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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0004441;inositol-1,4-bisphosphate 1-phosphatase activity;0.00657426176518928;16329!GO:0016312;inositol bisphosphate phosphatase activity;0.00657426176518928;16329!GO:0007389;pattern specification process;0.0129813833085202;15395,15431!GO:0031403;lithium ion binding;0.0159556319171046;16329!GO:0005667;transcription factor complex;0.0159556319171046;15395,15431!GO:0043565;sequence-specific DNA binding;0.0159556319171046;15395,15431!GO:0001759;induction of an organ;0.0159556319171046;15431!GO:0010092;specification of organ identity;0.0159556319171046;15431!GO:0009887;organ morphogenesis;0.0159556319171046;15395,15431!GO:0045168;cell-cell signaling during cell fate commitment;0.0159556319171046;15431!GO:0031128;induction;0.0159556319171046;15431!GO:0044451;nucleoplasm part;0.0159556319171046;15395,15431!GO:0005654;nucleoplasm;0.0161620160741983;15395,15431!GO:0031981;nuclear lumen;0.0211286186982944;15395,15431!GO:0031974;membrane-enclosed lumen;0.0231664287513844;15395,15431!GO:0043233;organelle lumen;0.0231664287513844;15395,15431!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0231664287513844;16329!GO:0003700;transcription factor activity;0.0250814589184038;15395,15431!GO:0001656;metanephros development;0.0310662268751669;15431!GO:0044428;nuclear part;0.0328573178241881;15395,15431!GO:0009653;anatomical structure morphogenesis;0.0404475687807701;15395,15431!GO:0001822;kidney development;0.0434573076263936;15431!GO:0001655;urogenital system development;0.0449695900056938;15431!GO:0048513;organ development;0.0499652509385794;15395,15431!}}
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development;0.0499652509385794;15395,15431!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0000489!1.10e-17!21;UBERON:0002113!6.40e-15!14;UBERON:0003918!6.40e-15!14;UBERON:0011143!6.40e-15!14;UBERON:0005095!6.40e-15!14;UBERON:0007687!6.40e-15!14;UBERON:0006554!1.41e-14!18;UBERON:0001008!1.53e-13!19;UBERON:0002102!1.83e-09!7;UBERON:0004710!1.83e-09!7;UBERON:0005419!1.83e-09!7;UBERON:0005417!1.83e-09!7;UBERON:0005729!1.83e-09!7;UBERON:0010708!4.66e-08!8;UBERON:0005156!5.28e-07!26;UBERON:0000990!5.28e-07!26;UBERON:0000474!8.85e-07!9|tfbs_overrepresentation_for_novel_motifs=0.491922,0.0600685,0.464605,0.535892,0.346849,0.550971,0.645383,0.247459,0.257202,0.0835344,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,0.143775,0.426133,0.108444,0.657163,0.91309,0.472505,0.686615,0.63639,0.572827,0.394364,0.181062,0.558142,0.960397,0.336199,0.204204,0.364821,0.144368,0.326478,0.629145,0.303703,0.27383,0.342638,0.56353,0.327433,0.366415,0.0417367,0.524258,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,0.663395,0.939962,0.724164,0.742129,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.70565,0.11437,1.156,0.208101,0.19692,0.589776,0.763395,0.922432,0.430551,0.254777,0.874787,0.722675,0.676326,1.03903,0.198949,2.30747,0.534643,0.780154,1.77427,1.33021,1.04409,0.973447,0.9304,0.2995,0.281222,0.685716,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,1.47196,1.33732,0.90315,0.0704207,1.33416,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.183562,0.0987301,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.30995|tfbs_overrepresentation_jaspar=MA0003.1;0.00973143,MA0004.1;0.536396,MA0006.1;0.359699,MA0007.1;0.52077,MA0009.1;0.987341,MA0014.1;0.12867,MA0017.1;0.387481,MA0019.1;0.800946,MA0024.1;0.942716,MA0025.1;1.22395,MA0027.1;2.64231,MA0028.1;0.370592,MA0029.1;0.920529,MA0030.1;0.927235,MA0031.1;0.890871,MA0038.1;0.686534,MA0040.1;1.00009,MA0041.1;0.457338,MA0042.1;0.443591,MA0043.1;1.08567,MA0046.1;2.3347,MA0048.1;0.161427,MA0050.1;0.57678,MA0051.1;0.695779,MA0052.1;1.00829,MA0055.1;0.0585191,MA0056.1;0,MA0057.1;0.149949,MA0058.1;1.11298,MA0059.1;1.14076,MA0060.1;0.275911,MA0061.1;0.307097,MA0063.1;0,MA0066.1;0.675169,MA0067.1;1.33603,MA0068.1;0.467569,MA0069.1;1.00864,MA0070.1;0.998765,MA0071.1;0.575909,MA0072.1;0.990133,MA0073.1;2.84212,MA0074.1;0.638014,MA0076.1;0.407465,MA0077.1;0.968053,MA0078.1;0.729877,MA0081.1;0.473489,MA0083.1;1.08487,MA0084.1;1.66561,MA0087.1;1.04109,MA0088.1;0.111145,MA0089.1;0,MA0090.1;1.25093,MA0091.1;0.55008,MA0092.1;0.501022,MA0093.1;0.988233,MA0095.1;0,MA0098.1;0,MA0100.1;0.626021,MA0101.1;0.458688,MA0103.1;0.398766,MA0105.1;0.199622,MA0106.1;0.737893,MA0107.1;0.392331,MA0108.2;1.92698,MA0109.1;0,MA0111.1;0.515457,MA0113.1;0.708789,MA0114.1;0.304661,MA0115.1;1.08851,MA0116.1;0.944657,MA0117.1;1.05576,MA0119.1;0.459301,MA0122.1;1.07591,MA0124.1;1.28237,MA0125.1;1.20757,MA0130.1;0,MA0131.1;0.796279,MA0132.1;0,MA0133.1;0,MA0135.1;1.1226,MA0136.1;0.658622,MA0139.1;0.243463,MA0140.1;0.625902,MA0141.1;0.419361,MA0142.1;0.876028,MA0143.1;0.725672,MA0144.1;0.307873,MA0145.1;0.379391,MA0146.1;0.353523,MA0147.1;0.320675,MA0148.1;0.553294,MA0149.1;0.464445,MA0062.2;0.204999,MA0035.2;1.5257,MA0039.2;0.0271858,MA0138.2;0.788113,MA0002.2;0.246463,MA0137.2;0.416331,MA0104.2;0.261255,MA0047.2;0.685741,MA0112.2;0.119197,MA0065.2;0.380324,MA0150.1;0.520653,MA0151.1;0,MA0152.1;1.64059,MA0153.1;2.56917,MA0154.1;0.159217,MA0155.1;0.132921,MA0156.1;0.406559,MA0157.1;0.843181,MA0158.1;0,MA0159.1;0.331229,MA0160.1;0.556423,MA0161.1;0,MA0162.1;0.176524,MA0163.1;0.372305,MA0164.1;0.658997,MA0080.2;1.01893,MA0018.2;0.669032,MA0099.2;0.781628,MA0079.2;0.433332,MA0102.2;1.7182,MA0258.1;0.290587,MA0259.1;0.309517,MA0442.1;0}}

Latest revision as of 16:55, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr1:52851770..52851774,-p11@Inpp1
Mm9::chr2:74517609..74517621,+p3@Hoxd11
Mm9::chr2:74518687..74518718,+p@chr2:74518687..74518718
+
Mm9::chr2:74521950..74521958,+p@chr2:74521950..74521958
+
Mm9::chr2:74524610..74524614,+p@chr2:74524610..74524614
+
Mm9::chr6:52190760..52190767,-p9@Hoxa10


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:0004441inositol-1,4-bisphosphate 1-phosphatase activity0.00657426176518928
GO:0016312inositol bisphosphate phosphatase activity0.00657426176518928
GO:0007389pattern specification process0.0129813833085202
GO:0031403lithium ion binding0.0159556319171046
GO:0005667transcription factor complex0.0159556319171046
GO:0043565sequence-specific DNA binding0.0159556319171046
GO:0001759induction of an organ0.0159556319171046
GO:0010092specification of organ identity0.0159556319171046
GO:0009887organ morphogenesis0.0159556319171046
GO:0045168cell-cell signaling during cell fate commitment0.0159556319171046
GO:0031128induction0.0159556319171046
GO:0044451nucleoplasm part0.0159556319171046
GO:0005654nucleoplasm0.0161620160741983
GO:0031981nuclear lumen0.0211286186982944
GO:0031974membrane-enclosed lumen0.0231664287513844
GO:0043233organelle lumen0.0231664287513844
GO:0004437inositol or phosphatidylinositol phosphatase activity0.0231664287513844
GO:0003700transcription factor activity0.0250814589184038
GO:0001656metanephros development0.0310662268751669
GO:0044428nuclear part0.0328573178241881
GO:0009653anatomical structure morphogenesis0.0404475687807701
GO:0001822kidney development0.0434573076263936
GO:0001655urogenital system development0.0449695900056938
GO:0048513organ development0.0499652509385794



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
cavitated compound organ1.10e-1721
kidney6.40e-1514
kidney mesenchyme6.40e-1514
upper urinary tract6.40e-1514
kidney rudiment6.40e-1514
kidney field6.40e-1514
urinary system structure1.41e-1418
renal system1.53e-1319
forelimb1.83e-097
pectoral appendage1.83e-097
pectoral appendage bud1.83e-097
forelimb bud1.83e-097
forelimb/pectoral fin field1.83e-097
pectoral complex4.66e-088
reproductive structure5.28e-0726
reproductive system5.28e-0726
female reproductive system8.85e-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)
MA0003.10.00973143
MA0004.10.536396
MA0006.10.359699
MA0007.10.52077
MA0009.10.987341
MA0014.10.12867
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.370592
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.10.443591
MA0043.11.08567
MA0046.12.3347
MA0048.10.161427
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.0585191
MA0056.10
MA0057.10.149949
MA0058.11.11298
MA0059.11.14076
MA0060.10.275911
MA0061.10.307097
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.467569
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.12.84212
MA0074.10.638014
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.111145
MA0089.10
MA0090.11.25093
MA0091.10.55008
MA0092.10.501022
MA0093.10.988233
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.10.199622
MA0106.10.737893
MA0107.10.392331
MA0108.21.92698
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.304661
MA0115.11.08851
MA0116.10.944657
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.10.243463
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.307873
MA0145.10.379391
MA0146.10.353523
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.20.204999
MA0035.21.5257
MA0039.20.0271858
MA0138.20.788113
MA0002.20.246463
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.20.119197
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.11.64059
MA0153.12.56917
MA0154.10.159217
MA0155.10.132921
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.10.176524
MA0163.10.372305
MA0164.10.658997
MA0080.21.01893
MA0018.20.669032
MA0099.20.781628
MA0079.20.433332
MA0102.21.7182
MA0258.10.290587
MA0259.10.309517
MA0442.10
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