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MCL coexpression mm9:507: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0004691;cAMP-dependent protein kinase activity;0.00602640661809018;18749!GO:0004690;cyclic nucleotide-dependent protein kinase activity;0.00602640661809018;18749!GO:0005952;cAMP-dependent protein kinase complex;0.00903960992713527;18749!GO:0007188;G-protein signaling, coupled to cAMP nucleotide second messenger;0.0271188297814058;18749!GO:0007187;G-protein signaling, coupled to cyclic nucleotide second messenger;0.0271188297814058;18749!GO:0019933;cAMP-mediated signaling;0.0271188297814058;18749!GO:0019935;cyclic-nucleotide-mediated signaling;0.0271188297814058;18749!GO:0019932;second-messenger-mediated signaling;0.0463280008765682;18749!
|gostat_on_MCL_coexpression=GO:0004691;cAMP-dependent protein kinase activity;0.00602640661809018;18749!GO:0004690;cyclic nucleotide-dependent protein kinase activity;0.00602640661809018;18749!GO:0005952;cAMP-dependent protein kinase complex;0.00903960992713527;18749!GO:0007188;G-protein signaling, coupled to cAMP nucleotide second messenger;0.0271188297814058;18749!GO:0007187;G-protein signaling, coupled to cyclic nucleotide second messenger;0.0271188297814058;18749!GO:0019933;cAMP-mediated signaling;0.0271188297814058;18749!GO:0019935;cyclic-nucleotide-mediated signaling;0.0271188297814058;18749!GO:0019932;second-messenger-mediated signaling;0.0463280008765682;18749!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004122!1.10e-11!5;UBERON:0000080!8.19e-10!4;UBERON:0005904!8.19e-10!4;UBERON:0006947!8.19e-10!4;UBERON:0002120!8.19e-10!4;UBERON:0004054!8.19e-10!4;UBERON:0004875!8.19e-10!4;UBERON:0004876!8.19e-10!4;UBERON:0005721!8.19e-10!4;UBERON:0005754!8.19e-10!4;UBERON:0007297!8.19e-10!4;UBERON:0005156!9.47e-10!26;UBERON:0000990!9.47e-10!26;UBERON:0004175!6.82e-09!9;UBERON:0001008!7.56e-08!19;UBERON:0000161!7.88e-08!5;UBERON:0000162!9.11e-08!3;UBERON:0001353!9.11e-08!3;UBERON:0000163!9.11e-08!3;UBERON:0006866!9.11e-08!3;UBERON:0001046!9.11e-08!3;UBERON:0000164!9.11e-08!3;UBERON:0000931!9.11e-08!3;UBERON:0003101!9.69e-08!16;UBERON:0000079!9.69e-08!16;UBERON:0001301!1.11e-07!3;UBERON:0006555!1.11e-07!3;UBERON:0005103!1.11e-07!3;UBERON:0000083!1.11e-07!3;UBERON:0009201!1.11e-07!3;UBERON:0004819!1.11e-07!3;UBERON:0006553!1.11e-07!3;UBERON:0003074!1.11e-07!3;UBERON:0003060!1.11e-07!3;UBERON:0003064!2.54e-07!14;UBERON:0003133!3.10e-07!24
}}
}}

Revision as of 20:48, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127470688..127470731,+p@chr10:127470688..127470731
+
Mm9::chr14:63585020..63585025,-p@chr14:63585020..63585025
-
Mm9::chr14:63585028..63585037,-p@chr14:63585028..63585037
-
Mm9::chr14:63585048..63585062,-p@chr14:63585048..63585062
-
Mm9::chr15:37163047..37163087,-p1@ENSMUST00000160264
Mm9::chr15:85476119..85476143,+p2@uc007xdi.1
Mm9::chr18:44413512..44413521,-p@chr18:44413512..44413521
-
Mm9::chr1:155964760..155964772,-p1@uc007das.1
Mm9::chr3:146444177..146444215,-p@chr3:146444177..146444215
-
Mm9::chr4:46614213..46614246,+p@chr4:46614213..46614246
+
Mm9::chr4:61941433..61941455,+p@chr4:61941433..61941455
+
Mm9::chr7:116781120..116781134,-p@chr7:116781120..116781134
-
Mm9::chr7:135148666..135148682,-p1@ENSMUST00000126205
Mm9::chrX:105011839..105011859,+p2@Fam46d


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:0004691cAMP-dependent protein kinase activity0.00602640661809018
GO:0004690cyclic nucleotide-dependent protein kinase activity0.00602640661809018
GO:0005952cAMP-dependent protein kinase complex0.00903960992713527
GO:0007188G-protein signaling, coupled to cAMP nucleotide second messenger0.0271188297814058
GO:0007187G-protein signaling, coupled to cyclic nucleotide second messenger0.0271188297814058
GO:0019933cAMP-mediated signaling0.0271188297814058
GO:0019935cyclic-nucleotide-mediated signaling0.0271188297814058
GO:0019932second-messenger-mediated signaling0.0463280008765682



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
genitourinary system1.10e-115
mesonephros8.19e-104
duct of male reproductive system8.19e-104
male genital duct8.19e-104
pronephros8.19e-104
internal male genitalia8.19e-104
nephrogenic cord8.19e-104
urogenital ridge8.19e-104
pronephric mesoderm8.19e-104
rostral part of nephrogenic cord8.19e-104
presumptive pronephric mesoderm8.19e-104
reproductive structure9.47e-1026
reproductive system9.47e-1026
internal genitalia6.82e-099
renal system7.56e-0819
orifice7.88e-085
cloaca9.11e-083
anal region9.11e-083
embryonic cloaca9.11e-083
terminal part of digestive tract9.11e-083
hindgut9.11e-083
primitive urogenital sinus9.11e-083
proctodeum9.11e-083
male organism9.69e-0816
male reproductive system9.69e-0816
epididymis1.11e-073
excretory tube1.11e-073
mesonephric epithelium1.11e-073
mesonephric tubule1.11e-073
nephric duct1.11e-073
kidney epithelium1.11e-073
renal duct1.11e-073
mesonephric duct1.11e-073
pronephric duct1.11e-073
intermediate mesoderm2.54e-0714
reproductive organ3.10e-0724


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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