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|full_id=C136_Wilms_extraskeletal_anaplastic_rhabdomyosarcoma_cholangiocellular_nonsmall_neuroectodermal
|full_id=C136_Wilms_extraskeletal_anaplastic_rhabdomyosarcoma_cholangiocellular_nonsmall_neuroectodermal
|id=C136
|id=C136
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.48e-12!115;UBERON:0005743!2.33e-12!86;UBERON:0000153!4.70e-11!129;UBERON:0007811!4.70e-11!129;UBERON:0001017!7.50e-11!82;UBERON:0000073!7.63e-11!94;UBERON:0001016!7.63e-11!94;UBERON:0000033!2.09e-10!123;UBERON:0004121!4.68e-10!169;UBERON:0000924!1.87e-09!173;UBERON:0006601!1.87e-09!173;UBERON:0000062!6.73e-09!511;UBERON:0000955!6.82e-09!69;UBERON:0006238!6.82e-09!69;UBERON:0000475!1.01e-08!365;UBERON:0002616!1.22e-08!59;UBERON:0001049!1.30e-08!57;UBERON:0005068!1.30e-08!57;UBERON:0006241!1.30e-08!57;UBERON:0007135!1.30e-08!57;UBERON:0003075!2.27e-08!86;UBERON:0007284!2.27e-08!86;UBERON:0002780!3.17e-08!41;UBERON:0001890!3.17e-08!41;UBERON:0006240!3.17e-08!41;UBERON:0003080!8.86e-08!42;UBERON:0002346!1.42e-07!90;UBERON:0001869!1.80e-07!32;UBERON:0002020!2.24e-07!34;UBERON:0003528!2.24e-07!34;UBERON:0003056!2.50e-07!61;UBERON:0001893!2.84e-07!34;UBERON:0002619!3.08e-07!22;UBERON:0002791!6.69e-07!33;UBERON:0001950!8.11e-07!20
}}
}}

Revision as of 14:10, 21 May 2012


Full id: C136_Wilms_extraskeletal_anaplastic_rhabdomyosarcoma_cholangiocellular_nonsmall_neuroectodermal



Phase1 CAGE Peaks

Hg19::chr10:110407997..110408002,+p@chr10:110407997..110408002
+
Hg19::chr10:123491370..123491379,-p@chr10:123491370..123491379
-
Hg19::chr10:21291623..21291629,-p@chr10:21291623..21291629
-
Hg19::chr10:22640320..22640328,+p@chr10:22640320..22640328
+
Hg19::chr10:29612487..29612499,+p@chr10:29612487..29612499
+
Hg19::chr10:29612546..29612580,+p@chr10:29612546..29612580
+
Hg19::chr10:29613031..29613036,+p@chr10:29613031..29613036
+
Hg19::chr10:29613050..29613060,+p@chr10:29613050..29613060
+
Hg19::chr10:29643287..29643316,+p@chr10:29643287..29643316
+
Hg19::chr10:52612862..52612869,+p@chr10:52612862..52612869
+
Hg19::chr10:54010532..54010547,+p@chr10:54010532..54010547
+
Hg19::chr10:54010561..54010562,+p@chr10:54010561..54010562
+
Hg19::chr10:54010629..54010641,+p@chr10:54010629..54010641
+
Hg19::chr10:54010664..54010675,+p@chr10:54010664..54010675
+
Hg19::chr10:54011381..54011388,+p@chr10:54011381..54011388
+
Hg19::chr10:54373384..54373394,-p@chr10:54373384..54373394
-
Hg19::chr10:54380431..54380438,-p@chr10:54380431..54380438
-
Hg19::chr10:54380494..54380526,-p@chr10:54380494..54380526
-
Hg19::chr10:54434202..54434206,+p@chr10:54434202..54434206
+
Hg19::chr10:54435392..54435398,+p@chr10:54435392..54435398
+
Hg19::chr10:54464025..54464030,+p@chr10:54464025..54464030
+
Hg19::chr10:95575127..95575132,+p@chr10:95575127..95575132
+
Hg19::chr10:95579364..95579367,-p@chr10:95579364..95579367
-
Hg19::chr11:111405448..111405452,-p@chr11:111405448..111405452
-
Hg19::chr11:44359184..44359192,-p@chr11:44359184..44359192
-
Hg19::chr11:84534461..84534473,-p@chr11:84534461..84534473
-
Hg19::chr11:9879819..9879831,-p@chr11:9879819..9879831
-
Hg19::chr11:9879844..9879867,-p@chr11:9879844..9879867
-
Hg19::chr12:47578884..47578898,-p@chr12:47578884..47578898
-
Hg19::chr12:47686521..47686535,-p@chr12:47686521..47686535
-
Hg19::chr12:54651945..54651977,-p10@CBX5
Hg19::chr12:54651996..54652005,-p52@CBX5
Hg19::chr12:65915374..65915386,-p@chr12:65915374..65915386
-
Hg19::chr12:66414428..66414436,-p@chr12:66414428..66414436
-
Hg19::chr14:54712704..54712709,-p@chr14:54712704..54712709
-
Hg19::chr14:57540809..57540853,-p@chr14:57540809..57540853
-
Hg19::chr14:57618195..57618202,+p@chr14:57618195..57618202
+
Hg19::chr14:68282778..68282790,-p2@ZFYVE26
Hg19::chr14:68282796..68282809,-p3@ZFYVE26
Hg19::chr14:68282823..68282830,-p6@ZFYVE26
Hg19::chr14:68283075..68283091,-p7@ZFYVE26
Hg19::chr14:68283125..68283137,-p5@ZFYVE26
Hg19::chr15:26342640..26342684,+p@chr15:26342640..26342684
+
Hg19::chr15:27111637..27111644,+p20@GABRA5
Hg19::chr15:35280823..35280852,-p6@ZNF770
Hg19::chr15:35280863..35280908,-p3@ZNF770
Hg19::chr15:67665298..67665308,-p@chr15:67665298..67665308
-
Hg19::chr16:25157665..25157701,-p9@LOC100506655
Hg19::chr16:25160074..25160087,-p5@LOC100506655
Hg19::chr16:25160169..25160182,-p7@LOC100506655
Hg19::chr16:83715826..83715852,-p@chr16:83715826..83715852
-
Hg19::chr16:83842046..83842058,+p@chr16:83842046..83842058
+
Hg19::chr16:83842085..83842095,+p@chr16:83842085..83842095
+
Hg19::chr16:83842136..83842184,+p@chr16:83842136..83842184
+
Hg19::chr18:22253484..22253496,+p@chr18:22253484..22253496
+
Hg19::chr18:3411569..3411590,+p43@TGIF1
Hg19::chr18:3411595..3411600,+p62@TGIF1
Hg19::chr18:3412005..3412009,+p49@TGIF1
Hg19::chr19:28480060..28480096,-p@chr19:28480060..28480096
-
Hg19::chr19:28480120..28480153,-p@chr19:28480120..28480153
-
Hg19::chr19:43519486..43519516,-p@chr19:43519486..43519516
-
Hg19::chr19:43821388..43821391,-p@chr19:43821388..43821391
-
Hg19::chr19:43866447..43866456,+p@chr19:43866447..43866456
+
Hg19::chr1:107328618..107328622,-p@chr1:107328618..107328622
-
Hg19::chr1:107495934..107495947,+p@chr1:107495934..107495947
+
Hg19::chr1:107495972..107495982,+p@chr1:107495972..107495982
+
Hg19::chr1:874649..874655,+p20@SAMD11
Hg19::chr1:99904362..99904371,-p@chr1:99904362..99904371
-
Hg19::chr21:30202677..30202680,+p@chr21:30202677..30202680
+
Hg19::chr22:49752643..49752667,-p@chr22:49752643..49752667
-
Hg19::chr22:49768853..49768884,+p@chr22:49768853..49768884
+
Hg19::chr22:49769834..49769843,+p@chr22:49769834..49769843
+
Hg19::chr22:49769867..49769888,+p@chr22:49769867..49769888
+
Hg19::chr22:49769903..49769910,+p@chr22:49769903..49769910
+
Hg19::chr22:49769966..49769971,+p@chr22:49769966..49769971
+
Hg19::chr22:50024141..50024142,+p@chr22:50024141..50024142
+
Hg19::chr2:178466057..178466072,+p@chr2:178466057..178466072
+
Hg19::chr2:178467784..178467793,+p2@ENST00000357045
Hg19::chr2:178467806..178467810,+p4@ENST00000357045
Hg19::chr2:178467811..178467821,+p1@ENST00000357045
Hg19::chr2:232030419..232030426,+p@chr2:232030419..232030426
+
Hg19::chr2:232030447..232030460,+p@chr2:232030447..232030460
+
Hg19::chr2:232030473..232030487,+p@chr2:232030473..232030487
+
Hg19::chr2:40548784..40548802,-p@chr2:40548784..40548802
-
Hg19::chr2:40680676..40680690,-p6@SLC8A1
Hg19::chr3:115827500..115827509,-p@chr3:115827500..115827509
-
Hg19::chr3:128208278..128208291,+p4@ENST00000473958
Hg19::chr3:154361030..154361048,-p@chr3:154361030..154361048
-
Hg19::chr4:124464955..124464980,+p@chr4:124464955..124464980
+
Hg19::chr4:4544047..4544060,-p3@STX18
Hg19::chr4:4544061..4544075,-p4@STX18
Hg19::chr4:65591752..65591762,+p@chr4:65591752..65591762
+
Hg19::chr4:65591771..65591789,+p@chr4:65591771..65591789
+
Hg19::chr4:65591798..65591800,+p@chr4:65591798..65591800
+
Hg19::chr5:74322467..74322473,-p@chr5:74322467..74322473
-
Hg19::chr5:74349970..74349983,-p@chr5:74349970..74349983
-
Hg19::chr5:74350271..74350287,-p@chr5:74350271..74350287
-
Hg19::chr5:74352282..74352286,-p@chr5:74352282..74352286
-
Hg19::chr5:75919142..75919153,-p5@F2RL2
Hg19::chr5:75919253..75919269,-p4@F2RL2
Hg19::chr5:92111748..92111752,-p@chr5:92111748..92111752
-
Hg19::chr5:92112305..92112313,-p@chr5:92112305..92112313
-
Hg19::chr6:104996260..104996271,-p@chr6:104996260..104996271
-
Hg19::chr6:104996342..104996353,-p@chr6:104996342..104996353
-
Hg19::chr6:122147424..122147433,+p@chr6:122147424..122147433
+
Hg19::chr6:57381063..57381070,-p@chr6:57381063..57381070
-
Hg19::chr7:135697276..135697294,+p@chr7:135697276..135697294
+
Hg19::chr7:135697298..135697309,+p@chr7:135697298..135697309
+
Hg19::chr7:135697397..135697402,+p@chr7:135697397..135697402
+
Hg19::chr7:151433200..151433217,-p31@PRKAG2
Hg19::chr7:25331046..25331057,+p@chr7:25331046..25331057
+
Hg19::chr7:25708292..25708320,-p@chr7:25708292..25708320
-
Hg19::chr7:25878694..25878698,+p@chr7:25878694..25878698
+
Hg19::chr7:25886548..25886557,+p@chr7:25886548..25886557
+
Hg19::chr8:105235398..105235417,+p28@RIMS2
Hg19::chr8:105235550..105235571,+p11@RIMS2
Hg19::chr8:105235572..105235610,+p4@RIMS2
Hg19::chr8:105235613..105235625,+p25@RIMS2
Hg19::chr8:105235707..105235716,+p18@RIMS2
Hg19::chr8:105360173..105360177,+p@chr8:105360173..105360177
+
Hg19::chr8:105375900..105375904,-p@chr8:105375900..105375904
-
Hg19::chr8:115798994..115799001,+p@chr8:115798994..115799001
+
Hg19::chr8:127409534..127409543,+p@chr8:127409534..127409543
+
Hg19::chr8:127434688..127434698,+p@chr8:127434688..127434698
+
Hg19::chr8:127514281..127514286,+p@chr8:127514281..127514286
+
Hg19::chr8:95333973..95333982,+p@chr8:95333973..95333982
+
Hg19::chr9:129376456..129376465,+p5@LMX1B
Hg19::chr9:3734564..3734569,+p1@BC047388
Hg19::chr9:81579274..81579286,+p@chr9:81579274..81579286
+
Hg19::chr9:9972816..9972821,-p@chr9:9972816..9972821
-
Hg19::chrX:132090091..132090097,+p@chrX:132090091..132090097
+
Hg19::chrX:132092649..132092662,-p12@HS6ST2
Hg19::chrX:13469109..13469118,+p@chrX:13469109..13469118
+
Hg19::chrY:18183164..18183170,+p@chrY:18183164..18183170
+


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 organism1.48e-12115
anterior region of body4.70e-11129
craniocervical region4.70e-11129
central nervous system7.50e-1182
regional part of nervous system7.63e-1194
nervous system7.63e-1194
head2.09e-10123
ectoderm-derived structure4.68e-10169
ectoderm1.87e-09173
presumptive ectoderm1.87e-09173
organ6.73e-09511
brain6.82e-0969
future brain6.82e-0969
organism subdivision1.01e-08365
regional part of brain1.22e-0859
neural tube1.30e-0857
neural rod1.30e-0857
future spinal cord1.30e-0857
neural keel1.30e-0857
neural plate2.27e-0886
presumptive neural plate2.27e-0886
regional part of forebrain3.17e-0841
forebrain3.17e-0841
future forebrain3.17e-0841
anterior neural tube8.86e-0842
neurectoderm1.42e-0790
cerebral hemisphere1.80e-0732
gray matter2.24e-0734
brain grey matter2.24e-0734
pre-chordal neural plate2.50e-0761
telencephalon2.84e-0734
regional part of cerebral cortex3.08e-0722
regional part of telencephalon6.69e-0733
neocortex8.11e-0720


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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