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MCL coexpression mm9:954: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!2.52e-16!118;UBERON:0000925!2.52e-16!118;UBERON:0006595!2.52e-16!118;UBERON:0001007!3.36e-16!116;UBERON:0001555!3.36e-16!116;UBERON:0007026!3.36e-16!116;UBERON:0004921!4.53e-16!114;UBERON:0005911!2.29e-12!69;UBERON:0003929!8.94e-11!55;UBERON:0000490!6.25e-10!66;UBERON:0001041!2.24e-09!80;UBERON:0002193!7.25e-08!48;UBERON:0002405!7.25e-08!48;UBERON:0000077!1.87e-07!35;UBERON:0002390!2.20e-07!45;UBERON:0003061!2.20e-07!45
|ontology_enrichment_uberon=UBERON:0004119!2.52e-16!118;UBERON:0000925!2.52e-16!118;UBERON:0006595!2.52e-16!118;UBERON:0001007!3.36e-16!116;UBERON:0001555!3.36e-16!116;UBERON:0007026!3.36e-16!116;UBERON:0004921!4.53e-16!114;UBERON:0005911!2.29e-12!69;UBERON:0003929!8.94e-11!55;UBERON:0000490!6.25e-10!66;UBERON:0001041!2.24e-09!80;UBERON:0002193!7.25e-08!48;UBERON:0002405!7.25e-08!48;UBERON:0000077!1.87e-07!35;UBERON:0002390!2.20e-07!45;UBERON:0003061!2.20e-07!45
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.534222,0.367606,0.434198,0.260188,0.448401,0.538088,0.173246,0.181564,1.50457,0.494602,0.526159,0.992329,0.550255,0.275867,0,1.75824,0.252772,0.160384,0.620214,0.332107,0.837949,0.549359,0.258745,0.374936,1.41403,0.153291,0.469052,0.303071,0.376624,1.15331,0.843667,1.29258,0.425071,1.38756,0.185086,3.59366,0.522578,0.221921,0.570041,0.256422,0.460258,0.204736,0.27776,0.983404,0.423266,0.662995,0.484612,0.170971,0.825035,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.145699,0.555328,0.823643,0.613749,0.192045,0.713876,1.39465,0.754324,1.139,1.48833,0.818971,1.34113,0.922232,0.178433,5.9754,1.03623,4.22044,0.409836,0.136938,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,2.03549,0.0299392,0.757533,1.60318,1.65055,1.20871,0.925879,0.856465,0.265734,1.16941,0.202284,0.510015,0.859272,0.663249,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.887702,0.386136,0.96962,0.337254,1.24884,1.21576,0.254749,2.33941,0.437894,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.220515,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.724779,0.381863,4.11974,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,2.73712,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,3.52736
}}
}}

Revision as of 19:10, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:14845141..14845207,+p1@Atxn7
Mm9::chr15:12134823..12134874,+p1@Mtmr12
Mm9::chr16:33185131..33185239,+p1@Osbpl11
Mm9::chr17:28828364..28828390,+p1@Mapk14
Mm9::chr18:38095057..38095082,-p1@Diap1
Mm9::chr18:38095083..38095104,-p2@Diap1
Mm9::chr18:62708375..62708419,-p2@Fbxo38
Mm9::chr1:193220446..193220471,-p3@Ppp2r5a


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:0008339MP kinase activity0.0484639325624417
GO:0032494response to peptidoglycan0.0484639325624417
GO:0032495response to muramyl dipeptide0.0484639325624417
GO:0016909SAP kinase activity0.0484639325624417
GO:0045648positive regulation of erythrocyte differentiation0.0484639325624417



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
endoderm-derived structure2.52e-16118
endoderm2.52e-16118
presumptive endoderm2.52e-16118
digestive system3.36e-16116
digestive tract3.36e-16116
primitive gut3.36e-16116
subdivision of digestive tract4.53e-16114
endo-epithelium2.29e-1269
gut epithelium8.94e-1155
unilaminar epithelium6.25e-1066
foregut2.24e-0980
hemolymphoid system7.25e-0848
immune system7.25e-0848
mixed endoderm/mesoderm-derived structure1.87e-0735
hematopoietic system2.20e-0745
blood island2.20e-0745


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}}}