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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0976894573070202,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.152691370679199,0,0,0,0,0,0,0,0,0,0,0,0,0,0.193599877289334,0.29918450819937,0.158087558450818,0,0,0,0,0,0,0,0,0.0285370623344958,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.02414100236309,0,0,0,0,0.0325594900422539,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.295975765237541,0.0509235292940968,0,0,0,0,0,0,0,0,0,0,0.358554296793487,0.395190576320592,0.437271843615203,0.311673212279613,0.385939422298189,0.12977112683364,0.17925185317339,0.112180027992754,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.119129528926274,0.114803811732104,0.0761160374363268,0,0,0.0700105375182695,0,0,0,0.0394017081901728,0.0773548534010084,0,0.151024605208503,0.0394351756113673,0.579991369978722,0.432021271344033,0.731731250710717,0.45222541124827,0.554576729521742,0.393023414772877,0.508691809213704,0.257763021993847,0.29710415215053,0.270394681419558,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.126461496087169,0.268689808012927,0.346384054006782,0.436312300126119,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.199298378195436,0,0,0,0,0.0247303181325564,0.0244872863598586,0.0330027737817202,0,0,0,0,0,0,0,0,0,0,0,0,0,0.11428178837956,0,0,0,0,0,0,0.121379398987212,0,0,0,0.0875202903085915,0,0,0.0971129207812672,0,0.0716031666430115,0.0216534965544966,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.23808117173955,0.252157064595233,0.352659226235598,0,0.176546191435317,0,0,0,0,0,0,0,0,0,0,0.081914003768173,0,0.0684580848992459,0,0,0.0366471485294105,0.0871588832444397,0.040679966067952,0.107665206991628,0.0978461107777356,0,0.0375226752578547,0.0567146198773073,0.051627820512194,0.0570339178598996,0,0.0476191773904887,0.0766073954291401,0.074930558382725,0.0858532545793502,0.0640168649599105,0.0354759961767123,0.0464368173027965,0.0294684307081759,0.0569785733435272,0.0830715518132696,0.0364791508700876,0.18359421108913,0.0798283833100081,0,0.112346887556877,0.0952696640988666,0,0.0898938257864661,0.0383032227056179,0,0.0456455446387725,0,0.140689222355642,0,0
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|gostat_on_MCL_coexpression=GO:0004441;inositol-1,4-bisphosphate 1-phosphatase activity;0.00657426176518928;16329!GO:0016312;inositol bisphosphate phosphatase activity;0.00657426176518928;16329!GO:0007389;pattern specification process;0.0129813833085202;15395,15431!GO:0031403;lithium ion binding;0.0159556319171046;16329!GO:0005667;transcription factor complex;0.0159556319171046;15395,15431!GO:0043565;sequence-specific DNA binding;0.0159556319171046;15395,15431!GO:0001759;induction of an organ;0.0159556319171046;15431!GO:0010092;specification of organ identity;0.0159556319171046;15431!GO:0009887;organ morphogenesis;0.0159556319171046;15395,15431!GO:0045168;cell-cell signaling during cell fate commitment;0.0159556319171046;15431!GO:0031128;induction;0.0159556319171046;15431!GO:0044451;nucleoplasm part;0.0159556319171046;15395,15431!GO:0005654;nucleoplasm;0.0161620160741983;15395,15431!GO:0031981;nuclear lumen;0.0211286186982944;15395,15431!GO:0031974;membrane-enclosed lumen;0.0231664287513844;15395,15431!GO:0043233;organelle lumen;0.0231664287513844;15395,15431!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0231664287513844;16329!GO:0003700;transcription factor activity;0.0250814589184038;15395,15431!GO:0001656;metanephros development;0.0310662268751669;15431!GO:0044428;nuclear part;0.0328573178241881;15395,15431!GO:0009653;anatomical structure morphogenesis;0.0404475687807701;15395,15431!GO:0001822;kidney development;0.0434573076263936;15431!GO:0001655;urogenital system development;0.0449695900056938;15431!GO:0048513;organ development;0.0499652509385794;15395,15431!
|gostat_on_MCL_coexpression=GO:0004441;inositol-1,4-bisphosphate 1-phosphatase activity;0.00657426176518928;16329!GO:0016312;inositol bisphosphate phosphatase activity;0.00657426176518928;16329!GO:0007389;pattern specification process;0.0129813833085202;15395,15431!GO:0031403;lithium ion binding;0.0159556319171046;16329!GO:0005667;transcription factor complex;0.0159556319171046;15395,15431!GO:0043565;sequence-specific DNA binding;0.0159556319171046;15395,15431!GO:0001759;induction of an organ;0.0159556319171046;15431!GO:0010092;specification of organ identity;0.0159556319171046;15431!GO:0009887;organ morphogenesis;0.0159556319171046;15395,15431!GO:0045168;cell-cell signaling during cell fate commitment;0.0159556319171046;15431!GO:0031128;induction;0.0159556319171046;15431!GO:0044451;nucleoplasm part;0.0159556319171046;15395,15431!GO:0005654;nucleoplasm;0.0161620160741983;15395,15431!GO:0031981;nuclear lumen;0.0211286186982944;15395,15431!GO:0031974;membrane-enclosed lumen;0.0231664287513844;15395,15431!GO:0043233;organelle lumen;0.0231664287513844;15395,15431!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0231664287513844;16329!GO:0003700;transcription factor activity;0.0250814589184038;15395,15431!GO:0001656;metanephros development;0.0310662268751669;15431!GO:0044428;nuclear part;0.0328573178241881;15395,15431!GO:0009653;anatomical structure morphogenesis;0.0404475687807701;15395,15431!GO:0001822;kidney development;0.0434573076263936;15431!GO:0001655;urogenital system development;0.0449695900056938;15431!GO:0048513;organ development;0.0499652509385794;15395,15431!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000489!1.10e-17!21;UBERON:0002113!6.40e-15!14;UBERON:0003918!6.40e-15!14;UBERON:0011143!6.40e-15!14;UBERON:0005095!6.40e-15!14;UBERON:0007687!6.40e-15!14;UBERON:0006554!1.41e-14!18;UBERON:0001008!1.53e-13!19;UBERON:0002102!1.83e-09!7;UBERON:0004710!1.83e-09!7;UBERON:0005419!1.83e-09!7;UBERON:0005417!1.83e-09!7;UBERON:0005729!1.83e-09!7;UBERON:0010708!4.66e-08!8;UBERON:0005156!5.28e-07!26;UBERON:0000990!5.28e-07!26;UBERON:0000474!8.85e-07!9
}}
}}

Revision as of 16:52, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr1:52851770..52851774,-p11@Inpp1
Mm9::chr2:74517609..74517621,+p3@Hoxd11
Mm9::chr2:74518687..74518718,+p@chr2:74518687..74518718
+
Mm9::chr2:74521950..74521958,+p@chr2:74521950..74521958
+
Mm9::chr2:74524610..74524614,+p@chr2:74524610..74524614
+
Mm9::chr6:52190760..52190767,-p9@Hoxa10


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:0004441inositol-1,4-bisphosphate 1-phosphatase activity0.00657426176518928
GO:0016312inositol bisphosphate phosphatase activity0.00657426176518928
GO:0007389pattern specification process0.0129813833085202
GO:0031403lithium ion binding0.0159556319171046
GO:0005667transcription factor complex0.0159556319171046
GO:0043565sequence-specific DNA binding0.0159556319171046
GO:0001759induction of an organ0.0159556319171046
GO:0010092specification of organ identity0.0159556319171046
GO:0009887organ morphogenesis0.0159556319171046
GO:0045168cell-cell signaling during cell fate commitment0.0159556319171046
GO:0031128induction0.0159556319171046
GO:0044451nucleoplasm part0.0159556319171046
GO:0005654nucleoplasm0.0161620160741983
GO:0031981nuclear lumen0.0211286186982944
GO:0031974membrane-enclosed lumen0.0231664287513844
GO:0043233organelle lumen0.0231664287513844
GO:0004437inositol or phosphatidylinositol phosphatase activity0.0231664287513844
GO:0003700transcription factor activity0.0250814589184038
GO:0001656metanephros development0.0310662268751669
GO:0044428nuclear part0.0328573178241881
GO:0009653anatomical structure morphogenesis0.0404475687807701
GO:0001822kidney development0.0434573076263936
GO:0001655urogenital system development0.0449695900056938
GO:0048513organ development0.0499652509385794



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
cavitated compound organ1.10e-1721
kidney6.40e-1514
kidney mesenchyme6.40e-1514
upper urinary tract6.40e-1514
kidney rudiment6.40e-1514
kidney field6.40e-1514
urinary system structure1.41e-1418
renal system1.53e-1319
forelimb1.83e-097
pectoral appendage1.83e-097
pectoral appendage bud1.83e-097
forelimb bud1.83e-097
forelimb/pectoral fin field1.83e-097
pectoral complex4.66e-088
reproductive structure5.28e-0726
reproductive system5.28e-0726
female reproductive system8.85e-079


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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