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|ontology_enrichment_uberon=UBERON:0003102!9.67e-08!22;UBERON:0002102!1.58e-07!7;UBERON:0004710!1.58e-07!7;UBERON:0005419!1.58e-07!7;UBERON:0005417!1.58e-07!7;UBERON:0005729!1.58e-07!7;UBERON:0000020!5.68e-07!12;UBERON:0001032!5.68e-07!12;UBERON:0004456!5.68e-07!12
|ontology_enrichment_uberon=UBERON:0003102!9.67e-08!22;UBERON:0002102!1.58e-07!7;UBERON:0004710!1.58e-07!7;UBERON:0005419!1.58e-07!7;UBERON:0005417!1.58e-07!7;UBERON:0005729!1.58e-07!7;UBERON:0000020!5.68e-07!12;UBERON:0001032!5.68e-07!12;UBERON:0004456!5.68e-07!12
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.0600685,0.464605,0.535892,0.916672,0.550971,1.55624,0.247459,0.257202,1.00112,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,1.3999,0.426133,0.108444,0.657163,1.63467,1.19059,0.686615,0.223823,1.40396,0.394364,0.181062,0.558142,0.960397,0.336199,1.74919,0.364821,0.607065,2.38064,0.629145,0.303703,0.27383,0.907317,1.38433,0.0995018,0.959963,1.45501,0.524258,0.77511,0.589246,1.48928,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,1.59383,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,1.1311,0.253541,0.366795,1.156,1.13013,2.4201,0.204132,0.763395,3.50472,0.430551,0.708505,0.874787,0.722675,0.240896,1.03903,0.0539203,0.0610418,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.9304,0.810643,0.769162,0.244935,0.976308,0.775372,0.160254,0.871473,0.960112,1.08669,0.839694,0.838613,2.36799,0.8998,0.585058,1.11115,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,0.0704207,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,5.18768,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.706252,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,1.67199,0.971067,0.831964,0.564002,0.778321,2.10357,4.33454,0.348692,0.183562,0.0987301,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,2.10185,0.82857,0.671017,0.86867,0.63125,0.0323861
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.0600685,0.464605,0.535892,0.916672,0.550971,1.55624,0.247459,0.257202,1.00112,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,1.3999,0.426133,0.108444,0.657163,1.63467,1.19059,0.686615,0.223823,1.40396,0.394364,0.181062,0.558142,0.960397,0.336199,1.74919,0.364821,0.607065,2.38064,0.629145,0.303703,0.27383,0.907317,1.38433,0.0995018,0.959963,1.45501,0.524258,0.77511,0.589246,1.48928,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,1.59383,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,1.1311,0.253541,0.366795,1.156,1.13013,2.4201,0.204132,0.763395,3.50472,0.430551,0.708505,0.874787,0.722675,0.240896,1.03903,0.0539203,0.0610418,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.9304,0.810643,0.769162,0.244935,0.976308,0.775372,0.160254,0.871473,0.960112,1.08669,0.839694,0.838613,2.36799,0.8998,0.585058,1.11115,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,0.0704207,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,5.18768,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.706252,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,1.67199,0.971067,0.831964,0.564002,0.778321,2.10357,4.33454,0.348692,0.183562,0.0987301,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,2.10185,0.82857,0.671017,0.86867,0.63125,0.0323861
|tfbs_overrepresentation_jaspar=MA0003.1;0.04894,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;1.02391,MA0048.1;0.943003,MA0050.1;0.57678,MA0051.1;0.695779,MA0052.1;1.00829,MA0055.1;0.212634,MA0056.1;0,MA0057.1;0.149949,MA0058.1;0.436487,MA0059.1;0.449345,MA0060.1;0.275911,MA0061.1;0.307097,MA0063.1;0,MA0066.1;0.675169,MA0067.1;1.33603,MA0068.1;0.153907,MA0069.1;1.00864,MA0070.1;0.998765,MA0071.1;0.575909,MA0072.1;0.990133,MA0073.1;0.000157319,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;0.500693,MA0091.1;1.3559,MA0092.1;1.25163,MA0093.1;0.379257,MA0095.1;0,MA0098.1;0,MA0100.1;0.626021,MA0101.1;0.458688,MA0103.1;1.03097,MA0105.1;0.199622,MA0106.1;0.737893,MA0107.1;0.392331,MA0108.2;0.824407,MA0109.1;0,MA0111.1;0.515457,MA0113.1;0.708789,MA0114.1;0.304661,MA0115.1;1.08851,MA0116.1;0.359483,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;0.682297,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;0.635245,MA0147.1;0.320675,MA0148.1;1.3627,MA0149.1;0.464445,MA0062.2;0.204999,MA0035.2;0.630778,MA0039.2;0.181031,MA0138.2;0.788113,MA0002.2;1.97607,MA0137.2;0.416331,MA0104.2;0.261255,MA0047.2;2.76262,MA0112.2;0.119197,MA0065.2;0.380324,MA0150.1;0.520653,MA0151.1;0,MA0152.1;0.685852,MA0153.1;1.13945,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;1.08528,MA0163.1;0.664494,MA0164.1;2.67733,MA0080.2;0.393257,MA0018.2;0.669032,MA0099.2;0.781628,MA0079.2;1.11318,MA0102.2;1.7182,MA0258.1;0.290587,MA0259.1;0.309517,MA0442.1;0
}}
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Revision as of 13:15, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr16:77329743..77329754,+p14@2810055G20Rik
Mm9::chr16:77329756..77329770,+p11@2810055G20Rik
Mm9::chr5:13125513..13125537,+p12@Sema3a
Mm9::chr5:13125558..13125575,+p14@Sema3a
Mm9::chr5:13125585..13125610,+p7@Sema3a
Mm9::chr5:13125613..13125635,+p13@Sema3a


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:0048843negative regulation of axon extension involved in axon guidance0.00356105845614419
GO:0048841regulation of axon extension involved in axon guidance0.00356105845614419
GO:0048846axon extension involved in axon guidance0.00356105845614419
GO:0050919negative chemotaxis0.0035610584561442
GO:0007413axonal fasciculation0.00445132307018025
GO:0030517negative regulation of axon extension0.00445132307018025
GO:0050771negative regulation of axonogenesis0.00445132307018025
GO:0002027regulation of heart rate0.00445132307018025
GO:0008038neuron recognition0.00474807794152559
GO:0030516regulation of axon extension0.00498548183860188
GO:0050768negative regulation of neurogenesis0.00647465173844399
GO:0048675axon extension0.00682536204094304
GO:0050770regulation of axonogenesis0.00821782720648661
GO:0008016regulation of heart contraction0.00890264614036049
GO:0060047heart contraction0.00890264614036049
GO:0008037cell recognition0.00890264614036049
GO:0003015heart process0.00890264614036049
GO:0050767regulation of neurogenesis0.00890264614036049
GO:0007411axon guidance0.014806506212389
GO:0008015blood circulation0.0154312533099582
GO:0003013circulatory system process0.0154312533099582
GO:0042330taxis0.0154312533099582
GO:0006935chemotaxis0.0154312533099582
GO:0051093negative regulation of developmental process0.0154312533099582
GO:0007409axonogenesis0.0214982417907964
GO:0048667neuron morphogenesis during differentiation0.0214982417907964
GO:0048812neurite morphogenesis0.0214982417907964
GO:0000904cellular morphogenesis during differentiation0.0235284219423813
GO:0031175neurite development0.0239450482395903
GO:0007626locomotory behavior0.0239777936047043
GO:0048666neuron development0.0250422820464334
GO:0050793regulation of developmental process0.0260519539686339
GO:0032990cell part morphogenesis0.0260519539686339
GO:0030030cell projection organization and biogenesis0.0260519539686339
GO:0048858cell projection morphogenesis0.0260519539686339
GO:0016477cell migration0.0260519539686339
GO:0030182neuron differentiation0.0260519539686339
GO:0051239regulation of multicellular organismal process0.0260519539686339
GO:0007610behavior0.0274710223759695
GO:0048699generation of neurons0.0274710223759695
GO:0051674localization of cell0.0274710223759695
GO:0006928cell motility0.0274710223759695
GO:0022008neurogenesis0.0279915757715521
GO:0042221response to chemical stimulus0.0342347210670226
GO:0009605response to external stimulus0.0346609689731368
GO:0000902cell morphogenesis0.0348529125494964
GO:0032989cellular structure morphogenesis0.0348529125494964
GO:0007399nervous system development0.0458486276228565



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
surface structure9.67e-0822
forelimb1.58e-077
pectoral appendage1.58e-077
pectoral appendage bud1.58e-077
forelimb bud1.58e-077
forelimb/pectoral fin field1.58e-077
sense organ5.68e-0712
sensory system5.68e-0712
entire sense organ system5.68e-0712


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)
MA0003.10.04894
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
MA0046.11.02391
MA0048.10.943003
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.212634
MA0056.10
MA0057.10.149949
MA0058.10.436487
MA0059.10.449345
MA0060.10.275911
MA0061.10.307097
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.000157319
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
MA0090.10.500693
MA0091.11.3559
MA0092.11.25163
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.11.03097
MA0105.10.199622
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.304661
MA0115.11.08851
MA0116.10.359483
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
MA0139.10.682297
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.307873
MA0145.10.379391
MA0146.10.635245
MA0147.10.320675
MA0148.11.3627
MA0149.10.464445
MA0062.20.204999
MA0035.20.630778
MA0039.20.181031
MA0138.20.788113
MA0002.21.97607
MA0137.20.416331
MA0104.20.261255
MA0047.22.76262
MA0112.20.119197
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.159217
MA0155.10.132921
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.11.08528
MA0163.10.664494
MA0164.12.67733
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.21.11318
MA0102.21.7182
MA0258.10.290587
MA0259.10.309517
MA0442.10
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