Personal tools

Coexpression cluster:C4486: 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=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.35291901374684,0.385817102887059,0,0.21157788488363,0,0,0,0,0,0,0,0,0,0.032404058578668,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.195126890129366,0,0.0702852779578603,0.490753986185237,0.134908379262287,0.136969166919767,0,0,0,0,0,0,0,0,0,0.194599788733868,0,0,0,0,0.132184822587662,0.222571133856035,0,0,0,0,0,0.0713662365134967,0.087969206950705,0.193974927536151,0,0,0,0,0,0.157182883491893,0.175213663176675,0,0,0,0,0,0,0,0,0,0,0.11484936557738,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.19414912390392,1.29417286442575,1.07210412844289,0.900109790911469,1.00361348331554,0.9556637937031,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0955099827348378,0,0.219715924277547,0,0,0,0,0,0,0.651075569039972,0.200588822806923,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0580378687812504,0,0,0,0.132064901528981,0,0,0,0,0,0,0,0,0,0,0,0,0,0.277994328470044,0,0,0,1.02757773475164,0.79278336932914,0.248779474225184,0.336982545221503,0.214297657915009,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.493856992773006,0,0,0,0.279301660537643,0.0322218878591601,0,0,0,0,0.0682206429897042,0,0,0,0,0.0986009078228607,0,0.0877369765382028,0,0,0,0,0,0.0425916600387234,0,0.0344317163371687,0.197077988480498,0,0,0,0,0,0,0,0,0,0.0370406554214911,0.066432124538699,0.0763454992192642,0.0521599633818348,0.115102153805393,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.108034143853115,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.153310840807784,0,0,0,0,0,0.304436812135878,0,0,0,0,0.116355582210209,0,0,0,0,0,0,0,0,0.363608930956991,0,0,0.551839936224804,0,0,0,0,0.600149562354411,0.993972626855604,0,0,0,0.0789089986057754,0,0,0,0,0,0.0373740412220293,0,0,0.112581616328924,0,0,1.10147187472569,0.885321807582743,0.698298584006718,0.100517959999704,0,0,0.621821690534791,0,0.495195809741345,0,0,0.229041567979078,0.952873410468385,0.902796382887103,0.607630284791676,0.521421127716631,0.338892655961145,0.748737785777629,0,0.229712224310838,0,0,0.090104171961993,0.133229228292856,0,0,0,0,0,0.167595185212925,0,0,0,0,0,0,0,0.122695996997001,0,0,0.600513954847267,0.428247197833693,0.668961568822839,0.112779598617622,0.0959109874126932,0,0.935322224357304,0.255893981334376,1.04427985719216,0,0.724654410721005,0,0,0.665554865164094,0.497276575960332,0.0516822929650548,0,0,0,0,0,0,0.825568322394736,0.0563996609564404,0.129406115216345,0.0405993330353711,0,0.1301578714358,0,0,0,0,0.0402022792589852,0,0.96072313100194,0,0,0.921377019165117,0,0.0334876163089719,0.268065684154701,0,1.07739958413812,0,0.0687775087883389,0.109952815588116,0,0.0919109500998384,0,0,0.0421808920916863,0,1.02558129348198,0.708179580116395,0,0,0.453350678483007,0,0,0,0,0,0,0,0,0,0.886297251614411,0.861152233081187,0.951998570043426,0.457900380152936,0.246020689700903,0.761279530076886,1.08035500031718,1.00009450583455,0.985201162127982,1.10148344401783,0,0,1.03264609967154,0,0.168153873077708,0.322538973066112,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.9090509806663,0.696092240970774,0,0,0,0.118730395337086,0,0,0,0,0,0,0,0,0,1.85249939630886,0.993906944514987,0.741543296188799,0.896829301550514,0.587379335783582,0.69840034511846,0.893795279842916,0.824275176392994,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.154996724829531,0.251147172149137,0,0,0,0,0,0,0,0,0.0677931267972615,0,0,0,0.9347112028314,0,0,0,0,0,0.493196033645039,0,0,0,0,0,0.230294984886555,0,0,0,0,0,0,0,0.0507414909260677,0,0,0,0,0,0,1.05710040994018,0.583644352171757,0.921330443027307,0.841883221728368,0.514367790760809,0.96192182405489,1.09002144420442,0,0,0.383031615519709,0.0731420601497836,0,0,0,0,0,0,0.250789242335245,0,0.173569605266192,0.580841259126896,0.849934034336643,0.945014405907802,0.904572257523203,0.905210398516458,0.50350458565095,0.909949014603467,0,0,0.381184906043847,0.497317759250607,0.125898678133584,0.345164122303945,0.544599308732647,0.0709257799838506,0,0.0687378478097941,0.711482754104591,0.95541248366025,0,0,0.0633281735501667,0.923473684440093,0.107302302820485,0.281751001695877,0,0,0.76792763051125,0,0,0,0,0.0817850418435885,0.0684524727462707,0,0.982476894088479,0,0,0,0,0,0,0,0.778560880168481,0.98480502330537,0,0,0.521089531926469,0.390428660981575,0,1.28113614280526,0,1.35790806151029,0,1.42837207194129,0.418410235884819,0.584475319110691,0,0,1.76544055323145,0.812688606507541,0.80255722210428,0.8125473567064,0,0,0,0,0.82696361517386,0,0.402190163860566,0,0.517676974500353,0.517648876363424,0,1.06724438881592,0.438606066165234,0.672392328349368,0,0,0,0.618483284546686,0.721097796381571,0,0.858616507072345,1.33396570411504,1.22308112071386,1.10664143010665,0.162765135992742,0.103106967823645,0.635149629564883,0.881938541654975,0.154262022540406,0.385317825735311,0.0527623387552046,0.156707515791389,0.0461562834654493,0.0985013484023267,0.079946807131842,0.0855462791577618,0.127828009549688,0.103601303525827,0.234826457397195,0.22149788379633,0,0,0,0.278353870942836,0,0.172884715786101,0.14826204992358,0,0,0
|full_id=C4486_maxillary_somatostatinoma_small_testicular_H9_hippocampus_temporal
|full_id=C4486_maxillary_somatostatinoma_small_testicular_H9_hippocampus_temporal
|id=C4486
|id=C4486

Revision as of 17:33, 12 September 2012


Full id: C4486_maxillary_somatostatinoma_small_testicular_H9_hippocampus_temporal



Phase1 CAGE Peaks

Hg19::chr5:16738265..16738289,-p4@MYO10
Hg19::chr5:16738290..16738320,-p2@MYO10
Hg19::chr5:16738328..16738363,-p5@MYO10


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>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
neuronal stem cell5.71e-078
Uber Anatomy
Ontology termp-valuen
central nervous system2.31e-4282
neural tube7.22e-4057
neural rod7.22e-4057
future spinal cord7.22e-4057
neural keel7.22e-4057
regional part of nervous system2.27e-3794
nervous system2.27e-3794
regional part of brain1.18e-3359
brain2.23e-3369
future brain2.23e-3369
anterior neural tube4.82e-3242
neural plate5.36e-3286
presumptive neural plate5.36e-3286
regional part of forebrain8.30e-3241
forebrain8.30e-3241
future forebrain8.30e-3241
neurectoderm4.08e-3090
anterior region of body5.42e-30129
craniocervical region5.42e-30129
adult organism3.46e-29115
head2.92e-28123
pre-chordal neural plate4.99e-2861
telencephalon1.78e-2734
gray matter2.73e-2734
brain grey matter2.73e-2734
regional part of telencephalon1.18e-2633
ectoderm-derived structure3.41e-26169
cerebral hemisphere5.91e-2632
ectoderm2.76e-25173
presumptive ectoderm2.76e-25173
cerebral cortex3.21e-2025
pallium3.21e-2025
regional part of cerebral cortex3.89e-1922
neocortex1.55e-1720
anatomical conduit8.41e-16241
tube8.86e-14194
anatomical cluster1.43e-13286
epithelium2.75e-11309
embryo4.19e-11612
cell layer8.16e-11312
organ part3.12e-10219
multi-cellular organism1.20e-09659
multi-tissue structure1.35e-09347
posterior neural tube5.72e-0915
chordal neural plate5.72e-0915
organism subdivision8.01e-09365
basal ganglion1.28e-089
nuclear complex of neuraxis1.28e-089
aggregate regional part of brain1.28e-089
collection of basal ganglia1.28e-089
cerebral subcortex1.28e-089
nucleus of brain1.71e-089
neural nucleus1.71e-089
embryonic structure1.73e-08605
developing anatomical structure1.73e-08605
organ1.81e-08511
germ layer3.19e-08604
embryonic tissue3.19e-08604
presumptive structure3.19e-08604
epiblast (generic)3.19e-08604
anatomical system5.06e-08625
anatomical group6.53e-08626
temporal lobe1.52e-077
segmental subdivision of nervous system2.81e-0713
telencephalic nucleus4.84e-077
segmental subdivision of hindbrain6.46e-0712
hindbrain6.46e-0712
presumptive hindbrain6.46e-0712


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:C4486&oldid=2139391"