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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003914!8.60e-13!47;UBERON:0002365!5.53e-10!25;UBERON:0002330!5.53e-10!25;UBERON:0009854!4.03e-09!23;UBERON:0009856!4.03e-09!23;UBERON:0002107!7.07e-09!22;UBERON:0007499!7.07e-09!22;UBERON:0006925!7.07e-09!22;UBERON:0009497!7.07e-09!22;UBERON:0000015!7.07e-09!22;UBERON:0002423!7.07e-09!22;UBERON:0006235!7.07e-09!22;UBERON:0008835!7.07e-09!22;UBERON:0003894!7.07e-09!22;UBERON:0004161!7.07e-09!22;UBERON:0008836!7.07e-09!22;UBERON:0000160!3.69e-07!31
|ontology_enrichment_uberon=UBERON:0003914!8.60e-13!47;UBERON:0002365!5.53e-10!25;UBERON:0002330!5.53e-10!25;UBERON:0009854!4.03e-09!23;UBERON:0009856!4.03e-09!23;UBERON:0002107!7.07e-09!22;UBERON:0007499!7.07e-09!22;UBERON:0006925!7.07e-09!22;UBERON:0009497!7.07e-09!22;UBERON:0000015!7.07e-09!22;UBERON:0002423!7.07e-09!22;UBERON:0006235!7.07e-09!22;UBERON:0008835!7.07e-09!22;UBERON:0003894!7.07e-09!22;UBERON:0004161!7.07e-09!22;UBERON:0008836!7.07e-09!22;UBERON:0000160!3.69e-07!31
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.819928,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,0.0835344,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.656199,0.86893,0.426133,0.713088,0.657163,0.345236,0.472505,0.686615,0.63639,0.572827,0.394364,0.534301,0.558142,0.960397,0.892985,0.589948,0.364821,0.0363535,0.326478,0.629145,0.820134,0.752287,0.342638,0.56353,0.671603,0.959963,0.368882,0.524258,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.614918,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.11437,1.156,0.208101,0.19692,1.11463,0.763395,0.922432,0.430551,0.708505,0.874787,0.722675,0.676326,1.03903,0.198949,0.479018,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.769162,0.244935,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.90315,3.10162,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.106956,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,1.83209,2.10357,0.503174,2.48865,1.03315,0.667976,1.10596,0.287383,0.678689,1.18867,1.70209,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.30995
}}
}}

Revision as of 19:35, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:18564818..18564829,+p3@Perp
Mm9::chr11:75323579..75323606,+p1@Rilp
Mm9::chr11:75323608..75323630,+p3@Rilp
Mm9::chr11:93816942..93817021,-p3@Nme2
Mm9::chr17:56256960..56256974,-p2@Plin5
Mm9::chr3:79432674..79432685,-p3@Etfdh


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:0009054electron acceptor activity0.0159947409747897
GO:0016649oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor0.0159947409747897
GO:0004174electron-transferring-flavoprotein dehydrogenase activity0.0159947409747897
GO:0005739mitochondrion0.0159947409747897
GO:0017133mitochondrial electron transfer flavoprotein complex0.0159947409747897
GO:0045251electron transfer flavoprotein complex0.0159947409747897
GO:0044444cytoplasmic part0.0164043131918743
GO:0046039GTP metabolic process0.0179852122329424
GO:0006228UTP biosynthetic process0.0179852122329424
GO:0006183GTP biosynthetic process0.0179852122329424
GO:0046036CTP metabolic process0.0179852122329424
GO:0009209pyrimidine ribonucleoside triphosphate biosynthetic process0.0179852122329424
GO:0046051UTP metabolic process0.0179852122329424
GO:0009208pyrimidine ribonucleoside triphosphate metabolic process0.0179852122329424
GO:0006241CTP biosynthetic process0.0179852122329424
GO:0004550nucleoside diphosphate kinase activity0.0179852122329424
GO:0009220pyrimidine ribonucleotide biosynthetic process0.019536278097304
GO:0009218pyrimidine ribonucleotide metabolic process0.019536278097304
GO:0009147pyrimidine nucleoside triphosphate metabolic process0.0201889437298985
GO:0006221pyrimidine nucleotide biosynthetic process0.0275909713205747
GO:0006220pyrimidine nucleotide metabolic process0.0275909713205747
GO:00515394 iron, 4 sulfur cluster binding0.0275909713205747
GO:0016645oxidoreductase activity, acting on the CH-NH group of donors0.0277780995794519
GO:0016776phosphotransferase activity, phosphate group as acceptor0.0372444493694653
GO:0005737cytoplasm0.0419193300402541
GO:0019205nucleobase, nucleoside, nucleotide kinase activity0.0441731426607082
GO:0051536iron-sulfur cluster binding0.0456348127013525
GO:0051540metal cluster binding0.0456348127013525
GO:0009145purine nucleoside triphosphate biosynthetic process0.0456348127013525
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.0456348127013525
GO:0009201ribonucleoside triphosphate biosynthetic process0.0456348127013525
GO:0009142nucleoside triphosphate biosynthetic process0.0456348127013525
GO:0009205purine ribonucleoside triphosphate metabolic process0.0456348127013525
GO:0009199ribonucleoside triphosphate metabolic process0.0456348127013525
GO:0009144purine nucleoside triphosphate metabolic process0.0456348127013525
GO:0031980mitochondrial lumen0.0456348127013525
GO:0005759mitochondrial matrix0.0456348127013525
GO:0009141nucleoside triphosphate metabolic process0.0465467683456577
GO:0009152purine ribonucleotide biosynthetic process0.0465467683456577
GO:0009260ribonucleotide biosynthetic process0.0466031801971308
GO:0043231intracellular membrane-bound organelle0.0466031801971308
GO:0043227membrane-bound organelle0.0466031801971308
GO:0009150purine ribonucleotide metabolic process0.0470169299095507
GO:0006164purine nucleotide biosynthetic process0.0470169299095507
GO:0009259ribonucleotide metabolic process0.0494880727989972



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
epithelial tube8.60e-1347
exocrine gland5.53e-1025
exocrine system5.53e-1025
digestive tract diverticulum4.03e-0923
sac4.03e-0923
liver7.07e-0922
epithelial sac7.07e-0922
digestive gland7.07e-0922
epithelium of foregut-midgut junction7.07e-0922
anatomical boundary7.07e-0922
hepatobiliary system7.07e-0922
foregut-midgut junction7.07e-0922
hepatic diverticulum7.07e-0922
liver primordium7.07e-0922
septum transversum7.07e-0922
liver bud7.07e-0922
intestine3.69e-0731


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}}}