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{{Coexpression_clusters
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|full_id=C643_duodenum_temporal_pancreas_stomach_mesothelioma_small_amygdala
|gostat_on_coexpression_clusters=GO:0005179!hormone activity!0.000633575236815349!5539;6750;3481$GO:0007586!digestion!0.00720146382152343!5539;6750$GO:0005102!receptor binding!0.0132442531978175!5539;6750;3481$GO:0035081!induction of programmed cell death by hormones!0.0132442531978175!6750$GO:0008628!induction of apoptosis by hormones!0.0132442531978175!6750$GO:0006349!genetic imprinting!0.0220688823926765!3481$GO:0018445!prothoracicotrophic hormone activity!0.0252178678920457!3481$GO:0005159!insulin-like growth factor receptor binding!0.030333549648849!3481$GO:0008156!negative regulation of DNA replication!0.0374867421143574!51053$GO:0004806!triacylglycerol lipase activity!0.0374867421143574!5407$GO:0051053!negative regulation of DNA metabolic process!0.0380825283826149!51053$GO:0006275!regulation of DNA replication!0.044046913908284!51053$GO:0009605!response to external stimulus!0.044046913908284!130120;6750$GO:0006953!acute-phase response!0.044046913908284!130120$GO:0008286!insulin receptor signaling pathway!0.044046913908284!3481$GO:0005184!neuropeptide hormone activity!0.044046913908284!3481$GO:0008624!induction of apoptosis by extracellular signals!0.044046913908284!6750$GO:0008283!cell proliferation!0.0471826142917586!6750;3481$GO:0007584!response to nutrient!0.0486547819409185!6750
|id=C643
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!3.06e-39!115;UBERON:0005743!7.96e-33!86;UBERON:0001049!1.02e-32!57;UBERON:0005068!1.02e-32!57;UBERON:0006241!1.02e-32!57;UBERON:0007135!1.02e-32!57;UBERON:0001017!6.63e-32!82;UBERON:0003080!6.10e-30!42;UBERON:0000073!1.11e-29!94;UBERON:0001016!1.11e-29!94;UBERON:0002780!2.03e-29!41;UBERON:0001890!2.03e-29!41;UBERON:0006240!2.03e-29!41;UBERON:0002616!3.65e-27!59;UBERON:0002020!1.32e-24!34;UBERON:0003528!1.32e-24!34;UBERON:0001893!1.40e-24!34;UBERON:0001869!7.23e-24!32;UBERON:0002791!9.55e-24!33;UBERON:0000955!1.32e-23!69;UBERON:0006238!1.32e-23!69;UBERON:0003075!6.58e-23!86;UBERON:0007284!6.58e-23!86;UBERON:0002346!8.91e-22!90;UBERON:0003056!2.94e-20!61;UBERON:0002619!6.94e-19!22;UBERON:0000956!3.48e-18!25;UBERON:0000203!3.48e-18!25;UBERON:0001950!1.83e-17!20;UBERON:0000062!2.49e-12!511;UBERON:0004121!1.32e-11!169;UBERON:0000153!1.62e-11!129;UBERON:0007811!1.62e-11!129;UBERON:0000924!2.84e-11!173;UBERON:0006601!2.84e-11!173;UBERON:0000033!1.33e-10!123;UBERON:0000064!1.58e-10!219;UBERON:0000468!4.07e-09!659;UBERON:0000025!6.79e-09!194;UBERON:0002420!4.69e-08!9;UBERON:0007245!4.69e-08!9;UBERON:0010009!4.69e-08!9;UBERON:0010011!4.69e-08!9;UBERON:0000454!4.69e-08!9;UBERON:0002308!7.23e-08!9;UBERON:0000125!7.23e-08!9;UBERON:0001871!9.58e-08!7;UBERON:0000922!3.49e-07!612;UBERON:0000467!3.72e-07!625;UBERON:0000480!4.70e-07!626;UBERON:0004111!6.73e-07!241
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}}

Latest revision as of 11:27, 17 September 2013


Full id: C643_duodenum_temporal_pancreas_stomach_mesothelioma_small_amygdala



Phase1 CAGE Peaks

Hg19::chr10:118349920..118349930,+p3@PNLIPRP1
Hg19::chr11:2182437..2182439,-p16@IGF2
p1@INS-IGF2
p1@INS
Hg19::chr16:75238049..75238067,-p@chr16:75238049..75238067
-
Hg19::chr17:42019840..42019844,-p1@PPY
Hg19::chr19:35068562..35068576,-p1@SCGB1B2P
Hg19::chr2:79252804..79252815,+p4@REG3G
Hg19::chr2:79252822..79252833,+p3@REG3G
Hg19::chr2:79252834..79252861,+p1@REG3G
Hg19::chr2:79252866..79252876,+p2@REG3G
Hg19::chr3:187388173..187388189,-p1@SST
Hg19::chr6:24777040..24777071,+p3@GMNN
Hg19::chr6:35762794..35762810,-p@chr6:35762794..35762810
-
Hg19::chr7:117257347..117257378,+p@chr7:117257347..117257378
+


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:0005179hormone activity0.000633575236815349
GO:0007586digestion0.00720146382152343
GO:0005102receptor binding0.0132442531978175
GO:0035081induction of programmed cell death by hormones0.0132442531978175
GO:0008628induction of apoptosis by hormones0.0132442531978175
GO:0006349genetic imprinting0.0220688823926765
GO:0018445prothoracicotrophic hormone activity0.0252178678920457
GO:0005159insulin-like growth factor receptor binding0.030333549648849
GO:0008156negative regulation of DNA replication0.0374867421143574
GO:0004806triacylglycerol lipase activity0.0374867421143574
GO:0051053negative regulation of DNA metabolic process0.0380825283826149
GO:0006275regulation of DNA replication0.044046913908284
GO:0009605response to external stimulus0.044046913908284
GO:0006953acute-phase response0.044046913908284
GO:0008286insulin receptor signaling pathway0.044046913908284
GO:0005184neuropeptide hormone activity0.044046913908284
GO:0008624induction of apoptosis by extracellular signals0.044046913908284
GO:0008283cell proliferation0.0471826142917586
GO:0007584response to nutrient0.0486547819409185



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
small intestine1.14e-234
testis4.37e-158
male reproductive organ2.98e-1111
duodenum6.73e-112
intestine2.68e-0717


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)
MA0003.10.0328052
MA0004.10.297884
MA0006.10.169524
MA0007.10.282081
MA0009.10.724811
MA0014.10.0237853
MA0017.13.22786
MA0019.10.428118
MA0024.10.6245
MA0025.10.854131
MA0027.12.32165
MA0028.10.181601
MA0029.10.642879
MA0030.10.63197
MA0031.10.570886
MA0038.10.387473
MA0040.12.64361
MA0041.10.313738
MA0042.10.286538
MA0043.10.725115
MA0046.10.714324
MA0048.10.30948
MA0050.10.287284
MA0051.10.383704
MA0052.10.652145
MA0055.10.531463
MA0056.10
MA0057.10.542827
MA0058.10.219229
MA0059.10.218203
MA0060.10.2996
MA0061.10.0732084
MA0063.10
MA0066.11.78288
MA0067.11.03434
MA0068.10.434546
MA0069.10.710614
MA0070.10.69985
MA0071.10.35315
MA0072.10.695528
MA0073.10.0160649
MA0074.10.383033
MA0076.10.231962
MA0077.10.688123
MA0078.10.473657
MA0081.10.218332
MA0083.10.732051
MA0084.11.21913
MA0087.11.65583
MA0088.10.170244
MA0089.10
MA0090.10.243681
MA0091.11.47407
MA0092.11.35806
MA0093.10.171791
MA0095.10
MA0098.10
MA0100.10.399896
MA0101.10.17426
MA0103.10.489275
MA0105.10.491866
MA0106.10.424592
MA0107.10.121572
MA0108.21.39378
MA0109.10
MA0111.10.708492
MA0113.10.439505
MA0114.11.80492
MA0115.10.959312
MA0116.10.391626
MA0117.10.76111
MA0119.10.205526
MA0122.10.786181
MA0124.10.918678
MA0125.10.83671
MA0130.10
MA0131.10.490408
MA0132.10
MA0133.10
MA0135.10.754112
MA0136.10.393782
MA0139.10.0663461
MA0140.10.350813
MA0141.10.216821
MA0142.10.541045
MA0143.10.439666
MA0144.11.72258
MA0145.12.66434
MA0146.10.104779
MA0147.10.126316
MA0148.10.855011
MA0149.10.342334
MA0062.20.0702147
MA0035.20.924091
MA0039.20.0426227
MA0138.20.474787
MA0002.20.280231
MA0137.21.65057
MA0104.20.088751
MA0047.21.87108
MA0112.22.08168
MA0065.21.73813
MA0150.10.238884
MA0151.10
MA0152.10.356591
MA0153.10.820317
MA0154.10.257061
MA0155.12.00431
MA0156.10.18827
MA0157.10.515488
MA0158.10
MA0159.11.87789
MA0160.10.332385
MA0161.10
MA0162.10.0446668
MA0163.10.390307
MA0164.10.450848
MA0080.20.171855
MA0018.20.425847
MA0099.20.356906
MA0079.20.0357706
MA0102.21.25596
MA0258.10.685719
MA0259.10.132107
MA0442.10



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

This analysis result is provided for C0 - C305 clusters.

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