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Coexpression cluster:C285

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Full id: C285_cervical_Hep2_small_colon_temporal_duodenum_bronchogenic



Phase1 CAGE Peaks

Hg19::chr10:99550654..99550658,-p@chr10:99550654..99550658
-
Hg19::chr11:72957611..72957646,+p@chr11:72957611..72957646
+
Hg19::chr13:114748246..114748260,-p@chr13:114748246..114748260
-
Hg19::chr16:15596148..15596153,+p7@C16orf45
Hg19::chr17:78152310..78152314,+p10@CARD14
Hg19::chr17:78152323..78152332,+p3@CARD14
Hg19::chr18:33766737..33766750,-p@chr18:33766737..33766750
-
Hg19::chr18:5521372..5521391,-p@chr18:5521372..5521391
-
Hg19::chr1:15850650..15850657,-p9@CASP9
Hg19::chr1:197411581..197411608,+p@chr1:197411581..197411608
+
Hg19::chr1:207326648..207326670,+p@chr1:207326648..207326670
+
Hg19::chr2:233320827..233320853,+p2@ALPI
Hg19::chr2:233320855..233320886,+p1@ALPI
Hg19::chr2:233323059..233323070,+p@chr2:233323059..233323070
+
Hg19::chr2:233324192..233324197,+p@chr2:233324192..233324197
+
Hg19::chr2:234296792..234296806,+p13@DGKD
Hg19::chr2:933319..933328,-p@chr2:933319..933328
-
Hg19::chr2:933356..933367,-p@chr2:933356..933367
-
Hg19::chr4:173883976..173883983,+p@chr4:173883976..173883983
+
Hg19::chr4:173883984..173884005,+p@chr4:173883984..173884005
+
Hg19::chr4:173884006..173884018,+p@chr4:173884006..173884018
+
Hg19::chr4:173884019..173884038,+p@chr4:173884019..173884038
+
Hg19::chr4:173884042..173884047,+p@chr4:173884042..173884047
+
Hg19::chr5:370139..370155,+p@chr5:370139..370155
+
Hg19::chr5:370156..370169,+p@chr5:370156..370169
+
Hg19::chr5:37249149..37249162,+p@chr5:37249149..37249162
+
Hg19::chr5:58571500..58571517,-p1@uc003jsd.1
Hg19::chr6:1111683..1111701,+p@chr6:1111683..1111701
+
Hg19::chr6:134664463..134664474,+p@chr6:134664463..134664474
+
Hg19::chr6:134718844..134718848,+p@chr6:134718844..134718848
+
Hg19::chr6:152084749..152084760,+p@chr6:152084749..152084760
+
Hg19::chr6:152084846..152084856,+p@chr6:152084846..152084856
+
Hg19::chr6:152084870..152084873,+p@chr6:152084870..152084873
+
Hg19::chr6:152084876..152084885,+p@chr6:152084876..152084885
+
Hg19::chr6:152084890..152084896,+p@chr6:152084890..152084896
+
Hg19::chr6:64276121..64276143,-p@chr6:64276121..64276143
-
Hg19::chr6:64276192..64276203,-p@chr6:64276192..64276203
-
Hg19::chr6:87797935..87797943,-p2@CGA
Hg19::chr8:80963618..80963643,-p15@TPD52
Hg19::chr8:80963645..80963656,-p22@TPD52
Hg19::chr8:80963666..80963669,-p37@TPD52
Hg19::chr8:80963673..80963679,-p29@TPD52
Hg19::chrX:2420841..2420865,-p4@DHRSX
Hg19::chrX:2420871..2420883,-p6@DHRSX
Hg19::chrX:57619447..57619495,+p2@ZXDB


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:0043085positive regulation of catalytic activity0.00666478581887981
GO:0032147activation of protein kinase activity0.0144788471296079
GO:0046982protein heterodimerization activity0.0159147723705919
GO:0050790regulation of catalytic activity0.0159147723705919
GO:0065009regulation of a molecular function0.0159147723705919
GO:0045860positive regulation of protein kinase activity0.0159147723705919
GO:0033674positive regulation of kinase activity0.0159147723705919
GO:0051347positive regulation of transferase activity0.0159147723705919
GO:0042803protein homodimerization activity0.0163259198672619
GO:0004035alkaline phosphatase activity0.020550845677255
GO:0050700CARD domain binding0.023967518948923
GO:0045859regulation of protein kinase activity0.023967518948923
GO:0043549regulation of kinase activity0.023967518948923
GO:0051338regulation of transferase activity0.023967518948923
GO:0046339diacylglycerol metabolic process0.023967518948923
GO:0008635caspase activation via cytochrome c0.0288826181170591
GO:0007250activation of NF-kappaB-inducing kinase0.0362320546560548
GO:0042802identical protein binding0.0404723163106256
GO:0046983protein dimerization activity0.0404723163106256



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
larynx9.93e-1279
upper respiratory tract5.23e-6019
respiratory primordium6.65e-3038
endoderm of foregut6.65e-3038
segment of respiratory tract4.03e-2447
respiratory tract5.96e-2154
respiratory system3.49e-1574
foregut7.56e-1387
organ segment2.37e-1198
subdivision of digestive tract2.95e-09118
digestive system1.93e-07145
digestive tract1.93e-07145
primitive gut1.93e-07145
primordium9.78e-07160
Disease
Ontology termp-valuen
carcinoma2.37e-16106
cell type cancer5.90e-12143
cancer1.45e-08235
disease of cellular proliferation2.27e-08239


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
CEBPB#1051142.479912594701050.0008753074883893530.00652926496535217
GATA3#262584.842047352392180.0002100809335598130.00244518473420855
NR3C1#290882.661870814430760.009192961431128360.0347674705379546
STAT3#6774122.80519066590780.0007801882787431220.00611268444438506



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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