60043846
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Hg19::chr4:106092013..106092016,+p@chr4:106092013..106092016
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Hg19::chr4:146782922..146782938,-p@chr4:146782922..146782938
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Hg19::chr4:155178848..155178852,+p@chr4:155178848..155178852
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Hg19::chr4:156244563..156244567,-p@chr4:156244563..156244567
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Hg19::chr4:70852605..70852642,+p@chr4:70852605..70852642
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Hg19::chr4:70866654..70866668,-p@chr4:70866654..70866668
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Hg19::chr4:70867928..70867979,-p@chr4:70867928..70867979
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Hg19::chr4:70893956..70893962,+p3@HTN3
Hg19::chr4:70894169..70894188,+p1@HTN3
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Hg19::chr4:70898882..70898894,+p@chr4:70898882..70898894
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Hg19::chr4:70898896..70898917,+p@chr4:70898896..70898917
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Hg19::chr4:70902060..70902081,+p@chr4:70902060..70902081
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Hg19::chr4:70902243..70902249,-p@chr4:70902243..70902249
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Hg19::chr4:70916611..70916657,+p@chr4:70916611..70916657
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Hg19::chr4:78231986..78232005,+p@chr4:78231986..78232005
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Hg19::chr5:125674621..125674626,-p@chr5:125674621..125674626
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Hg19::chr5:131707604..131707608,-p@chr5:131707604..131707608
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Hg19::chr5:156806517..156806530,-p@chr5:156806517..156806530
-
Hg19::chr5:159266819..159266827,-p@chr5:159266819..159266827
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Hg19::chr5:34043310..34043325,-p1@C1QTNF3
Hg19::chr5:34043331..34043343,-p2@C1QTNF3
Hg19::chr5:52450586..52450589,-p@chr5:52450586..52450589
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Hg19::chr5:59784072..59784083,+p4@PART1
Hg19::chr5:59784151..59784164,+p2@PART1
Hg19::chr6:143061489..143061496,-p@chr6:143061489..143061496
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Hg19::chr6:168151982..168152000,+p@chr6:168151982..168152000
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Hg19::chr6:89001385..89001386,+p@chr6:89001385..89001386
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Hg19::chr6:99243504..99243506,+p@chr6:99243504..99243506
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Hg19::chr7:109641728..109641729,-p@chr7:109641728..109641729
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Hg19::chr7:133817277..133817278,-p@chr7:133817277..133817278
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Hg19::chr7:14028488..14028516,-p2@ETV1
Hg19::chr7:14028526..14028538,-p11@ETV1
Hg19::chr7:152549181..152549213,+p@chr7:152549181..152549213
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Hg19::chr7:16031005..16031018,-p@chr7:16031005..16031018
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Hg19::chr7:16505146..16505160,-p4@SOSTDC1
Hg19::chr7:16505162..16505173,-p5@SOSTDC1
Hg19::chr7:18832834..18832859,+p18@HDAC9
Hg19::chr7:7529359..7529406,-p@chr7:7529359..7529406
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Hg19::chr7:84940118..84940122,+p@chr7:84940118..84940122
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Hg19::chr7:99573648..99573659,-p2@AZGP1
Hg19::chr8:140213621..140213625,-p@chr8:140213621..140213625
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Hg19::chr8:26443771..26443778,-p@chr8:26443771..26443778
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Hg19::chr8:50037424..50037430,+p@chr8:50037424..50037430
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Hg19::chr8:63858336..63858340,+p@chr8:63858336..63858340
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Hg19::chr9:112970436..112970458,-p2@C9orf152
Hg19::chr9:3971778..3971783,+p@chr9:3971778..3971783
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Hg19::chr9:3971860..3971870,+p@chr9:3971860..3971870
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Hg19::chrX:129565220..129565223,+p@chrX:129565220..129565223
+
Hg19::chrX:32229061..32229062,-p@chrX:32229061..32229062
-
Hg19::chrX:53171146..53171174,-p@chrX:53171146..53171174
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Hg19::chrX:53171462..53171470,-p@chrX:53171462..53171470
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Hg19::chrX:98177758..98177763,+p@chrX:98177758..98177763
+


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
7.11110300328319e-124.50132820107826e-09789Salivary secretion (KEGG):04970



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:0016160amylase activity0.00022124418135433
GO:0004556alpha-amylase activity0.00022124418135433
GO:0030855epithelial cell differentiation0.0304966580906272
GO:0030670phagocytic vesicle membrane0.0334073818158868
GO:0043152induction of bacterial agglutination0.0334073818158868
GO:0031404chloride ion binding0.0334073818158868
GO:0043168anion binding0.0334073818158868
GO:0002009morphogenesis of an epithelium0.0334073818158868
GO:0019731antibacterial humoral response0.0334073818158868
GO:0016889endodeoxyribonuclease activity, producing 3'-phosphomonoesters0.0334073818158868
GO:0046676negative regulation of insulin secretion0.0334073818158868
GO:0004531deoxyribonuclease II activity0.0334073818158868
GO:0045335phagocytic vesicle0.0394176904241146
GO:0019730antimicrobial humoral response0.0394176904241146
GO:0042742defense response to bacterium0.0394176904241146
GO:0007586digestion0.0394176904241146
GO:0009617response to bacterium0.0460006060396343



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>

Uber Anatomy
Ontology termp-valuen
major salivary gland9.38e-992
saliva-secreting gland2.58e-746
gland of oral region2.58e-746
gland of foregut2.58e-746
oral gland2.58e-746
oral cavity2.58e-746
parotid gland1.46e-501
cheek1.46e-501
parotid gland primordium1.46e-501
submandibular gland3.99e-501
submandibular gland primordium3.99e-501
gland of gut4.18e-4510
midface4.32e-262
open tracheal system trachea9.18e-262
oral opening3.99e-2122
mouth2.82e-1629
stomodeum2.82e-1629
exocrine gland2.73e-1531
exocrine system2.73e-1531
orifice2.66e-1336
respiratory system1.50e-1174
subdivision of head5.14e-1049
foregut5.98e-1087
anatomical space3.52e-0995
head7.15e-0956
gland1.83e-0859
trachea2.35e-087
respiratory airway2.35e-087
anatomical cavity3.25e-0861
anterior region of body4.28e-0862
craniocervical region4.28e-0862
adult organism8.86e-08114
immaterial anatomical entity1.34e-07117
subdivision of digestive tract1.75e-07118


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)

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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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