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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.202843190349958,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0800187930544913,0,0,0,0,0,0,0,0,0,0.0428469550828748,0,0,0.00880712618426835,0.0866689030825281,0.0501827898833331,0.0397493170902889,0,0,0.179192416738202,0.164596587144155,0.0538027986792206,0.0380188235580625,0.182104477852721,0,0.327466262382121,0.282574418667431,0.275054562543737,0.268163623204797,0.137606919870727,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0482820047261801,0,0,0,0,0,0,0,0,0.484223735611534,0.545722712048794,0,0,0,0,0.446768181483998,0.451786805560604,0.176848416016191,0.489380700368651,0.609443445699942,0.351550549444719,0.469364685009239,0,0,0,0.312221647018813,0.0531247310291112,0.0142002099459408,0.0719048733411253,0.2797191536481,0.37304631592763,0.502144770246737,0.458491975783453,0.808398076760598,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.393053673693912,0.149717325850531,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.327124685314961,0.421762417454495,0,0,0.0469956815497399,0,0.00917208424058101,0,0,0,0,0.0344327979777964,0,0.656532708625096,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.12724725138213,0,0,0.0552822984450528,0.0709019855629759,0.0712812415377886,0.119319924255654,0,0,0,0,0,0.0650059127791652,0,0,0,0,0.324807369180142,0,0,0,0,0,0,0,0,0,0,0,0,0.0445418537893845,0,0,0.00339497318902303,0,0,0,0,0,0,0,0,0,0,0.0481920468563092,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.64231719678501,0.625546686111023,0.624305500144306,0.632408076723556,0.485046405834616,0.514040340140897,0.568212287967179,0.568427876181492,0.570409181558021,0.487285649470539,0,0,0.0684580848992459,0.0945084131504676,0,0,0.0871588832444397,0.081359932135904,0.120876255993453,0.0978461107777356,0.098117166361508,0.0750453505157095,0.107523539997041,0.0990244263857601,0.0690411384905589,0.169172763866184,0.129578075275077,0.141706336142815,0.14986111676545,0.112067779638927,0.128033729919821,0.10127850857519,0.169342968499384,0.110822898586572,0.10799917315244,0.126604887871452,0.135404897539632,0.101427320830301,0.148421355017489,0,0.0924644954689594,0.112441925220423,0,0.117229416500102,0.0766064454112358,0.0968441960560167,0.091291089277545,0.0845301845292944,0.0760168881589905,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.202843190349958,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0800187930544913,0,0,0,0,0,0,0,0,0,0.0428469550828748,0,0,0.00880712618426835,0.0866689030825281,0.0501827898833331,0.0397493170902889,0,0,0.179192416738202,0.164596587144155,0.0538027986792206,0.0380188235580625,0.182104477852721,0,0.327466262382121,0.282574418667431,0.275054562543737,0.268163623204797,0.137606919870727,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0482820047261801,0,0,0,0,0,0,0,0,0.484223735611534,0.545722712048794,0,0,0,0,0.446768181483998,0.451786805560604,0.176848416016191,0.489380700368651,0.609443445699942,0.351550549444719,0.469364685009239,0,0,0,0.312221647018813,0.0531247310291112,0.0142002099459408,0.0719048733411253,0.2797191536481,0.37304631592763,0.502144770246737,0.458491975783453,0.808398076760598,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.393053673693912,0.149717325850531,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.327124685314961,0.421762417454495,0,0,0.0469956815497399,0,0.00917208424058101,0,0,0,0,0.0344327979777964,0,0.656532708625096,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.12724725138213,0,0,0.0552822984450528,0.0709019855629759,0.0712812415377886,0.119319924255654,0,0,0,0,0,0.0650059127791652,0,0,0,0,0.324807369180142,0,0,0,0,0,0,0,0,0,0,0,0,0.0445418537893845,0,0,0.00339497318902303,0,0,0,0,0,0,0,0,0,0,0.0481920468563092,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.64231719678501,0.625546686111023,0.624305500144306,0.632408076723556,0.485046405834616,0.514040340140897,0.568212287967179,0.568427876181492,0.570409181558021,0.487285649470539,0,0,0.0684580848992459,0.0945084131504676,0,0,0.0871588832444397,0.081359932135904,0.120876255993453,0.0978461107777356,0.098117166361508,0.0750453505157095,0.107523539997041,0.0990244263857601,0.0690411384905589,0.169172763866184,0.129578075275077,0.141706336142815,0.14986111676545,0.112067779638927,0.128033729919821,0.10127850857519,0.169342968499384,0.110822898586572,0.10799917315244,0.126604887871452,0.135404897539632,0.101427320830301,0.148421355017489,0,0.0924644954689594,0.112441925220423,0,0.117229416500102,0.0766064454112358,0.0968441960560167,0.091291089277545,0.0845301845292944,0.0760168881589905,0,0
|gostat_on_MCL_coexpression=GO:0007527;adult somatic muscle development;0.0450262913742367;22288!GO:0007525;somatic muscle development;0.0450262913742367;22288!GO:0045176;apical protein localization;0.047395152381351;15165!GO:0008105;asymmetric protein localization;0.047395152381351;15165!GO:0030552;cAMP binding;0.047395152381351;15165!GO:0030054;cell junction;0.047395152381351;22288,108030!GO:0016010;dystrophin-associated glycoprotein complex;0.047395152381351;22288!GO:0031594;neuromuscular junction;0.047395152381351;22288!GO:0016208;AMP binding;0.047395152381351;15165!GO:0005624;membrane fraction;0.047395152381351;22288,108030!GO:0030551;cyclic nucleotide binding;0.0486781652053827;15165!GO:0000267;cell fraction;0.0486781652053827;22288,108030!
|gostat_on_MCL_coexpression=GO:0007527;adult somatic muscle development;0.0450262913742367;22288!GO:0007525;somatic muscle development;0.0450262913742367;22288!GO:0045176;apical protein localization;0.047395152381351;15165!GO:0008105;asymmetric protein localization;0.047395152381351;15165!GO:0030552;cAMP binding;0.047395152381351;15165!GO:0030054;cell junction;0.047395152381351;22288,108030!GO:0016010;dystrophin-associated glycoprotein complex;0.047395152381351;22288!GO:0031594;neuromuscular junction;0.047395152381351;22288!GO:0016208;AMP binding;0.047395152381351;15165!GO:0005624;membrane fraction;0.047395152381351;22288,108030!GO:0030551;cyclic nucleotide binding;0.0486781652053827;15165!GO:0000267;cell fraction;0.0486781652053827;22288,108030!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!3.13e-33!64;UBERON:0003075!3.13e-33!64;UBERON:0007284!3.13e-33!64;UBERON:0010371!3.97e-28!73;UBERON:0003056!8.38e-26!49;UBERON:0000073!2.37e-25!54;UBERON:0001049!2.53e-25!52;UBERON:0005068!2.53e-25!52;UBERON:0006241!2.53e-25!52;UBERON:0007135!2.53e-25!52;UBERON:0004121!5.16e-23!95;UBERON:0000924!5.16e-23!95;UBERON:0006601!5.16e-23!95;UBERON:0000955!5.87e-22!47;UBERON:0006238!5.87e-22!47;UBERON:0001017!2.72e-21!73;UBERON:0002616!7.38e-21!46;UBERON:0001016!2.65e-20!75;UBERON:0010314!1.05e-18!92;UBERON:0003080!1.70e-18!40;UBERON:0002020!1.71e-18!34;UBERON:0002780!1.44e-17!39;UBERON:0001890!1.44e-17!39;UBERON:0006240!1.44e-17!39;UBERON:0003528!3.97e-15!29;UBERON:0002791!3.97e-15!29;UBERON:0001893!3.97e-15!29;UBERON:0002021!1.45e-12!10;UBERON:0000411!1.45e-12!10;UBERON:0001950!1.45e-12!10;UBERON:0002619!2.92e-11!17;UBERON:0000956!6.82e-11!21;UBERON:0001869!6.82e-11!21;UBERON:0000203!6.82e-11!21;UBERON:0000970!2.34e-08!9;UBERON:0000019!2.34e-08!9;UBERON:0000047!2.34e-08!9;UBERON:0010312!2.34e-08!9;UBERON:0004088!2.34e-08!9;UBERON:0002104!2.34e-08!9;UBERON:0001456!2.34e-08!9;UBERON:0003072!2.34e-08!9;UBERON:0004128!2.34e-08!9;UBERON:0003071!2.34e-08!9;UBERON:0003076!2.15e-07!12;UBERON:0003057!2.15e-07!12
}}
}}

Revision as of 18:22, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:106708946..106708957,+p5@Lin7a
Mm9::chr10:108127268..108127272,-p@chr10:108127268..108127272
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Mm9::chr10:108156533..108156569,-p@chr10:108156533..108156569
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Mm9::chr10:108233957..108233960,-p@chr10:108233957..108233960
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Mm9::chr10:12334395..12334415,-p@chr10:12334395..12334415
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Mm9::chr11:71949239..71949277,-p2@Pitpnm3
Mm9::chr11:71949307..71949338,-p1@Pitpnm3
Mm9::chr11:81406616..81406620,-p@chr11:81406616..81406620
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Mm9::chr11:81672225..81672230,-p@chr11:81672225..81672230
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Mm9::chr11:81715436..81715440,-p@chr11:81715436..81715440
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Mm9::chr12:68310507..68310511,-p@chr12:68310507..68310511
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Mm9::chr12:90228593..90228596,+p@chr12:90228593..90228596
+
Mm9::chr13:118391246..118391289,+p1@Hcn1
Mm9::chr13:118391309..118391320,+p3@Hcn1
Mm9::chr13:118455291..118455321,+p@chr13:118455291..118455321
+
Mm9::chr13:118760390..118760404,+p@chr13:118760390..118760404
+
Mm9::chr13:83941333..83941334,+p@chr13:83941333..83941334
+
Mm9::chr15:30428335..30428338,+p@chr15:30428335..30428338
+
Mm9::chr16:67016500..67016503,-p@chr16:67016500..67016503
-
Mm9::chr16:67072872..67072875,-p@chr16:67072872..67072875
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Mm9::chr16:67183079..67183083,-p@chr16:67183079..67183083
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Mm9::chr16:67197782..67197787,-p@chr16:67197782..67197787
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Mm9::chr16:67278513..67278517,-p@chr16:67278513..67278517
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Mm9::chr16:67546202..67546209,-p@chr16:67546202..67546209
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Mm9::chr16:67584380..67584385,-p@chr16:67584380..67584385
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Mm9::chr16:67588908..67588910,-p@chr16:67588908..67588910
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Mm9::chr16:96924395..96924401,-p@chr16:96924395..96924401
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Mm9::chr1:81184077..81184080,+p@chr1:81184077..81184080
+
Mm9::chr2:32680478..32680482,-p@chr2:32680478..32680482
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Mm9::chr2:77544119..77544130,-p@chr2:77544119..77544130
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Mm9::chr5:14521703..14521719,+p@chr5:14521703..14521719
+
Mm9::chr6:9055073..9055074,+p@chr6:9055073..9055074
+
Mm9::chr7:64989729..64989734,+p@chr7:64989729..64989734
+
Mm9::chr7:72597794..72597797,-p@chr7:72597794..72597797
-
Mm9::chr7:99384678..99384683,+p@chr7:99384678..99384683
+


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

GO IDGO nameFDR corrected p-value
GO:0007527adult somatic muscle development0.0450262913742367
GO:0007525somatic muscle development0.0450262913742367
GO:0045176apical protein localization0.047395152381351
GO:0008105asymmetric protein localization0.047395152381351
GO:0030552cAMP binding0.047395152381351
GO:0030054cell junction0.047395152381351
GO:0016010dystrophin-associated glycoprotein complex0.047395152381351
GO:0031594neuromuscular junction0.047395152381351
GO:0016208AMP binding0.047395152381351
GO:0005624membrane fraction0.047395152381351
GO:0030551cyclic nucleotide binding0.0486781652053827
GO:0000267cell fraction0.0486781652053827



Relative expression of the co-expression cluster over median <br>Analyst:




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
neurectoderm3.13e-3364
neural plate3.13e-3364
presumptive neural plate3.13e-3364
ecto-epithelium3.97e-2873
pre-chordal neural plate8.38e-2649
regional part of nervous system2.37e-2554
neural tube2.53e-2552
neural rod2.53e-2552
future spinal cord2.53e-2552
neural keel2.53e-2552
ectoderm-derived structure5.16e-2395
ectoderm5.16e-2395
presumptive ectoderm5.16e-2395
brain5.87e-2247
future brain5.87e-2247
central nervous system2.72e-2173
regional part of brain7.38e-2146
nervous system2.65e-2075
structure with developmental contribution from neural crest1.05e-1892
anterior neural tube1.70e-1840
gray matter1.71e-1834
regional part of forebrain1.44e-1739
forebrain1.44e-1739
future forebrain1.44e-1739
brain grey matter3.97e-1529
regional part of telencephalon3.97e-1529
telencephalon3.97e-1529
occipital lobe1.45e-1210
visual cortex1.45e-1210
neocortex1.45e-1210
regional part of cerebral cortex2.92e-1117
cerebral cortex6.82e-1121
cerebral hemisphere6.82e-1121
pallium6.82e-1121
eye2.34e-089
camera-type eye2.34e-089
simple eye2.34e-089
immature eye2.34e-089
ocular region2.34e-089
visual system2.34e-089
face2.34e-089
optic cup2.34e-089
optic vesicle2.34e-089
eye primordium2.34e-089
posterior neural tube2.15e-0712
chordal neural plate2.15e-0712


TFBS overrepresentation<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}}}

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