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|ontology_enrichment_uberon=UBERON:0000970!6.27e-18!9;UBERON:0000019!6.27e-18!9;UBERON:0000047!6.27e-18!9;UBERON:0010312!6.27e-18!9;UBERON:0004088!6.27e-18!9;UBERON:0002104!6.27e-18!9;UBERON:0001456!6.27e-18!9;UBERON:0003072!6.27e-18!9;UBERON:0004128!6.27e-18!9;UBERON:0003071!6.27e-18!9;UBERON:0001444!2.89e-14!11;UBERON:0000020!6.80e-13!12;UBERON:0001032!6.80e-13!12;UBERON:0004456!6.80e-13!12;UBERON:0000033!9.81e-12!13;UBERON:0005085!9.81e-12!13;UBERON:0000014!1.06e-10!5;UBERON:0001003!1.06e-10!5;UBERON:0002097!1.06e-10!5;UBERON:0002199!1.06e-10!5;UBERON:0007029!1.06e-10!5;UBERON:0007376!1.06e-10!5;UBERON:0002416!1.06e-10!5;UBERON:0007383!1.06e-10!5
|ontology_enrichment_uberon=UBERON:0000970!6.27e-18!9;UBERON:0000019!6.27e-18!9;UBERON:0000047!6.27e-18!9;UBERON:0010312!6.27e-18!9;UBERON:0004088!6.27e-18!9;UBERON:0002104!6.27e-18!9;UBERON:0001456!6.27e-18!9;UBERON:0003072!6.27e-18!9;UBERON:0004128!6.27e-18!9;UBERON:0003071!6.27e-18!9;UBERON:0001444!2.89e-14!11;UBERON:0000020!6.80e-13!12;UBERON:0001032!6.80e-13!12;UBERON:0004456!6.80e-13!12;UBERON:0000033!9.81e-12!13;UBERON:0005085!9.81e-12!13;UBERON:0000014!1.06e-10!5;UBERON:0001003!1.06e-10!5;UBERON:0002097!1.06e-10!5;UBERON:0002199!1.06e-10!5;UBERON:0007029!1.06e-10!5;UBERON:0007376!1.06e-10!5;UBERON:0002416!1.06e-10!5;UBERON:0007383!1.06e-10!5
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.178895,0.807108,0.360062,1.09907,0.373426,0.458558,0.124431,0.411053,0.10445,0.417132,1.13606,0.124608,0.470194,0.214197,0,0.656089,0.564478,0.113609,0.205418,0.26524,0.0365724,0.469335,0.198877,0.304728,0.496413,0.107695,0.392919,0.238759,0.0790295,0.379806,1.78376,0.191698,0.0942651,0.214608,0.218093,0.184038,0.443753,0.166348,0.143746,1.08585,0.38461,0.307718,0.215898,0.0081642,0.349801,0.578773,1.05036,1.12721,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,0.47699,0.695271,0.435119,0.101408,0.47505,0.735292,0.531188,0.140453,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,0.03967,0.944464,0.0968968,0.623453,0.313198,0.567793,0.718494,0.268962,0.80832,0.673009,0.529804,0.380754,0.830765,0.0122854,0.0697823,0.271714,0.583509,1.55487,1.11522,0.835661,1.80968,0.205117,0.163126,0.455999,0.122617,0.770215,0.57902,0.234357,0.541671,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.845852,0.878738,0.26996,0.421988,1.12221,1.07996,0.0187247,0.363536,0.657356,0.181004,0.949798,0.607824,1.24551,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,2.12779,1.14365,15.1463,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,0.201635,0.580497,0.0316649,0.895708,0.153911,0.489108,0.976367,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.0054279
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.178895,0.807108,0.360062,1.09907,0.373426,0.458558,0.124431,0.411053,0.10445,0.417132,1.13606,0.124608,0.470194,0.214197,0,0.656089,0.564478,0.113609,0.205418,0.26524,0.0365724,0.469335,0.198877,0.304728,0.496413,0.107695,0.392919,0.238759,0.0790295,0.379806,1.78376,0.191698,0.0942651,0.214608,0.218093,0.184038,0.443753,0.166348,0.143746,1.08585,0.38461,0.307718,0.215898,0.0081642,0.349801,0.578773,1.05036,1.12721,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,0.47699,0.695271,0.435119,0.101408,0.47505,0.735292,0.531188,0.140453,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,0.03967,0.944464,0.0968968,0.623453,0.313198,0.567793,0.718494,0.268962,0.80832,0.673009,0.529804,0.380754,0.830765,0.0122854,0.0697823,0.271714,0.583509,1.55487,1.11522,0.835661,1.80968,0.205117,0.163126,0.455999,0.122617,0.770215,0.57902,0.234357,0.541671,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.845852,0.878738,0.26996,0.421988,1.12221,1.07996,0.0187247,0.363536,0.657356,0.181004,0.949798,0.607824,1.24551,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,2.12779,1.14365,15.1463,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,0.201635,0.580497,0.0316649,0.895708,0.153911,0.489108,0.976367,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.0054279
|tfbs_overrepresentation_jaspar=MA0003.1;0.0214004,MA0004.1;0.360508,MA0006.1;0.210471,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;0.342463,MA0017.1;0.233089,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;0.219287,MA0029.1;0.716673,MA0030.1;0.723093,MA0031.1;0.688336,MA0038.1;1.24163,MA0040.1;0.79313,MA0041.1;0.291712,MA0042.1;0.279998,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.066679,MA0050.1;0.396459,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.0660514,MA0056.1;0,MA0057.1;0.059732,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;0.145297,MA0061.1;0.16896,MA0063.1;0,MA0066.1;0.485868,MA0067.1;1.12095,MA0068.1;1.26706,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;1.02422,MA0072.1;0.783532,MA0073.1;0.460904,MA0074.1;0.451832,MA0076.1;0.249619,MA0077.1;0.762273,MA0078.1;0.536502,MA0081.1;0.305576,MA0083.1;0.875209,MA0084.1;1.44691,MA0087.1;0.832758,MA0088.1;0.14959,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;2.39515,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;0.292867,MA0103.1;0.242398,MA0105.1;0.0911942,MA0106.1;0.543967,MA0107.1;0.237082,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.90605,MA0113.1;0.516916,MA0114.1;0.500166,MA0115.1;0.878749,MA0116.1;0.210297,MA0117.1;0.846964,MA0119.1;0.293392,MA0122.1;0.866511,MA0124.1;1.06819,MA0125.1;0.994853,MA0130.1;0,MA0131.1;0.598671,MA0132.1;0,MA0133.1;0,MA0135.1;0.911905,MA0136.1;0.470672,MA0139.1;0.121562,MA0140.1;1.12231,MA0141.1;0.259554,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.506239,MA0145.1;0.664015,MA0146.1;0.00739145,MA0147.1;0.179496,MA0148.1;0.375491,MA0149.1;3.10307,MA0062.2;0.0948004,MA0035.2;1.1319,MA0039.2;0.026226,MA0138.2;0.590987,MA0002.2;0.391079,MA0137.2;0.257017,MA0104.2;0.134457,MA0047.2;0.495607,MA0112.2;0.0422488,MA0065.2;0.0424448,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;0.232525,MA0155.1;0.0498353,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.187774,MA0160.1;1.74983,MA0161.1;0,MA0162.1;0.00972009,MA0163.1;0.679942,MA0164.1;1.1874,MA0080.2;0.237846,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.340295,MA0102.2;1.49914,MA0258.1;0.156336,MA0259.1;0.170828,MA0442.1;0
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Revision as of 12:13, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:118412218..118412229,-p@chr14:118412218..118412229
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Mm9::chr14:118429907..118429909,-p@chr14:118429907..118429909
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Mm9::chr14:118451457..118451475,-p1@Dct
Mm9::chr15:10930471..10930491,+p1@Slc45a2
Mm9::chr15:10930503..10930518,+p2@Slc45a2
Mm9::chr19:29772395..29772417,+p1@Mlana
Mm9::chr4:80480108..80480125,+p1@Tyrp1
Mm9::chr4:80480190..80480199,+p5@Tyrp1
Mm9::chr4:80480202..80480217,+p3@Tyrp1
Mm9::chr6:97941770..97941784,+p4@Mitf


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:0006583melanin biosynthetic process from tyrosine6.78820209071475e-09
GO:0006582melanin metabolic process1.35741721685762e-08
GO:0042438melanin biosynthetic process1.35741721685762e-08
GO:0006570tyrosine metabolic process2.42608404590985e-08
GO:0009072aromatic amino acid family metabolic process1.46956811269265e-07
GO:0046148pigment biosynthetic process1.46956811269265e-07
GO:0048066pigmentation during development1.77004589903175e-07
GO:0042440pigment metabolic process1.90510097451336e-07
GO:0019748secondary metabolic process4.64698917360445e-07
GO:0006725aromatic compound metabolic process7.9118639122626e-06
GO:0006520amino acid metabolic process4.92698596534237e-05
GO:0006519amino acid and derivative metabolic process0.000103407251882155
GO:0009308amine metabolic process0.000150135472305523
GO:0006807nitrogen compound metabolic process0.000173712652337567
GO:0019752carboxylic acid metabolic process0.000310035712120609
GO:0006082organic acid metabolic process0.000310035712120609
GO:0004167dopachrome isomerase activity0.000991906161063647
GO:0043437butanoic acid metabolic process0.000991906161063647
GO:0043438acetoacetic acid metabolic process0.000991906161063647
GO:0044249cellular biosynthetic process0.00161887872627728
GO:0009058biosynthetic process0.00377523513334822
GO:0032438melanosome organization and biogenesis0.00409565704379738
GO:0048753pigment granule organization and biogenesis0.00409565704379738
GO:0033059cellular pigmentation0.0070626860823427
GO:0016863intramolecular oxidoreductase activity, transposing C



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
eye6.27e-189
camera-type eye6.27e-189
simple eye6.27e-189
immature eye6.27e-189
ocular region6.27e-189
visual system6.27e-189
face6.27e-189
optic cup6.27e-189
optic vesicle6.27e-189
eye primordium6.27e-189
subdivision of head2.89e-1411
sense organ6.80e-1312
sensory system6.80e-1312
entire sense organ system6.80e-1312
head9.81e-1213
ectodermal placode9.81e-1213
zone of skin1.06e-105
skin epidermis1.06e-105
skin of body1.06e-105
integument1.06e-105
surface1.06e-105
outer epithelium1.06e-105
integumental system1.06e-105
enveloping layer of ectoderm1.06e-105


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)
MA0003.10.0214004
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.342463
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.11.24163
MA0040.10.79313
MA0041.10.291712
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.066679
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.0660514
MA0056.10
MA0057.10.059732
MA0058.10.273976
MA0059.10.28489
MA0060.10.145297
MA0061.10.16896
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.11.26706
MA0069.10.801381
MA0070.10.791856
MA0071.11.02422
MA0072.10.783532
MA0073.10.460904
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.14959
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.12.39515
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.242398
MA0105.10.0911942
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.90605
MA0113.10.516916
MA0114.10.500166
MA0115.10.878749
MA0116.10.210297
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.10.121562
MA0140.11.12231
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.506239
MA0145.10.664015
MA0146.10.00739145
MA0147.10.179496
MA0148.10.375491
MA0149.13.10307
MA0062.20.0948004
MA0035.21.1319
MA0039.20.026226
MA0138.20.590987
MA0002.20.391079
MA0137.20.257017
MA0104.20.134457
MA0047.20.495607
MA0112.20.0422488
MA0065.20.0424448
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.232525
MA0155.10.0498353
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.11.74983
MA0161.10
MA0162.10.00972009
MA0163.10.679942
MA0164.11.1874
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.20.340295
MA0102.21.49914
MA0258.10.156336
MA0259.10.170828
MA0442.10
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