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Coexpression cluster:C1805: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!9.17e-17!115;UBERON:0000477!2.54e-16!286;UBERON:0000468!2.65e-16!659;UBERON:0000467!2.18e-15!625;UBERON:0000475!3.44e-15!365;UBERON:0004111!3.94e-15!241;UBERON:0000480!4.93e-15!626;UBERON:0000119!1.23e-13!312;UBERON:0000483!2.61e-13!309;UBERON:0000062!1.89e-12!511;UBERON:0000025!4.10e-11!194;UBERON:0000481!2.12e-10!347;UBERON:0002616!1.78e-08!59;UBERON:0000922!3.44e-08!612;UBERON:0002050!4.57e-08!605;UBERON:0005423!4.57e-08!605;UBERON:0000923!7.49e-08!604;UBERON:0005291!7.49e-08!604;UBERON:0006598!7.49e-08!604;UBERON:0002532!7.49e-08!604;UBERON:0001049!1.05e-07!57;UBERON:0005068!1.05e-07!57;UBERON:0006241!1.05e-07!57;UBERON:0007135!1.05e-07!57;UBERON:0005743!1.78e-07!86;UBERON:0000064!2.55e-07!219;UBERON:0000955!3.33e-07!69;UBERON:0006238!3.33e-07!69;UBERON:0001017!4.11e-07!82;UBERON:0000153!4.33e-07!129;UBERON:0007811!4.33e-07!129;UBERON:0003080!6.79e-07!42
|ontology_enrichment_uberon=UBERON:0007023!9.17e-17!115;UBERON:0000477!2.54e-16!286;UBERON:0000468!2.65e-16!659;UBERON:0000467!2.18e-15!625;UBERON:0000475!3.44e-15!365;UBERON:0004111!3.94e-15!241;UBERON:0000480!4.93e-15!626;UBERON:0000119!1.23e-13!312;UBERON:0000483!2.61e-13!309;UBERON:0000062!1.89e-12!511;UBERON:0000025!4.10e-11!194;UBERON:0000481!2.12e-10!347;UBERON:0002616!1.78e-08!59;UBERON:0000922!3.44e-08!612;UBERON:0002050!4.57e-08!605;UBERON:0005423!4.57e-08!605;UBERON:0000923!7.49e-08!604;UBERON:0005291!7.49e-08!604;UBERON:0006598!7.49e-08!604;UBERON:0002532!7.49e-08!604;UBERON:0001049!1.05e-07!57;UBERON:0005068!1.05e-07!57;UBERON:0006241!1.05e-07!57;UBERON:0007135!1.05e-07!57;UBERON:0005743!1.78e-07!86;UBERON:0000064!2.55e-07!219;UBERON:0000955!3.33e-07!69;UBERON:0006238!3.33e-07!69;UBERON:0001017!4.11e-07!82;UBERON:0000153!4.33e-07!129;UBERON:0007811!4.33e-07!129;UBERON:0003080!6.79e-07!42
|tf_chipseq_enrichment=null
|tf_chipseq_enrichment=CCNT2#905;5:6.33620157696263:9.78880505817628e-05:0.00139055088611381!CTCF#10664;5:5.36025637307503:0.000225927829993709:0.00249795433376169!CTCFL#140690;5:19.7464743589744:3.32745051287657e-07:1.65799429443853e-05!E2F1#1869;5:4.90738921487932:0.000351281809925646:0.00352832476888099!E2F6#1876;5:5.01715573169739:0.000314497859929779:0.00322809257918488!EGR1#1958;5:4.98817909481014:0.000323739800059071:0.00330799931301921!HEY1#23462;5:4.04011104310571:0.000928885220517799:0.00674255237320395!RAD21#5885;5:10.3550338954563:8.39503550283973e-06:0.000229460641947416!SMARCB1#6598;5:18.2527157811574:4.93125075403021e-07:2.31571446717699e-05!SMC3#9126;5:15.0449328449328:1.29633924985553e-06:5.15961794648101e-05!TAF1#6872;5:3.34304628574529:0.00239460009087031:0.0135366516314157!TFAP2A#7020;5:16.518634373045:8.12390055913032e-07:3.53816534818603e-05!TFAP2C#7022;5:10.8092286098602:6.77323239348459e-06:0.000197209260647655!USF1#7391;5:6.36149927720796:9.59569864925045e-05:0.00136833038125214
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}}
}}

Revision as of 09:30, 5 September 2012


Full id: C1805_heart_diaphragm_adipose_vagina_ductus_thyroid_mature



Phase1 CAGE Peaks

Hg19::chr18:7567180..7567189,+p7@PTPRM
Hg19::chr18:7567266..7567330,+p1@PTPRM
Hg19::chr18:7567336..7567347,+p5@PTPRM
Hg19::chr18:7567351..7567365,+p4@PTPRM
Hg19::chr18:7567378..7567397,+p3@PTPRM


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

No GOStat results

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
adult organism9.17e-17115
anatomical cluster2.54e-16286
multi-cellular organism2.65e-16659
anatomical system2.18e-15625
organism subdivision3.44e-15365
anatomical conduit3.94e-15241
anatomical group4.93e-15626
cell layer1.23e-13312
epithelium2.61e-13309
organ1.89e-12511
tube4.10e-11194
multi-tissue structure2.12e-10347
regional part of brain1.78e-0859
embryo3.44e-08612
embryonic structure4.57e-08605
developing anatomical structure4.57e-08605
germ layer7.49e-08604
embryonic tissue7.49e-08604
presumptive structure7.49e-08604
epiblast (generic)7.49e-08604
neural tube1.05e-0757
neural rod1.05e-0757
future spinal cord1.05e-0757
neural keel1.05e-0757
organ part2.55e-07219
brain3.33e-0769
future brain3.33e-0769
central nervous system4.11e-0782
anterior region of body4.33e-07129
craniocervical region4.33e-07129
anterior neural tube6.79e-0742


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

This analysis result is provided for C0 - C305 clusters.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C1805&oldid=2130341"