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|ontology_enrichment_uberon=UBERON:0005256!1.45e-13!45;UBERON:0002100!4.80e-13!90;UBERON:0000466!5.32e-11!79;UBERON:0005177!1.41e-10!79;UBERON:0003104!1.43e-10!61;UBERON:0009142!1.43e-10!61;UBERON:0009569!2.49e-09!66;UBERON:0002365!8.94e-09!25;UBERON:0002330!8.94e-09!25;UBERON:0003914!1.70e-08!47;UBERON:0002107!5.08e-08!22;UBERON:0007499!5.08e-08!22;UBERON:0006925!5.08e-08!22;UBERON:0009497!5.08e-08!22;UBERON:0000015!5.08e-08!22;UBERON:0002423!5.08e-08!22;UBERON:0006235!5.08e-08!22;UBERON:0008835!5.08e-08!22;UBERON:0003894!5.08e-08!22;UBERON:0004161!5.08e-08!22;UBERON:0008836!5.08e-08!22;UBERON:0005172!7.24e-08!49;UBERON:0005173!7.24e-08!49;UBERON:0002417!7.24e-08!49;UBERON:0000916!7.24e-08!49;UBERON:0009854!1.05e-07!23;UBERON:0009856!1.05e-07!23;UBERON:0000475!4.31e-07!150
|ontology_enrichment_uberon=UBERON:0005256!1.45e-13!45;UBERON:0002100!4.80e-13!90;UBERON:0000466!5.32e-11!79;UBERON:0005177!1.41e-10!79;UBERON:0003104!1.43e-10!61;UBERON:0009142!1.43e-10!61;UBERON:0009569!2.49e-09!66;UBERON:0002365!8.94e-09!25;UBERON:0002330!8.94e-09!25;UBERON:0003914!1.70e-08!47;UBERON:0002107!5.08e-08!22;UBERON:0007499!5.08e-08!22;UBERON:0006925!5.08e-08!22;UBERON:0009497!5.08e-08!22;UBERON:0000015!5.08e-08!22;UBERON:0002423!5.08e-08!22;UBERON:0006235!5.08e-08!22;UBERON:0008835!5.08e-08!22;UBERON:0003894!5.08e-08!22;UBERON:0004161!5.08e-08!22;UBERON:0008836!5.08e-08!22;UBERON:0005172!7.24e-08!49;UBERON:0005173!7.24e-08!49;UBERON:0002417!7.24e-08!49;UBERON:0000916!7.24e-08!49;UBERON:0009854!1.05e-07!23;UBERON:0009856!1.05e-07!23;UBERON:0000475!4.31e-07!150
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.289542,0.367606,0.434198,0.260188,0.448401,0.538088,0.515265,0.181564,0.170907,0.494602,0.526159,0.173454,0.550255,0.756943,0,0.742571,2.00903,1.4996,0.29826,0.883862,0.837949,0.549359,0.717658,0.374936,0.577606,0.909128,0.469052,0.818708,1.23861,0.455168,0.843667,0.250677,0.425071,0.276324,0.185086,0.242032,0.522578,0.221921,0.195877,0.256422,0.460258,0.784847,0.27776,0.983404,0.423266,0.662995,0.484612,1.06276,0.305876,0.725127,0.604356,0.732634,0.985264,1.00271,0.557354,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.560836,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.527912,0.0665967,1.03623,0.140213,0.813951,0.136938,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.025519,0.0299392,0.757533,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.218233,0.202284,0.982739,0.859272,0.663249,0.681235,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.0359654,0.437894,0.743872,0.670977,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.740166,0.950857,0.427043,1.10792,0.570914,1.23736,0.220515,1.03631,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.261837,0.381863,0.0553085,0.986833,0.598134,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,1.2562,0.524587,0.166768
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.289542,0.367606,0.434198,0.260188,0.448401,0.538088,0.515265,0.181564,0.170907,0.494602,0.526159,0.173454,0.550255,0.756943,0,0.742571,2.00903,1.4996,0.29826,0.883862,0.837949,0.549359,0.717658,0.374936,0.577606,0.909128,0.469052,0.818708,1.23861,0.455168,0.843667,0.250677,0.425071,0.276324,0.185086,0.242032,0.522578,0.221921,0.195877,0.256422,0.460258,0.784847,0.27776,0.983404,0.423266,0.662995,0.484612,1.06276,0.305876,0.725127,0.604356,0.732634,0.985264,1.00271,0.557354,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.560836,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.527912,0.0665967,1.03623,0.140213,0.813951,0.136938,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.025519,0.0299392,0.757533,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.218233,0.202284,0.982739,0.859272,0.663249,0.681235,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.0359654,0.437894,0.743872,0.670977,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.740166,0.950857,0.427043,1.10792,0.570914,1.23736,0.220515,1.03631,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.261837,0.381863,0.0553085,0.986833,0.598134,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,1.2562,0.524587,0.166768
|tfbs_overrepresentation_jaspar=MA0003.1;0.0545917,MA0004.1;1.94256,MA0006.1;0.271714,MA0007.1;0.419994,MA0009.1;0.870101,MA0014.1;0.012738,MA0017.1;0.804572,MA0019.1;0.688051,MA0024.1;0.826339,MA0025.1;1.10341,MA0027.1;2.51754,MA0028.1;0.281528,MA0029.1;0.804619,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;0.882616,MA0041.1;0.360875,MA0042.1;0.348174,MA0043.1;0.966833,MA0046.1;0.906029,MA0048.1;0.335404,MA0050.1;0.472794,MA0051.1;1.43259,MA0052.1;0.890676,MA0055.1;0.523649,MA0056.1;0,MA0057.1;0.31126,MA0058.1;0.90507,MA0059.1;1.6636,MA0060.1;0.197678,MA0061.1;0.224905,MA0063.1;0,MA0066.1;0.566617,MA0067.1;1.21448,MA0068.1;0.657844,MA0069.1;0.891016,MA0070.1;0.881319,MA0071.1;0.471969,MA0072.1;0.872842,MA0073.1;0.00296875,MA0074.1;0.531046,MA0076.1;0.315013,MA0077.1;0.851175,MA0078.1;0.61926,MA0081.1;0.375851,MA0083.1;0.96604,MA0084.1;1.54225,MA0087.1;0.922929,MA0088.1;0.49616,MA0089.1;0,MA0090.1;1.03628,MA0091.1;1.98602,MA0092.1;0.401504,MA0093.1;2.19634,MA0095.1;0,MA0098.1;0,MA0100.1;0.519598,MA0101.1;0.362124,MA0103.1;0.307078,MA0105.1;0.133231,MA0106.1;1.51778,MA0107.1;0.301222,MA0108.2;0.710846,MA0109.1;0,MA0111.1;0.415012,MA0113.1;0.598933,MA0114.1;0.222763,MA0115.1;0.969632,MA0116.1;0.27152,MA0117.1;0.937363,MA0119.1;0.951747,MA0122.1;0.957212,MA0124.1;1.16127,MA0125.1;1.0872,MA0130.1;0,MA0131.1;0.683521,MA0132.1;0,MA0133.1;0,MA0135.1;1.00325,MA0136.1;0.550755,MA0139.1;0.169849,MA0140.1;0.519484,MA0141.1;0.869985,MA0142.1;1.79662,MA0143.1;0.615203,MA0144.1;0.640537,MA0145.1;0.246409,MA0146.1;0.636109,MA0147.1;1.24068,MA0148.1;1.14345,MA0149.1;0.367458,MA0062.2;0.137653,MA0035.2;0.524137,MA0039.2;0.402847,MA0138.2;1.61926,MA0002.2;0.172399,MA0137.2;0.32312,MA0104.2;0.54394,MA0047.2;0.576767,MA0112.2;0.2464,MA0065.2;0.247168,MA0150.1;1.89243,MA0151.1;0,MA0152.1;0.576873,MA0153.1;1.01988,MA0154.1;0.677425,MA0155.1;0.275377,MA0156.1;0.314185,MA0157.1;0.729116,MA0158.1;0,MA0159.1;0.688775,MA0160.1;0.453546,MA0161.1;0,MA0162.1;0.230918,MA0163.1;0.408151,MA0164.1;0.551114,MA0080.2;0.302064,MA0018.2;0.560731,MA0099.2;0.669311,MA0079.2;0.0468707,MA0102.2;1.59466,MA0258.1;0.60477,MA0259.1;0.643936,MA0442.1;0
}}
}}

Revision as of 12:25, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128227959..128228024,+p1@Mmp19
Mm9::chr13:4058917..4058918,+p@chr13:4058917..4058918
+
Mm9::chr1:182926224..182926235,-p@chr1:182926224..182926235
-
Mm9::chr1:182932030..182932048,-p@chr1:182932030..182932048
-
Mm9::chr1:182947620..182947679,-p1@Ephx1
Mm9::chr1:58086799..58086818,+p1@Aox1
Mm9::chr6:124462731..124462753,+p1@C1rb
Mm9::chr6:124492299..124492325,-p1@C1s


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:00470423-alpha-hydroxysteroid dehydrogenase (B-specific) activity0.0163146808650638
GO:0003816complement component C1s activity0.0163146808650638
GO:0004301epoxide hydrolase activity0.0163146808650638
GO:0004031aldehyde oxidase activity0.0163146808650638
GO:0016803ether hydrolase activity0.0163146808650638
GO:0016623oxidoreductase activity, acting on the aldehyde or oxo group of donors, oxygen as acceptor0.0163146808650638
GO:0004463leukotriene-A4 hydrolase activity0.0163146808650638
GO:0016801hydrolase activity, acting on ether bonds0.0285413070423536
GO:0030151molybdenum ion binding0.0300840475642867
GO:0006805xenobiotic metabolic process0.0300840475642867
GO:0019439aromatic compound catabolic process0.0300840475642867
GO:00515372 iron, 2 sulfur cluster binding0.0300840475642867
GO:0009410response to xenobiotic stimulus0.0300840475642867
GO:0030574collagen catabolic process0.0300840475642867
GO:0044259multicellular organismal macromolecule metabolic process0.0300840475642867
GO:0044268multicellular organismal protein metabolic process0.0300840475642867
GO:0044256protein digestion0.0300840475642867
GO:0044254multicellular organismal protein catabolic process0.0300840475642867
GO:0044266multicellular organismal macromolecule catabolic process0.0300840475642867
GO:0044243multicellular organismal catabolic process0.0300840475642867
GO:0032963collagen metabolic process0.0300840475642867
GO:0004175endopeptidase activity0.0300840475642867
GO:0009636response to toxin0.0300840475642867
GO:0044236multicellular organismal metabolic process0.0300840475642867
GO:0016229steroid dehydrogenase activity0.031913762660244
GO:0051287NAD binding0.0321440404871541
GO:0009056catabolic process0.0393149711488276
GO:0006958complement activation, classical pathway0.0393149711488276
GO:0002455humoral immune response mediated by circulating immunoglobulin0.0428880772729188
GO:0006508proteolysis0.0428880772729188
GO:0016903oxidoreductase activity, acting on the aldehyde or oxo group of donors0.0428880772729188
GO:0005615extracellular space0.0428880772729188
GO:0007586digestion0.0428880772729188
GO:0006956complement activation0.0428880772729188
GO:0002541activation of plasma proteins during acute inflammatory response0.0428880772729188
GO:0016787hydrolase activity0.0428880772729188
GO:0051536iron-sulfur cluster binding0.0428880772729188
GO:0051540metal cluster binding0.0428880772729188
GO:0008233peptidase activity0.0434545151844588
GO:0044421extracellular region part0.0434545151844588



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
trunk mesenchyme1.45e-1345
trunk4.80e-1390
immaterial anatomical entity5.32e-1179
trunk region element1.41e-1079
mesenchyme1.43e-1061
entire embryonic mesenchyme1.43e-1061
subdivision of trunk2.49e-0966
exocrine gland8.94e-0925
exocrine system8.94e-0925
epithelial tube1.70e-0847
liver5.08e-0822
epithelial sac5.08e-0822
digestive gland5.08e-0822
epithelium of foregut-midgut junction5.08e-0822
anatomical boundary5.08e-0822
hepatobiliary system5.08e-0822
foregut-midgut junction5.08e-0822
hepatic diverticulum5.08e-0822
liver primordium5.08e-0822
septum transversum5.08e-0822
liver bud5.08e-0822
abdomen element7.24e-0849
abdominal segment element7.24e-0849
abdominal segment of trunk7.24e-0849
abdomen7.24e-0849
digestive tract diverticulum1.05e-0723
sac1.05e-0723
organism subdivision4.31e-07150


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)
MA0003.10.0545917
MA0004.11.94256
MA0006.10.271714
MA0007.10.419994
MA0009.10.870101
MA0014.10.012738
MA0017.10.804572
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.281528
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.360875
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.10.335404
MA0050.10.472794
MA0051.11.43259
MA0052.10.890676
MA0055.10.523649
MA0056.10
MA0057.10.31126
MA0058.10.90507
MA0059.11.6636
MA0060.10.197678
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.657844
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.10.00296875
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.49616
MA0089.10
MA0090.11.03628
MA0091.11.98602
MA0092.10.401504
MA0093.12.19634
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.307078
MA0105.10.133231
MA0106.11.51778
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.10.222763
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.951747
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.169849
MA0140.10.519484
MA0141.10.869985
MA0142.11.79662
MA0143.10.615203
MA0144.10.640537
MA0145.10.246409
MA0146.10.636109
MA0147.11.24068
MA0148.11.14345
MA0149.10.367458
MA0062.20.137653
MA0035.20.524137
MA0039.20.402847
MA0138.21.61926
MA0002.20.172399
MA0137.20.32312
MA0104.20.54394
MA0047.20.576767
MA0112.20.2464
MA0065.20.247168
MA0150.11.89243
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.677425
MA0155.10.275377
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.10.688775
MA0160.10.453546
MA0161.10
MA0162.10.230918
MA0163.10.408151
MA0164.10.551114
MA0080.20.302064
MA0018.20.560731
MA0099.20.669311
MA0079.20.0468707
MA0102.21.59466
MA0258.10.60477
MA0259.10.643936
MA0442.10
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