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MCL coexpression mm9:242: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0007519;skeletal muscle development;0.00734772280482354;215031,11435,17878!GO:0014706;striated muscle development;0.00775833203002776;215031,11435,17878!GO:0007517;muscle development;0.0129032388852135;215031,11435,17878!
|gostat_on_MCL_coexpression=GO:0007519;skeletal muscle development;0.00734772280482354;215031,11435,17878!GO:0014706;striated muscle development;0.00775833203002776;215031,11435,17878!GO:0007517;muscle development;0.0129032388852135;215031,11435,17878!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003102!1.60e-10!22;UBERON:0000026!2.70e-09!12;UBERON:0004708!2.70e-09!12;UBERON:0002101!2.70e-09!12;UBERON:0004357!2.70e-09!12;UBERON:0004347!2.70e-09!12;UBERON:0005732!2.70e-09!12;UBERON:0005733!2.70e-09!12;UBERON:0010707!2.36e-08!13;UBERON:0001444!5.10e-07!11;UBERON:0000970!7.60e-07!9;UBERON:0000019!7.60e-07!9;UBERON:0000047!7.60e-07!9;UBERON:0010312!7.60e-07!9;UBERON:0004088!7.60e-07!9;UBERON:0002104!7.60e-07!9;UBERON:0001456!7.60e-07!9;UBERON:0003072!7.60e-07!9;UBERON:0004128!7.60e-07!9;UBERON:0003071!7.60e-07!9
}}
}}

Revision as of 18:26, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:106931839..106931851,-p3@Myf6
Mm9::chr10:51742326..51742340,+p1@Vgll2
Mm9::chr10:88000033..88000035,-p@chr10:88000033..88000035
-
Mm9::chr10:88046497..88046508,-p@chr10:88046497..88046508
-
Mm9::chr10:88067762..88067778,-p1@Mybpc1
Mm9::chr11:107577727..107577734,-p6@Cacng1
Mm9::chr11:107577831..107577842,-p3@Cacng1
Mm9::chr11:107577885..107577896,-p5@Cacng1
Mm9::chr11:12328972..12328994,-p@chr11:12328972..12328994
-
Mm9::chr11:12329018..12329031,-p@chr11:12329018..12329031
-
Mm9::chr11:78873345..78873355,-p7@Ksr1
Mm9::chr13:93564764..93564780,-p1@Thbs4
Mm9::chr14:31693300..31693332,+p@chr14:31693300..31693332
+
Mm9::chr14:33498875..33498884,+p@chr14:33498875..33498884
+
Mm9::chr15:76993500..76993516,-p@chr15:76993500..76993516
-
Mm9::chr18:32545213..32545226,+p@chr18:32545213..32545226
+
Mm9::chr1:165655254..165655267,-p1@Mettl11b
Mm9::chr2:73418345..73418410,-p1@Chrna1
Mm9::chr2:76670190..76670193,-p@chr2:76670190..76670193
-
Mm9::chr3:84397469..84397485,+p1@Tigd4
Mm9::chr4:43536546..43536571,-p5@Tpm2
Mm9::chr5:36128800..36128827,+p@chr5:36128800..36128827
+
Mm9::chr5:64967413..64967417,+p@chr5:64967413..64967417
+
Mm9::chr6:58730505..58730520,-p@chr6:58730505..58730520
-
Mm9::chr6:58730529..58730561,-p@chr6:58730529..58730561
-
Mm9::chr7:52895334..52895382,+p2@Mamstr
Mm9::chr7:54101585..54101607,+p5@Ldha
Mm9::chr8:126406981..126407012,-p@chr8:126406981..126407012
-
Mm9::chr8:126420134..126420176,+p@chr8:126420134..126420176
+
Mm9::chr8:81337109..81337174,-p2@Lsm6
Mm9::chr9:65113480..65113500,+p2@Cilp
Mm9::chrX:106640734..106640792,+p@chrX:106640734..106640792
+
Mm9::chrX:35673654..35673656,+p@chrX:35673654..35673656
+
Mm9::chrX:69061573..69061628,+p2@Vma21


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:0007519skeletal muscle development0.00734772280482354
GO:0014706striated muscle development0.00775833203002776
GO:0007517muscle development0.0129032388852135



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
surface structure1.60e-1022
appendage2.70e-0912
paired limb/fin2.70e-0912
limb2.70e-0912
paired limb/fin bud2.70e-0912
limb bud2.70e-0912
limb/fin field2.70e-0912
limb field2.70e-0912
appendage girdle complex2.36e-0813
subdivision of head5.10e-0711
eye7.60e-079
camera-type eye7.60e-079
simple eye7.60e-079
immature eye7.60e-079
ocular region7.60e-079
visual system7.60e-079
face7.60e-079
optic cup7.60e-079
optic vesicle7.60e-079
eye primordium7.60e-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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