Personal tools

Coexpression cluster:C4655: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0.0572682890762461,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.027549189648299,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0427037663627782,0,0.0959594073735869,0,0,0,0,0.191486849538524,0,0,0,0,0,0,0,0.204169432998994,0.0813851389231825,0.180493200633673,0.137428084749711,0.0677314085379025,0.0403796003528171,0,0.07338830676488,0,0.314926108217124,0.11469646534793,0.126819880545037,0,0,0,0,0,0.0477396614475454,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.149703653910611,0,0,0,0,0,0,0.0687674306079092,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.360350481036162,0,0,0.622344333117473,0.309645999537164,0,0.383544533079954,0,0.570143705126431,0,0,0,0.384096632197053,0,0,0,0,0,0,0,0.170041493096301,0.33215948426107,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0502604313716981,0,0,0,0.186189563052453,0,0,0,0,0,0.221212197891035,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179711634111168,0.403998820816319,0.0647775726819609,0,0,0,0,0,0,0,0,0,0.416208040003401,0.189286314149658,0.526370228722131,0,0,0,0,0,0,0,0.155892013338829,0,0.104127248139133,0,0,0,0,0,0,0,0,0,0.0425916600387234,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.212087596895138,0,0,0,0,0,0,0,0,0,0,0,0,0,0.18741280294663,0.375240111895029,0.232201568401761,0,0,0,0.172496019467973,0,0,0.373830982388714,0.474169049816133,0,0,0,0,0,0,0,0,0,0.0582024997333375,0,0,0,0,0,0,0,0,0,0,0.0390744040629657,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0571597974145305,0,0,0,0,0.191050583413854,0,0,0,0,0,0,0,0.319122193936622,0,0,0,0.0385280079017836,0,0,0,0,0,0,0,0,0,0,0,0.0494492378997174,0,0,0,0,0,0,0.0321956448428329,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.299999916441319,0.254334884690362,0,0,0,0,0.0549201943193819,0,0.0914082188667263,0,0,0,0,0,0.115967372264001,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0402022792589852,0,0,0,0,0.075522285417572,0,0,0.49617242345736,0,0,0,0,0,0,0,0,0,0.0421808920916863,0,0,0,0,0,0,0.192724864233909,0.227238961653008,0,0.203858513377274,0.155100922768919,0.222590162111468,0.488929522125745,0.133634660878237,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0727088341078527,0,0,0.0433265804049448,0,0,0,0.497494413877184,0.366270496043257,0,0.188365813972295,0,0.420440434684083,0,0,0.127356241562203,0,0,0,0.14234217584783,0.145102450696258,0,0,0.0440642112897698,0,0.150522826464445,0,0,0,0,0,0,0,0,0,0,0.0948387187168004,0.0512262229954782,0,0.0870207733122038,0.0508408017580101,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.150666259251702,0,0,0,0,0,0,0,0,0.145536958608929,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0562408777463757,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.294559534903815,0,0.21886565071406,0,0,0.174856995603706,0,0,0,0,0.382143847917994,0.640352247535752,0.120950855450194,0,0.064320887423737,0,0,0.0818769814509043,0.0650101077405693,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.10385512828298,0,0.0815945607332269,0.0756372526246955,0.189483241693255,0,0,0,0,0,0,0,0,0,0,0,0.372800592061157,0.123480492992954,0,0,0.143784432664055,0.0633767449113307,0,0.281751001695877,0,0,0,0,0,0,0.415544692183818,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.171934336795599,0,0,0,0,0,0,0.0322859259446875,0,0,0.296795302727177,0,0,0,0,0,0,0,0,0,0,0,0.238130540907848,0,0,0,0.0553718247010331,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.424610342996058,0.0427459664864042,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0500863030838633,0,0,0,0
|full_id=C4655_normal_sacrococcigeal_Prostate_Mesenchymal_Smooth_smooth_gall
|full_id=C4655_normal_sacrococcigeal_Prostate_Mesenchymal_Smooth_smooth_gall
|id=C4655
|id=C4655

Revision as of 17:46, 12 September 2012


Full id: C4655_normal_sacrococcigeal_Prostate_Mesenchymal_Smooth_smooth_gall



Phase1 CAGE Peaks

Hg19::chr7:136553573..136553582,+p6@CHRM2
Hg19::chr7:136553987..136554036,+p3@CHRM2
Hg19::chr7:136554042..136554052,+p8@CHRM2


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 organism2.27e-22115
neural tube4.24e-1857
neural rod4.24e-1857
future spinal cord4.24e-1857
neural keel4.24e-1857
neural plate5.53e-1686
presumptive neural plate5.53e-1686
regional part of brain8.67e-1659
gray matter1.14e-1534
brain grey matter1.14e-1534
neurectoderm1.16e-1590
cerebral hemisphere2.18e-1532
brain2.31e-1569
future brain2.31e-1569
telencephalon2.62e-1534
regional part of forebrain2.84e-1541
forebrain2.84e-1541
future forebrain2.84e-1541
anterior neural tube1.05e-1442
regional part of nervous system1.05e-1494
nervous system1.05e-1494
regional part of telencephalon1.69e-1433
regional part of cerebral cortex6.52e-1422
organ1.48e-13511
central nervous system1.58e-1382
neocortex1.47e-1220
cerebral cortex1.26e-1125
pallium1.26e-1125
pre-chordal neural plate2.45e-1161
head2.53e-11123
multi-cellular organism2.87e-11659
anterior region of body9.97e-11129
craniocervical region9.97e-11129
organism subdivision1.03e-10365
organ part1.24e-10219
multi-tissue structure1.34e-10347
ectoderm-derived structure1.72e-10169
ectoderm1.76e-10173
presumptive ectoderm1.76e-10173
anatomical system2.78e-08625
anatomical group3.32e-08626
anatomical conduit7.20e-08241
large intestine3.61e-0711
colon5.17e-079
tube6.39e-07194
anatomical cluster8.85e-07286


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:C4655&oldid=2139579"