Personal tools

Coexpression cluster:C184

From FANTOM5_SSTAR

Revision as of 14:31, 5 September 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Full id: C184_somatostatinoma_smallcell_nonsmall_small_gastrointestinal_pineal_thyroid



Phase1 CAGE Peaks

Hg19::chr10:120200137..120200154,+p@chr10:120200137..120200154
+
Hg19::chr11:14993703..14993738,-p@chr11:14993703..14993738
-
Hg19::chr11:14993888..14993903,-p1@CALCA
Hg19::chr11:31531350..31531361,+p5@ELP4
Hg19::chr11:31531366..31531387,+p4@ELP4
Hg19::chr11:45307765..45307784,-p2@SYT13
Hg19::chr11:45307785..45307803,-p3@SYT13
Hg19::chr12:127385138..127385144,-p@chr12:127385138..127385144
-
Hg19::chr12:128045165..128045171,+p@chr12:128045165..128045171
+
Hg19::chr12:128108552..128108561,+p1@ENST00000537470
Hg19::chr12:67253036..67253040,-p@chr12:67253036..67253040
-
Hg19::chr12:70464593..70464598,+p@chr12:70464593..70464598
+
Hg19::chr12:70464652..70464662,+p@chr12:70464652..70464662
+
Hg19::chr12:70464665..70464668,+p@chr12:70464665..70464668
+
Hg19::chr12:70464675..70464680,+p@chr12:70464675..70464680
+
Hg19::chr13:110354471..110354477,-p@chr13:110354471..110354477
-
Hg19::chr13:24246893..24246939,+p@chr13:24246893..24246939
+
Hg19::chr13:93591283..93591289,-p@chr13:93591283..93591289
-
Hg19::chr13:97500658..97500682,-p@chr13:97500658..97500682
-
Hg19::chr15:59908698..59908705,+p22@GCNT3
Hg19::chr15:59908719..59908730,+p6@GCNT3
Hg19::chr15:59908741..59908754,+p12@GCNT3
Hg19::chr15:59908762..59908770,+p18@GCNT3
Hg19::chr15:59908801..59908817,+p10@GCNT3
Hg19::chr15:59908820..59908829,+p20@GCNT3
Hg19::chr15:59908955..59908965,+p16@GCNT3
Hg19::chr15:59909013..59909022,+p19@GCNT3
Hg19::chr15:59910132..59910144,+p9@GCNT3
Hg19::chr15:59910171..59910184,+p15@GCNT3
Hg19::chr15:59910206..59910219,+p17@GCNT3
Hg19::chr15:92459135..92459153,+p@chr15:92459135..92459153
+
Hg19::chr15:92459179..92459184,+p@chr15:92459179..92459184
+
Hg19::chr16:735282..735294,+p@chr16:735282..735294
+
Hg19::chr16:735529..735579,+p@chr16:735529..735579
+
Hg19::chr16:736123..736159,-p@chr16:736123..736159
-
Hg19::chr17:34037239..34037263,+p@chr17:34037239..34037263
+
Hg19::chr18:30950056..30950073,-p@chr18:30950056..30950073
-
Hg19::chr18:56813724..56813731,+p@chr18:56813724..56813731
+
Hg19::chr18:56813732..56813760,+p@chr18:56813732..56813760
+
Hg19::chr18:56815158..56815162,+p@chr18:56815158..56815162
+
Hg19::chr18:56815628..56815675,+p@chr18:56815628..56815675
+
Hg19::chr18:56815879..56815901,+p@chr18:56815879..56815901
+
Hg19::chr18:7955176..7955183,+p@chr18:7955176..7955183
+
Hg19::chr18:7955199..7955220,+p@chr18:7955199..7955220
+
Hg19::chr18:7955240..7955261,+p@chr18:7955240..7955261
+
Hg19::chr18:7955271..7955280,+p@chr18:7955271..7955280
+
Hg19::chr18:7955315..7955339,+p@chr18:7955315..7955339
+
Hg19::chr19:7570269..7570273,+p13@C19orf45
Hg19::chr19:7570395..7570427,+p5@C19orf45
Hg19::chr1:110661599..110661609,-p@chr1:110661599..110661609
-
Hg19::chr1:110678110..110678115,+p@chr1:110678110..110678115
+
Hg19::chr1:110678156..110678168,+p@chr1:110678156..110678168
+
Hg19::chr1:110678228..110678236,+p@chr1:110678228..110678236
+
Hg19::chr1:155954237..155954260,-p@chr1:155954237..155954260
-
Hg19::chr1:155954270..155954294,-p@chr1:155954270..155954294
-
Hg19::chr1:155954306..155954320,-p@chr1:155954306..155954320
-
Hg19::chr1:155954331..155954340,-p@chr1:155954331..155954340
-
Hg19::chr1:193186112..193186120,-p@chr1:193186112..193186120
-
Hg19::chr1:193186161..193186169,-p@chr1:193186161..193186169
-
Hg19::chr1:193186195..193186210,-p@chr1:193186195..193186210
-
Hg19::chr1:193232079..193232084,+p@chr1:193232079..193232084
+
Hg19::chr1:193232096..193232117,+p@chr1:193232096..193232117
+
Hg19::chr1:193232144..193232147,+p@chr1:193232144..193232147
+
Hg19::chr1:55446510..55446545,+p4@TMEM61
Hg19::chr1:6534313..6534324,-p@chr1:6534313..6534324
-
Hg19::chr20:20173664..20173680,+p@chr20:20173664..20173680
+
Hg19::chr20:401500..401515,+p@chr20:401500..401515
+
Hg19::chr20:401531..401574,+p@chr20:401531..401574
+
Hg19::chr2:42182201..42182213,-p@chr2:42182201..42182213
-
Hg19::chr2:42182357..42182372,+p@chr2:42182357..42182372
+
Hg19::chr2:8712183..8712192,-p@chr2:8712183..8712192
-
Hg19::chr4:139208173..139208199,-p@chr4:139208173..139208199
-
Hg19::chr4:173014804..173014812,+p@chr4:173014804..173014812
+
Hg19::chr4:39034552..39034578,-p4@TMEM156
Hg19::chr4:59982412..59982425,+p@chr4:59982412..59982425
+
Hg19::chr6:107596741..107596750,+p@chr6:107596741..107596750
+
Hg19::chr6:107596755..107596774,+p@chr6:107596755..107596774
+
Hg19::chr6:137243349..137243360,+p3@SLC35D3
Hg19::chr6:137243373..137243391,+p1@SLC35D3
Hg19::chr6:154858221..154858224,-p@chr6:154858221..154858224
-
Hg19::chr6:154858237..154858245,-p@chr6:154858237..154858245
-
Hg19::chr6:161970049..161970057,-p3@GU361471
Hg19::chr6:48078977..48078989,-p5@C6orf138
Hg19::chr6:50692227..50692236,+p@chr6:50692227..50692236
+
Hg19::chr6:50692244..50692251,+p@chr6:50692244..50692251
+
Hg19::chr7:129330290..129330300,+p@chr7:129330290..129330300
+
Hg19::chr8:10004983..10005007,-p@chr8:10004983..10005007
-
Hg19::chr9:77257424..77257435,-p@chr9:77257424..77257435
-
Hg19::chr9:77257468..77257474,-p@chr9:77257468..77257474
-
Hg19::chr9:77257481..77257492,-p@chr9:77257481..77257492
-
Hg19::chr9:77257683..77257703,+p@chr9:77257683..77257703
+
Hg19::chr9:96678236..96678246,-p@chr9:96678236..96678246
-


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

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

GO IDGO nameFDR corrected p-value
GO:0031716calcitonin receptor binding0.0137489753507221
GO:0033588Elongator holoenzyme complex0.0137489753507221
GO:0001984vasodilation of artery during baroreceptor response to increased systemic arterial blood pressure0.0137489753507221
GO:0001983baroreceptor response to increased systemic arterial blood pressure0.0137489753507221
GO:0003829beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity0.0137489753507221
GO:0050961detection of temperature stimulus during sensory perception0.0137489753507221
GO:0045932negative regulation of muscle contraction0.0137489753507221
GO:0050965detection of temperature stimulus during sensory perception of pain0.0137489753507221
GO:0045986negative regulation of smooth muscle contraction0.0137489753507221
GO:0043195terminal button0.0137489753507221
GO:0004406H3/H4 histone acetyltransferase activity0.0137489753507221
GO:0008109N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity0.0137489753507221
GO:0001978carotid sinus baroreceptor feedback regulation of systemic arterial blood pressure0.0137489753507221
GO:0033267axon part0.0137489753507221
GO:0016048detection of temperature stimulus0.0137489753507221
GO:0050951sensory perception of temperature stimulus0.0137489753507221
GO:0003025baroreceptor regulation of systemic arterial blood pressure0.0137489753507221
GO:0016021integral to membrane0.0137489753507221
GO:0031224intrinsic to membrane0.0137489753507221
GO:0048265response to pain0.0137489753507221
GO:0003085negative regulation of systemic arterial blood pressure0.0137489753507221
GO:0008607phosphorylase kinase regulator activity0.0137489753507221
GO:0002027regulation of heart rate0.0139590597962431
GO:0051482elevation of cytosolic calcium ion concentration during G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.0139590597962431
GO:0045778positive regulation of ossification0.0139590597962431
GO:0016944RNA polymerase II transcription elongation factor activity0.0139590597962431
GO:0031645negative regulation of neurological process0.0151207568562064
GO:0046852positive regulation of bone remodeling0.0151207568562064
GO:0001976regulation of systemic arterial blood pressure by neurological process0.0156069152171386
GO:0045776negative regulation of blood pressure0.0156069152171386
GO:0030279negative regulation of ossification0.0156069152171386
GO:0044425membrane part0.0201527026644171
GO:0046851negative regulation of bone remodeling0.0201527026644171
GO:0033555multicellular organismal response to stress0.0207263588466125
GO:0008023transcription elongation factor complex0.0207263588466125
GO:0009408response to heat0.0218275968006529
GO:0019233sensory perception of pain0.0244999460665658
GO:0007202phospholipase C activation0.0247905539309607
GO:0003073regulation of systemic arterial blood pressure0.0247905539309607
GO:0003711transcription elongation regulator activity0.0271865372509221
GO:0042311vasodilation0.0273275662456433
GO:0030278regulation of ossification0.0273275662456433
GO:0006940regulation of smooth muscle contraction0.0280939917086146
GO:0007190adenylate cyclase activation0.0301823823024857
GO:0046850regulation of bone remodeling0.0301823823024857
GO:0051241negative regulation of multicellular organismal process0.0301823823024857
GO:0031644regulation of neurological process0.0301823823024857
GO:0004468lysine N-acetyltransferase activity0.0301823823024857
GO:0004402histone acetyltransferase activity0.0301823823024857
GO:0051349positive regulation of lyase activity0.0301823823024857
GO:0045762positive regulation of adenylate cyclase activity0.0301823823024857
GO:0031281positive regulation of cyclase activity0.0301823823024857
GO:0009266response to temperature stimulus0.0330195727456264
GO:0006493protein amino acid O-linked glycosylation0.0335221671514171
GO:0030424axon0.0372856665626736
GO:0043025cell soma0.0376930235471054
GO:0007189G-protein signaling, adenylate cyclase activating pathway0.0377782978616244
GO:0007631feeding behavior0.0377782978616244
GO:0016020membrane0.0377782978616244
GO:0006937regulation of muscle contraction0.0377782978616244
GO:0006939smooth muscle contraction0.0377782978616244
GO:0045761regulation of adenylate cyclase activity0.0377782978616244
GO:0031279regulation of cyclase activity0.0377782978616244
GO:0035150regulation of tube size0.0377782978616244
GO:0050880regulation of blood vessel size0.0377782978616244
GO:0051339regulation of lyase activity0.0377782978616244
GO:0008016regulation of heart contraction0.0377782978616244
GO:0003018vascular process in circulatory system0.0381050662887932
GO:0008375acetylglucosaminyltransferase activity0.0382569587600429
GO:0009582detection of abiotic stimulus0.0382569587600429
GO:0050906detection of stimulus during sensory perception0.0382569587600429
GO:0003015heart process0.0382569587600429
GO:0044463cell projection part0.0382569587600429
GO:0060047heart contraction0.0382569587600429
GO:0009581detection of external stimulus0.0401438385172046
GO:0008217regulation of blood pressure0.0435547660791225
GO:0030133transport vesicle0.0492015448315908



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>

Uber Anatomy
Ontology termp-valuen
adult organism1.71e-23115
neural tube4.00e-1357
neural rod4.00e-1357
future spinal cord4.00e-1357
neural keel4.00e-1357
subdivision of digestive tract5.90e-12129
endodermal part of digestive tract5.90e-12129
regional part of brain8.64e-1259
central nervous system8.87e-1282
anterior neural tube9.46e-1242
regional part of forebrain1.94e-1141
forebrain1.94e-1141
future forebrain1.94e-1141
regional part of nervous system2.50e-1194
nervous system2.50e-1194
anatomical conduit5.72e-10241
brain9.89e-1069
future brain9.89e-1069
endoderm-derived structure1.78e-09169
endoderm1.78e-09169
presumptive endoderm1.78e-09169
digestive system1.95e-09155
digestive tract1.95e-09155
primitive gut1.95e-09155
tube2.72e-09194
anatomical cluster4.56e-09286
gray matter5.07e-0934
brain grey matter5.07e-0934
neural plate6.23e-0986
presumptive neural plate6.23e-0986
neurectoderm8.76e-0990
telencephalon9.46e-0934
cerebral hemisphere1.10e-0832
foregut1.11e-0898
mixed endoderm/mesoderm-derived structure1.13e-08130
regional part of telencephalon1.95e-0833
immaterial anatomical entity4.99e-08126
multi-tissue structure8.12e-08347
neocortex1.18e-0720
regional part of cerebral cortex1.18e-0722
pre-chordal neural plate1.29e-0761
trunk region element2.35e-07107
Disease
Ontology termp-valuen
carcinoma1.87e-14106
cell type cancer5.47e-12143


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

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

TF#promotersEnrichmentp-valueq-value
ESR1#209993.009972061580330.003090122978166250.0162871235789405
NR3C1#2908132.115753296796190.008118307284096510.0320615577403576



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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C184&oldid=2133439"