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MCL coexpression mm9:1346: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!4.50e-34!73;UBERON:0001016!4.34e-33!75;UBERON:0002346!1.07e-30!64;UBERON:0003075!1.07e-30!64;UBERON:0007284!1.07e-30!64;UBERON:0004121!1.11e-29!95;UBERON:0000924!1.11e-29!95;UBERON:0006601!1.11e-29!95;UBERON:0000073!3.17e-26!54;UBERON:0010371!4.02e-25!73;UBERON:0001049!1.04e-24!52;UBERON:0005068!1.04e-24!52;UBERON:0006241!1.04e-24!52;UBERON:0007135!1.04e-24!52;UBERON:0003056!1.75e-23!49;UBERON:0010314!1.80e-23!92;UBERON:0000955!1.89e-21!47;UBERON:0006238!1.89e-21!47;UBERON:0002616!1.11e-20!46;UBERON:0003080!3.39e-20!40;UBERON:0002780!1.51e-19!39;UBERON:0001890!1.51e-19!39;UBERON:0006240!1.51e-19!39;UBERON:0002020!3.45e-18!34;UBERON:0003528!6.55e-15!29;UBERON:0002791!6.55e-15!29;UBERON:0001893!6.55e-15!29;UBERON:0000956!1.14e-09!21;UBERON:0001869!1.14e-09!21;UBERON:0000203!1.14e-09!21;UBERON:0002410!1.03e-07!9;UBERON:0002619!3.24e-07!17
|ontology_enrichment_uberon=UBERON:0001017!4.50e-34!73;UBERON:0001016!4.34e-33!75;UBERON:0002346!1.07e-30!64;UBERON:0003075!1.07e-30!64;UBERON:0007284!1.07e-30!64;UBERON:0004121!1.11e-29!95;UBERON:0000924!1.11e-29!95;UBERON:0006601!1.11e-29!95;UBERON:0000073!3.17e-26!54;UBERON:0010371!4.02e-25!73;UBERON:0001049!1.04e-24!52;UBERON:0005068!1.04e-24!52;UBERON:0006241!1.04e-24!52;UBERON:0007135!1.04e-24!52;UBERON:0003056!1.75e-23!49;UBERON:0010314!1.80e-23!92;UBERON:0000955!1.89e-21!47;UBERON:0006238!1.89e-21!47;UBERON:0002616!1.11e-20!46;UBERON:0003080!3.39e-20!40;UBERON:0002780!1.51e-19!39;UBERON:0001890!1.51e-19!39;UBERON:0006240!1.51e-19!39;UBERON:0002020!3.45e-18!34;UBERON:0003528!6.55e-15!29;UBERON:0002791!6.55e-15!29;UBERON:0001893!6.55e-15!29;UBERON:0000956!1.14e-09!21;UBERON:0001869!1.14e-09!21;UBERON:0000203!1.14e-09!21;UBERON:0002410!1.03e-07!9;UBERON:0002619!3.24e-07!17
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.0600685,0.464605,0.535892,0.916672,0.550971,0.645383,0.247459,0.257202,0.594834,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,0.143775,0.426133,0.35122,0.657163,0.345236,0.472505,0.686615,0.63639,0.572827,0.394364,0.181062,0.558142,0.960397,0.892985,0.589948,0.364821,0.607065,0.326478,0.629145,0.303703,0.27383,0.907317,0.56353,0.671603,0.366415,1.02402,1.30113,0.77511,1.43855,2.04755,0.397446,0.839084,0.714419,0.174327,1.10437,1.12205,0.66551,0.406788,0.619643,1.15584,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.11437,1.156,0.208101,0.57254,0.204132,0.763395,0.922432,0.430551,0.254777,2.03037,0.722675,0.240896,1.03903,0.439832,0.479018,1.62034,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,1.40549,0.685716,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,1.21641,1.0885,0.431734,0.605144,1.33732,0.340765,0.902522,2.29205,1.99662,0.322606,2.61375,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,1.1648,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,1.94251,2.37102,0.778321,2.10357,0.503174,0.348692,0.183562,0.0987301,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.30995
}}
}}

Revision as of 19:46, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:44936055..44936066,+p20@Jarid2
Mm9::chr13:44936077..44936096,+p9@Jarid2
Mm9::chr13:44936106..44936121,+p13@Jarid2
Mm9::chr13:44936126..44936164,+p6@Jarid2
Mm9::chr18:25912882..25912888,+p@chr18:25912882..25912888
+
Mm9::chr7:38105060..38105065,-p@chr7:38105060..38105065
-


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:0048536spleen development0.0463906191110149
GO:0048538thymus development0.0463906191110149



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
central nervous system4.50e-3473
nervous system4.34e-3375
neurectoderm1.07e-3064
neural plate1.07e-3064
presumptive neural plate1.07e-3064
ectoderm-derived structure1.11e-2995
ectoderm1.11e-2995
presumptive ectoderm1.11e-2995
regional part of nervous system3.17e-2654
ecto-epithelium4.02e-2573
neural tube1.04e-2452
neural rod1.04e-2452
future spinal cord1.04e-2452
neural keel1.04e-2452
pre-chordal neural plate1.75e-2349
structure with developmental contribution from neural crest1.80e-2392
brain1.89e-2147
future brain1.89e-2147
regional part of brain1.11e-2046
anterior neural tube3.39e-2040
regional part of forebrain1.51e-1939
forebrain1.51e-1939
future forebrain1.51e-1939
gray matter3.45e-1834
brain grey matter6.55e-1529
regional part of telencephalon6.55e-1529
telencephalon6.55e-1529
cerebral cortex1.14e-0921
cerebral hemisphere1.14e-0921
pallium1.14e-0921
autonomic nervous system1.03e-079
regional part of cerebral cortex3.24e-0717


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}}}