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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C113_thyroid_throat_lung_lymph_small_colon_trachea
|full_id=C113_thyroid_throat_lung_lymph_small_colon_trachea
|gostat_on_coexpression_clusters=GO:0030878!thyroid gland development!0.00244326503363639!7080;2304$GO:0006590!thyroid hormone generation!0.00244326503363639!7173;2304$GO:0042403!thyroid hormone metabolic process!0.00298269866463447!7173;2304$GO:0015108!chloride transmembrane transporter activity!0.0141994706185855!57835;5172$GO:0035270!endocrine system development!0.0141994706185855!7080;2304$GO:0048732!gland development!0.0230772003905823!7080;2304$GO:0031856!parathyroid hormone receptor binding!0.027514158822059!5741$GO:0060022!hard palate development!0.027514158822059!2304$GO:0015103!inorganic anion transmembrane transporter activity!0.027514158822059!57835;5172$GO:0006576!biogenic amine metabolic process!0.027514158822059!7173;2304$GO:0004996!thyroid-stimulating hormone receptor activity!0.027514158822059!7253$GO:0015111!iodide transmembrane transporter activity!0.027514158822059!5172$GO:0060023!soft palate development!0.027514158822059!2304$GO:0004447!iodide peroxidase activity!0.027514158822059!7173$GO:0021798!forebrain dorsal/ventral pattern formation!0.027514158822059!7080$GO:0008970!phospholipase A1 activity!0.027514158822059!9388$GO:0042445!hormone metabolic process!0.029257394218803!7173;2304$GO:0006575!amino acid derivative metabolic process!0.029257394218803!7173;2304$GO:0035081!induction of programmed cell death by hormones!0.0314350345810171!5741$GO:0008628!induction of apoptosis by hormones!0.0314350345810171!5741$GO:0060021!palate development!0.0314350345810171!2304$GO:0006357!regulation of transcription from RNA polymerase II promoter!0.0367889686043127!5316;7080;2304$GO:0021871!forebrain regionalization!0.0367889686043127!7080$GO:0007187!G-protein signaling, coupled to cyclic nucleotide second messenger!0.0367889686043127!5741;7253$GO:0019935!cyclic-nucleotide-mediated signaling!0.0383389715790313!5741;7253$GO:0048522!positive regulation of cellular process!0.0394759063720948!5741;7080;7253;2304$GO:0004465!lipoprotein lipase activity!0.0488536259329727!9388
|id=C113
|id=C113
}}
}}

Revision as of 17:33, 18 May 2012


Full id: C113_thyroid_throat_lung_lymph_small_colon_trachea



Phase1 CAGE Peaks

Hg19::chr10:24527799..24527819,+p20@KIAA1217
Hg19::chr10:95995120..95995126,+p@chr10:95995120..95995126
+
Hg19::chr10:95995491..95995500,+p@chr10:95995491..95995500
+
Hg19::chr11:114043484..114043494,-p@chr11:114043484..114043494
-
Hg19::chr11:13517531..13517550,-p1@PTH
Hg19::chr11:13517565..13517580,-p2@PTH
Hg19::chr12:101603978..101603992,-p2@SLC5A8
Hg19::chr12:132850184..132850187,-p@chr12:132850184..132850187
-
Hg19::chr14:104516015..104516028,+p7@TDRD9
Hg19::chr14:104516061..104516124,+p@chr14:104516061..104516124
+
Hg19::chr14:36575014..36575016,+p@chr14:36575014..36575016
+
Hg19::chr14:36988752..36988767,-p1@ENST00000521945
Hg19::chr14:36990386..36990397,-p16@NKX2-1
Hg19::chr14:36990398..36990415,-p10@NKX2-1
Hg19::chr14:36990416..36990438,-p4@NKX2-1
Hg19::chr14:36993892..36993912,+p@chr14:36993892..36993912
+
Hg19::chr14:81421242..81421243,+p13@TSHR
Hg19::chr14:81421428..81421431,+p11@TSHR
Hg19::chr14:81421522..81421524,+p12@TSHR
Hg19::chr14:81421861..81421875,+p5@TSHR
Hg19::chr14:81421921..81421989,+p1@TSHR
Hg19::chr15:40675222..40675233,+p4@C15orf23
Hg19::chr15:55806824..55806840,-p@chr15:55806824..55806840
-
Hg19::chr15:55806847..55806854,-p@chr15:55806847..55806854
-
Hg19::chr15:63908106..63908107,-p@chr15:63908106..63908107
-
Hg19::chr15:63908112..63908124,-p@chr15:63908112..63908124
-
Hg19::chr15:64235138..64235147,-p@chr15:64235138..64235147
-
Hg19::chr15:64235172..64235180,-p@chr15:64235172..64235180
-
Hg19::chr15:64235185..64235196,-p@chr15:64235185..64235196
-
Hg19::chr15:64235201..64235208,-p@chr15:64235201..64235208
-
Hg19::chr15:64421903..64421920,+p@chr15:64421903..64421920
+
Hg19::chr15:72448259..72448278,+p@chr15:72448259..72448278
+
Hg19::chr16:16103486..16103493,+p19@ABCC1
Hg19::chr16:56781652..56781694,+p4@AB385278
Hg19::chr16:56781737..56781741,+p8@AB385278
Hg19::chr16:56781814..56781829,+p3@AB385278
Hg19::chr16:64451926..64451964,+p@chr16:64451926..64451964
+
Hg19::chr16:66420782..66420796,+p@chr16:66420782..66420796
+
Hg19::chr16:66420861..66420868,+p@chr16:66420861..66420868
+
Hg19::chr17:41243516..41243529,-p@chr17:41243516..41243529
-
Hg19::chr17:41243533..41243543,-p@chr17:41243533..41243543
-
Hg19::chr18:45354061..45354074,+p@chr18:45354061..45354074
+
Hg19::chr18:45563449..45563457,+p@chr18:45563449..45563457
+
Hg19::chr18:45869268..45869275,+p@chr18:45869268..45869275
+
Hg19::chr18:45869281..45869293,+p@chr18:45869281..45869293
+
Hg19::chr18:47087250..47087279,+p2@LIPG
Hg19::chr18:47087304..47087313,+p8@LIPG
Hg19::chr18:47087321..47087336,+p5@LIPG
Hg19::chr18:47087361..47087374,+p3@LIPG
Hg19::chr18:53858147..53858168,-p1@ENST00000382897
Hg19::chr18:77941319..77941321,-p@chr18:77941319..77941321
-
Hg19::chr19:16495444..16495471,-p@chr19:16495444..16495471
-
Hg19::chr19:20068797..20068802,+p@chr19:20068797..20068802
+
Hg19::chr19:20069252..20069265,+p@chr19:20069252..20069265
+
Hg19::chr19:20358361..20358398,+p@chr19:20358361..20358398
+
Hg19::chr19:20382476..20382481,-p@chr19:20382476..20382481
-
Hg19::chr19:20382633..20382642,-p@chr19:20382633..20382642
-
Hg19::chr19:20386982..20386989,+p@chr19:20386982..20386989
+
Hg19::chr19:20386998..20387003,+p@chr19:20386998..20387003
+
Hg19::chr19:20387031..20387036,+p@chr19:20387031..20387036
+
Hg19::chr19:20387078..20387085,+p@chr19:20387078..20387085
+
Hg19::chr19:20468965..20468977,+p@chr19:20468965..20468977
+
Hg19::chr19:20473354..20473358,+p@chr19:20473354..20473358
+
Hg19::chr19:20473375..20473380,+p@chr19:20473375..20473380
+
Hg19::chr19:20473389..20473398,+p@chr19:20473389..20473398
+
Hg19::chr19:20473404..20473414,+p@chr19:20473404..20473414
+
Hg19::chr19:20473429..20473445,+p@chr19:20473429..20473445
+
Hg19::chr19:20473448..20473452,+p@chr19:20473448..20473452
+
Hg19::chr19:20473506..20473536,+p@chr19:20473506..20473536
+
Hg19::chr1:109720258..109720279,-p@chr1:109720258..109720279
-
Hg19::chr1:12678746..12678753,-p@chr1:12678746..12678753
-
Hg19::chr1:186316121..186316146,-p@chr1:186316121..186316146
-
Hg19::chr1:220961678..220961683,+p@chr1:220961678..220961683
+
Hg19::chr1:28261645..28261657,+p4@SMPDL3B
Hg19::chr1:36771641..36771644,+p11@SH3D21
Hg19::chr20:17953210..17953230,+p@chr20:17953210..17953230
+
Hg19::chr20:57452679..57452686,+p@chr20:57452679..57452686
+
Hg19::chr21:43770677..43770683,+p@chr21:43770677..43770683
+
Hg19::chr21:44440926..44440935,+p8@PKNOX1
Hg19::chr21:44441244..44441257,+p6@PKNOX1
Hg19::chr21:44448694..44448703,+p@chr21:44448694..44448703
+
Hg19::chr22:31522733..31522740,+p@chr22:31522733..31522740
+
Hg19::chr22:31522774..31522780,+p@chr22:31522774..31522780
+
Hg19::chr2:134788828..134788834,-p@chr2:134788828..134788834
-
Hg19::chr2:134788843..134788848,-p@chr2:134788843..134788848
-
Hg19::chr2:134788853..134788858,-p@chr2:134788853..134788858
-
Hg19::chr2:1417228..1417247,+p1@TPO
Hg19::chr2:1417430..1417444,+p@chr2:1417430..1417444
+
Hg19::chr2:1426812..1426834,+p5@TPO
Hg19::chr2:1426850..1426859,+p10@TPO
Hg19::chr2:1488557..1488560,+p22@TPO
Hg19::chr2:172309636..172309643,+p11@DCAF17
Hg19::chr2:24551030..24551033,-p16@ITSN2
Hg19::chr2:29338034..29338054,+p20@CLIP4
Hg19::chr2:74517717..74517732,-p9@SLC4A5
Hg19::chr2:85935758..85935760,-p@chr2:85935758..85935760
-
Hg19::chr2:85938623..85938632,+p@chr2:85938623..85938632
+
Hg19::chr3:164169090..164169105,+p@chr3:164169090..164169105
+
Hg19::chr3:164169110..164169124,+p@chr3:164169110..164169124
+
Hg19::chr3:193201843..193201848,-p@chr3:193201843..193201848
-
Hg19::chr3:193201889..193201922,-p@chr3:193201889..193201922
-
Hg19::chr3:193201963..193201996,-p@chr3:193201963..193201996
-
Hg19::chr3:37725131..37725145,+p4@ITGA9
Hg19::chr3:9391106..9391117,-p@chr3:9391106..9391117
-
Hg19::chr3:97686432..97686471,-p10@MINA
Hg19::chr4:109015207..109015232,-p@chr4:109015207..109015232
-
Hg19::chr4:173916930..173916942,-p1@uc003isx.1
Hg19::chr4:41131475..41131507,-p@chr4:41131475..41131507
-
Hg19::chr4:42457338..42457350,-p@chr4:42457338..42457350
-
Hg19::chr4:89658763..89658771,-p42@FAM13A
Hg19::chr4:89658773..89658782,-p38@FAM13A
Hg19::chr4:89658785..89658794,-p41@FAM13A
Hg19::chr5:125798031..125798049,+p27@GRAMD3
Hg19::chr5:156399340..156399369,-p@chr5:156399340..156399369
-
Hg19::chr5:90151468..90151479,+p@chr5:90151468..90151479
+
Hg19::chr5:90151510..90151524,+p@chr5:90151510..90151524
+
Hg19::chr5:90151536..90151543,+p@chr5:90151536..90151543
+
Hg19::chr5:90151567..90151577,+p@chr5:90151567..90151577
+
Hg19::chr6:150690053..150690058,+p3@IYD
Hg19::chr6:150690140..150690175,+p1@IYD
Hg19::chr6:150719834..150719836,+p@chr6:150719834..150719836
+
Hg19::chr6:152746723..152746726,-p@chr6:152746723..152746726
-
Hg19::chr6:152746788..152746797,-p@chr6:152746788..152746797
-
Hg19::chr6:152749469..152749476,-p@chr6:152749469..152749476
-
Hg19::chr6:43837195..43837213,-p@chr6:43837195..43837213
-
Hg19::chr6:43837226..43837237,-p@chr6:43837226..43837237
-
Hg19::chr6:46996835..46996871,-p6@GPR110
Hg19::chr7:107301045..107301057,+p9@SLC26A4
Hg19::chr7:107301065..107301076,+p8@SLC26A4
Hg19::chr7:107301236..107301244,+p10@SLC26A4
Hg19::chr7:107301340..107301345,+p13@SLC26A4
Hg19::chr7:107301406..107301418,+p5@SLC26A4
Hg19::chr7:107301420..107301434,+p7@SLC26A4
Hg19::chr7:107301447..107301451,+p23@SLC26A4
Hg19::chr7:107301483..107301492,+p14@SLC26A4
Hg19::chr7:107301517..107301529,+p12@SLC26A4
Hg19::chr7:107302560..107302575,-p2@ENST00000449741
Hg19::chr7:107302587..107302611,-p1@ENST00000449741
Hg19::chr7:107303668..107303680,+p@chr7:107303668..107303680
+
Hg19::chr7:107678217..107678226,-p3@LAMB4
Hg19::chr7:116093470..116093490,-p@chr7:116093470..116093490
-
Hg19::chr7:48284041..48284057,+p@chr7:48284041..48284057
+
Hg19::chr7:48284075..48284080,+p@chr7:48284075..48284080
+
Hg19::chr7:48284886..48284925,+p@chr7:48284886..48284925
+
Hg19::chr7:88388567..88388605,+p5@ZNF804B
Hg19::chr7:88388628..88388669,+p6@ZNF804B
Hg19::chr7:88389004..88389019,+p1@ZNF804B
Hg19::chr7:90675197..90675213,+p@chr7:90675197..90675213
+
Hg19::chr8:110374683..110374759,+p1@PKHD1L1
Hg19::chr8:133899297..133899305,-p@chr8:133899297..133899305
-
Hg19::chr8:133900307..133900325,-p@chr8:133900307..133900325
-
Hg19::chr8:134147075..134147104,+p@chr8:134147075..134147104
+
Hg19::chr8:29177729..29177743,-p@chr8:29177729..29177743
-
Hg19::chr8:29177800..29177807,-p@chr8:29177800..29177807
-
Hg19::chr8:29177815..29177822,-p@chr8:29177815..29177822
-
Hg19::chr8:29177832..29177841,-p@chr8:29177832..29177841
-
Hg19::chr8:48610431..48610439,+p24@KIAA0146
Hg19::chr9:100614368..100614372,+p@chr9:100614368..100614372
+
Hg19::chr9:100615296..100615313,-p@chr9:100615296..100615313
-
Hg19::chr9:100615546..100615558,+p4@FOXE1
Hg19::chr9:100616714..100616732,+p@chr9:100616714..100616732
+
Hg19::chr9:130404639..130404649,+p@chr9:130404639..130404649
+
Hg19::chr9:130404725..130404737,+p@chr9:130404725..130404737
+
Hg19::chr9:3898653..3898681,+p1@GLIS3-AS1
Hg19::chrX:43587398..43587403,+p@chrX:43587398..43587403
+


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:0030878thyroid gland development0.00244326503363639
GO:0006590thyroid hormone generation0.00244326503363639
GO:0042403thyroid hormone metabolic process0.00298269866463447
GO:0015108chloride transmembrane transporter activity0.0141994706185855
GO:0035270endocrine system development0.0141994706185855
GO:0048732gland development0.0230772003905823
GO:0031856parathyroid hormone receptor binding0.027514158822059
GO:0060022hard palate development0.027514158822059
GO:0015103inorganic anion transmembrane transporter activity0.027514158822059
GO:0006576biogenic amine metabolic process0.027514158822059
GO:0004996thyroid-stimulating hormone receptor activity0.027514158822059
GO:0015111iodide transmembrane transporter activity0.027514158822059
GO:0060023soft palate development0.027514158822059
GO:0004447iodide peroxidase activity0.027514158822059
GO:0021798forebrain dorsal/ventral pattern formation0.027514158822059
GO:0008970phospholipase A1 activity0.027514158822059
GO:0042445hormone metabolic process0.029257394218803
GO:0006575amino acid derivative metabolic process0.029257394218803
GO:0035081induction of programmed cell death by hormones0.0314350345810171
GO:0008628induction of apoptosis by hormones0.0314350345810171
GO:0060021palate development0.0314350345810171
GO:0006357regulation of transcription from RNA polymerase II promoter0.0367889686043127
GO:0021871forebrain regionalization0.0367889686043127
GO:0007187G-protein signaling, coupled to cyclic nucleotide second messenger0.0367889686043127
GO:0019935cyclic-nucleotide-mediated signaling0.0383389715790313
GO:0048522positive regulation of cellular process0.0394759063720948
GO:0004465lipoprotein lipase activity0.0488536259329727



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>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

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

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