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MCL coexpression mm9:566: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0016872;intramolecular lyase activity;0.00887525338300554;71780!GO:0004512;inositol-3-phosphate synthase activity;0.00887525338300554;71780!GO:0006021;inositol biosynthetic process;0.0118326986534109;71780!GO:0008307;structural constituent of muscle;0.0319299110327307;11468!GO:0006020;inositol metabolic process;0.0319299110327307;71780!GO:0004198;calcium-dependent cysteine-type endopeptidase activity;0.0413736186750924;12337!GO:0005884;actin filament;0.0442888132739544;11468!GO:0019319;hexose biosynthetic process;0.0442888132739544;71780!GO:0046165;alcohol biosynthetic process;0.0442888132739544;71780!GO:0046364;monosaccharide biosynthetic process;0.0442888132739544;71780!
|gostat_on_MCL_coexpression=GO:0016872;intramolecular lyase activity;0.00887525338300554;71780!GO:0004512;inositol-3-phosphate synthase activity;0.00887525338300554;71780!GO:0006021;inositol biosynthetic process;0.0118326986534109;71780!GO:0008307;structural constituent of muscle;0.0319299110327307;11468!GO:0006020;inositol metabolic process;0.0319299110327307;71780!GO:0004198;calcium-dependent cysteine-type endopeptidase activity;0.0413736186750924;12337!GO:0005884;actin filament;0.0442888132739544;11468!GO:0019319;hexose biosynthetic process;0.0442888132739544;71780!GO:0046165;alcohol biosynthetic process;0.0442888132739544;71780!GO:0046364;monosaccharide biosynthetic process;0.0442888132739544;71780!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004175!6.24e-13!9;UBERON:0005156!1.09e-12!26;UBERON:0000990!1.09e-12!26;UBERON:0000474!1.25e-12!9;UBERON:0001301!1.75e-10!3;UBERON:0006555!1.75e-10!3;UBERON:0005103!1.75e-10!3;UBERON:0000083!1.75e-10!3;UBERON:0009201!1.75e-10!3;UBERON:0004819!1.75e-10!3;UBERON:0006553!1.75e-10!3;UBERON:0003074!1.75e-10!3;UBERON:0003060!1.75e-10!3;UBERON:0003100!2.21e-10!11;UBERON:0003133!3.11e-10!24;UBERON:0006834!1.84e-08!1;UBERON:0003134!2.13e-08!8;UBERON:0000993!2.98e-08!1;UBERON:0000080!4.46e-08!4;UBERON:0005904!4.46e-08!4;UBERON:0006947!4.46e-08!4;UBERON:0002120!4.46e-08!4;UBERON:0004054!4.46e-08!4;UBERON:0004875!4.46e-08!4;UBERON:0004876!4.46e-08!4;UBERON:0005721!4.46e-08!4;UBERON:0005754!4.46e-08!4;UBERON:0007297!4.46e-08!4;UBERON:0005795!5.22e-08!4;UBERON:0000995!5.22e-08!4
}}
}}

Revision as of 20:54, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:106751621..106751633,+p1@uc007oyl.1
Mm9::chr12:86630582..86630610,+p@chr12:86630582..86630610
+
Mm9::chr13:106083084..106083095,-p5@Rnf180
Mm9::chr13:106084737..106084746,-p7@Rnf180
Mm9::chr15:99365295..99365313,-p@chr15:99365295..99365313
-
Mm9::chr16:92052545..92052547,+p@chr16:92052545..92052547
+
Mm9::chr2:142705361..142705372,-p@chr2:142705361..142705372
-
Mm9::chr3:131159868..131159874,+p@chr3:131159868..131159874
+
Mm9::chr6:83486463..83486470,-p10@Actg2
Mm9::chr7:105310967..105310981,-p7@Capn5
Mm9::chr7:105327399..105327404,-p@chr7:105327399..105327404
-
Mm9::chr7:138455776..138455787,-p@chr7:138455776..138455787
-
Mm9::chr8:73118365..73118411,+p1@Isyna1


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:0016872intramolecular lyase activity0.00887525338300554
GO:0004512inositol-3-phosphate synthase activity0.00887525338300554
GO:0006021inositol biosynthetic process0.0118326986534109
GO:0008307structural constituent of muscle0.0319299110327307
GO:0006020inositol metabolic process0.0319299110327307
GO:0004198calcium-dependent cysteine-type endopeptidase activity0.0413736186750924
GO:0005884actin filament0.0442888132739544
GO:0019319hexose biosynthetic process0.0442888132739544
GO:0046165alcohol biosynthetic process0.0442888132739544
GO:0046364monosaccharide biosynthetic process0.0442888132739544



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
internal genitalia6.24e-139
reproductive structure1.09e-1226
reproductive system1.09e-1226
female reproductive system1.25e-129
epididymis1.75e-103
excretory tube1.75e-103
mesonephric epithelium1.75e-103
mesonephric tubule1.75e-103
nephric duct1.75e-103
kidney epithelium1.75e-103
renal duct1.75e-103
mesonephric duct1.75e-103
pronephric duct1.75e-103
female organism2.21e-1011
reproductive organ3.11e-1024
uterus or analog1.84e-081
female reproductive organ2.13e-088
oviduct2.98e-081
mesonephros4.46e-084
duct of male reproductive system4.46e-084
male genital duct4.46e-084
pronephros4.46e-084
internal male genitalia4.46e-084
nephrogenic cord4.46e-084
urogenital ridge4.46e-084
pronephric mesoderm4.46e-084
rostral part of nephrogenic cord4.46e-084
presumptive pronephric mesoderm4.46e-084
embryonic uterus5.22e-084
uterus5.22e-084


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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