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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.109123086691028,0,0,0,0,0,0.140841653605462,0.0620577069359474,0,0,0,0,0,0,0.112145192034931,0.0578074284787346,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111524892460631,0,0,0,0,0,0.0606187686764715,0,0,0.0696031033168343,0,0.0819907263755358,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0828894264954325,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.255936214892323,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.123777349320174,0,0,0,0,0,0.979073026197436,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.109123086691028,0,0,0,0,0,0.140841653605462,0.0620577069359474,0,0,0,0,0,0,0.112145192034931,0.0578074284787346,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111524892460631,0,0,0,0,0,0.0606187686764715,0,0,0.0696031033168343,0,0.0819907263755358,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0828894264954325,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.255936214892323,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.123777349320174,0,0,0,0,0,0.979073026197436,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0007389;pattern specification process;0.00827033798700138;15405,15426,15416!GO:0005667;transcription factor complex;0.0143546493148905;15405,15426,15416!GO:0043565;sequence-specific DNA binding;0.0143546493148905;15405,15426,15416!GO:0009887;organ morphogenesis;0.0143546493148905;15405,15426,15416!GO:0044451;nucleoplasm part;0.0143546493148905;15405,15426,15416!GO:0019911;structural constituent of myelin sheath;0.0143546493148905;17196!GO:0005654;nucleoplasm;0.0143546493148905;15405,15426,15416!GO:0031981;nuclear lumen;0.0195844888714347;15405,15426,15416!GO:0048731;system development;0.0195844888714347;15405,17196,15426,15416!GO:0043209;myelin sheath;0.0195844888714347;17196!GO:0031974;membrane-enclosed lumen;0.0195844888714347;15405,15426,15416!GO:0043233;organelle lumen;0.0195844888714347;15405,15426,15416!GO:0003700;transcription factor activity;0.023674088094386;15405,15426,15416!GO:0003677;DNA binding;0.02392543120091;15405,104457,15426,15416!GO:0048856;anatomical structure development;0.0250669350689919;15405,17196,15426,15416!GO:0005391;sodium:potassium-exchanging ATPase activity;0.0282412137328525;11931!GO:0044428;nuclear part;0.0312030793391585;15405,15426,15416!GO:0007275;multicellular organismal development;0.0317422487954817;15405,17196,15426,15416!GO:0009653;anatomical structure morphogenesis;0.0387280015869857;15405,15426,15416!GO:0005634;nucleus;0.0387280015869857;15405,17196,104457,15426,15416!
|gostat_on_MCL_coexpression=GO:0007389;pattern specification process;0.00827033798700138;15405,15426,15416!GO:0005667;transcription factor complex;0.0143546493148905;15405,15426,15416!GO:0043565;sequence-specific DNA binding;0.0143546493148905;15405,15426,15416!GO:0009887;organ morphogenesis;0.0143546493148905;15405,15426,15416!GO:0044451;nucleoplasm part;0.0143546493148905;15405,15426,15416!GO:0019911;structural constituent of myelin sheath;0.0143546493148905;17196!GO:0005654;nucleoplasm;0.0143546493148905;15405,15426,15416!GO:0031981;nuclear lumen;0.0195844888714347;15405,15426,15416!GO:0048731;system development;0.0195844888714347;15405,17196,15426,15416!GO:0043209;myelin sheath;0.0195844888714347;17196!GO:0031974;membrane-enclosed lumen;0.0195844888714347;15405,15426,15416!GO:0043233;organelle lumen;0.0195844888714347;15405,15426,15416!GO:0003700;transcription factor activity;0.023674088094386;15405,15426,15416!GO:0003677;DNA binding;0.02392543120091;15405,104457,15426,15416!GO:0048856;anatomical structure development;0.0250669350689919;15405,17196,15426,15416!GO:0005391;sodium:potassium-exchanging ATPase activity;0.0282412137328525;11931!GO:0044428;nuclear part;0.0312030793391585;15405,15426,15416!GO:0007275;multicellular organismal development;0.0317422487954817;15405,17196,15426,15416!GO:0009653;anatomical structure morphogenesis;0.0387280015869857;15405,15426,15416!GO:0005634;nucleus;0.0387280015869857;15405,17196,104457,15426,15416!
|ontology_enrichment_celltype=CL:0002610!5.01e-10!3;CL:0002612!7.57e-10!3;CL:0000117!2.51e-07!23;CL:0000337!2.51e-07!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003076!2.07e-20!12;UBERON:0003057!2.07e-20!12;UBERON:0002240!1.62e-18!6;UBERON:0005174!1.62e-18!6;UBERON:0001137!1.62e-18!6;UBERON:0000073!4.61e-14!54;UBERON:0001948!1.06e-12!5;UBERON:0002315!1.06e-12!5;UBERON:0001017!2.90e-12!73;UBERON:0001049!4.42e-12!52;UBERON:0005068!4.42e-12!52;UBERON:0006241!4.42e-12!52;UBERON:0007135!4.42e-12!52;UBERON:0001016!6.62e-12!75;UBERON:0004121!5.96e-11!95;UBERON:0000924!5.96e-11!95;UBERON:0006601!5.96e-11!95;UBERON:0010371!3.33e-10!73;UBERON:0004684!5.01e-10!3;UBERON:0002275!5.01e-10!3;UBERON:0002257!7.57e-10!3;UBERON:0002346!1.27e-09!64;UBERON:0003075!1.27e-09!64;UBERON:0007284!1.27e-09!64;UBERON:0007023!6.85e-08!51;UBERON:0002259!8.96e-08!1;UBERON:0002314!8.96e-08!1;UBERON:0004061!8.96e-08!1;UBERON:0006777!8.96e-08!1;UBERON:0005882!8.96e-08!1
}}
}}

Revision as of 19:25, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:70051966..70051977,-p10@0610010K14Rik
Mm9::chr11:96144576..96144603,+p@chr11:96144576..96144603
+
Mm9::chr13:100202763..100202778,-p@chr13:100202763..100202778
-
Mm9::chr14:70934216..70934228,+p@chr14:70934216..70934228
+
Mm9::chr15:102821294..102821313,+p@chr15:102821294..102821313
+
Mm9::chr15:102821339..102821340,+p@chr15:102821339..102821340
+
Mm9::chr15:102821346..102821356,+p@chr15:102821346..102821356
+
Mm9::chr15:102821366..102821371,+p@chr15:102821366..102821371
+
Mm9::chr15:102821380..102821383,+p@chr15:102821380..102821383
+
Mm9::chr15:102821403..102821417,+p@chr15:102821403..102821417
+
Mm9::chr15:102821425..102821431,+p@chr15:102821425..102821431
+
Mm9::chr15:102821435..102821440,+p@chr15:102821435..102821440
+
Mm9::chr17:57220379..57220392,-p@chr17:57220379..57220392
-
Mm9::chr18:82754269..82754276,+p@chr18:82754269..82754276
+
Mm9::chr18:82754540..82754546,+p@chr18:82754540..82754546
+
Mm9::chr19:37097697..37097707,-p@chr19:37097697..37097707
-
Mm9::chr1:166368662..166368670,-p@chr1:166368662..166368670
-
Mm9::chr1:33921508..33921524,-p@chr1:33921508..33921524
-
Mm9::chr1:36756619..36756623,-p@chr1:36756619..36756623
-
Mm9::chr1:74399021..74399042,+p@chr1:74399021..74399042
+
Mm9::chr2:121131721..121131727,+p@chr2:121131721..121131727
+
Mm9::chr4:86873494..86873500,-p@chr4:86873494..86873500
-
Mm9::chr6:126588640..126588687,-p@chr6:126588640..126588687
-
Mm9::chr6:30754100..30754109,+p@chr6:30754100..30754109
+
Mm9::chr6:52175821..52175863,-p@chr6:52175821..52175863
-
Mm9::chr7:25766629..25766641,-p@chr7:25766629..25766641
-
Mm9::chr9:103085667..103085678,+p@chr9:103085667..103085678
+


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:0007389pattern specification process0.00827033798700138
GO:0005667transcription factor complex0.0143546493148905
GO:0043565sequence-specific DNA binding0.0143546493148905
GO:0009887organ morphogenesis0.0143546493148905
GO:0044451nucleoplasm part0.0143546493148905
GO:0019911structural constituent of myelin sheath0.0143546493148905
GO:0005654nucleoplasm0.0143546493148905
GO:0031981nuclear lumen0.0195844888714347
GO:0048731system development0.0195844888714347
GO:0043209myelin sheath0.0195844888714347
GO:0031974membrane-enclosed lumen0.0195844888714347
GO:0043233organelle lumen0.0195844888714347
GO:0003700transcription factor activity0.023674088094386
GO:0003677DNA binding0.02392543120091
GO:0048856anatomical structure development0.0250669350689919
GO:0005391sodium:potassium-exchanging ATPase activity0.0282412137328525
GO:0044428nuclear part0.0312030793391585
GO:0007275multicellular organismal development0.0317422487954817
GO:0009653anatomical structure morphogenesis0.0387280015869857
GO:0005634nucleus0.0387280015869857



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

Uber Anatomy
Ontology termp-valuen
posterior neural tube2.07e-2012
chordal neural plate2.07e-2012
spinal cord1.62e-186
dorsal region element1.62e-186
dorsum1.62e-186
regional part of nervous system4.61e-1454
regional part of spinal cord1.06e-125
gray matter of spinal cord1.06e-125
central nervous system2.90e-1273
neural tube4.42e-1252
neural rod4.42e-1252
future spinal cord4.42e-1252
neural keel4.42e-1252
nervous system6.62e-1275
ectoderm-derived structure5.96e-1195
ectoderm5.96e-1195
presumptive ectoderm5.96e-1195
ecto-epithelium3.33e-1073
raphe nuclei5.01e-103
reticular formation5.01e-103
ventral horn of spinal cord7.57e-103
neurectoderm1.27e-0964
neural plate1.27e-0964
presumptive neural plate1.27e-0964
adult organism6.85e-0851
corpora quadrigemina8.96e-081
midbrain tectum8.96e-081
neural tube mantle layer8.96e-081
tectal plate8.96e-081
neural tube alar plate8.96e-081


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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