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|ontology_enrichment_uberon=UBERON:0000160!3.73e-24!31;UBERON:0005409!4.75e-19!47;UBERON:0000344!2.38e-14!15;UBERON:0001242!1.45e-12!13;UBERON:0000060!1.45e-12!13;UBERON:0001262!1.45e-12!13;UBERON:0004786!1.45e-12!13;UBERON:0004923!1.56e-10!24;UBERON:0004119!4.67e-10!118;UBERON:0000925!4.67e-10!118;UBERON:0006595!4.67e-10!118;UBERON:0001007!2.91e-09!116;UBERON:0001555!2.91e-09!116;UBERON:0007026!2.91e-09!116;UBERON:0003350!1.01e-08!9;UBERON:0004808!1.01e-08!9;UBERON:0001277!1.01e-08!9;UBERON:0004921!2.99e-08!114
|ontology_enrichment_uberon=UBERON:0000160!3.73e-24!31;UBERON:0005409!4.75e-19!47;UBERON:0000344!2.38e-14!15;UBERON:0001242!1.45e-12!13;UBERON:0000060!1.45e-12!13;UBERON:0001262!1.45e-12!13;UBERON:0004786!1.45e-12!13;UBERON:0004923!1.56e-10!24;UBERON:0004119!4.67e-10!118;UBERON:0000925!4.67e-10!118;UBERON:0006595!4.67e-10!118;UBERON:0001007!2.91e-09!116;UBERON:0001555!2.91e-09!116;UBERON:0007026!2.91e-09!116;UBERON:0003350!1.01e-08!9;UBERON:0004808!1.01e-08!9;UBERON:0001277!1.01e-08!9;UBERON:0004921!2.99e-08!114
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.284621,0.204219,0.25808,0.391122,0.743234,0.346405,0.51055,0.0719629,0.646925,0.308886,0.336042,0.237599,0.357027,0.419678,0,0.530547,0.118546,0.814719,0.100162,0.176628,0.837419,0.356242,0.388504,0.603782,1.75954,0.203385,0.287195,0.915208,0.145734,0.275529,0.624931,0.373899,0.397142,0.135203,0.61925,0.111136,0.885722,0.322338,0.581324,0.384293,0.279796,1.08698,0.136236,0.486712,0.24907,0.457618,0.300372,2.04341,0.156829,0.514446,0.404841,0.321327,0.759566,0.776306,0.363247,0.163199,0.325117,0.190698,0.36147,1.47398,0.413233,0.569343,0.504093,0.974413,0.541429,0.908031,1.25063,0.60172,1.10561,1.05857,0.246154,0.351968,0.808562,0.181606,0.0433214,0.702638,0.447339,0.590017,1.61198,0.0707051,1.34858,1.05972,0.227715,0.69807,0.250675,0.0697055,0.611818,0.462057,1.41118,0.975915,0.702809,0.636995,0.401201,0.315787,1.5019,0.503836,0.639644,0.457849,0.842735,0.358446,0.624668,0.742871,0.514993,0.514023,0.76508,0.569344,0.804983,0.539826,0.177945,0.62491,0.744577,1.02113,0.313258,0.982794,1.25018,0.342134,0.26114,0.53175,0.108794,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,1.52534,0.906557,0.807921,0.726634,0.252176,0.877862,0.375176,1.0039,5.29617,0.231086,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,1.16467,1.73788,0.657796,0.394117,0.3445,0.500318,0.761071,0.29706,0.374365,0.839715,0.405736,0.440483,0.222538,0.652913,2.21508,0.697256,0.593895,0.620756,0.50503,0.367885,0.110426,0.33468,0.238727
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.284621,0.204219,0.25808,0.391122,0.743234,0.346405,0.51055,0.0719629,0.646925,0.308886,0.336042,0.237599,0.357027,0.419678,0,0.530547,0.118546,0.814719,0.100162,0.176628,0.837419,0.356242,0.388504,0.603782,1.75954,0.203385,0.287195,0.915208,0.145734,0.275529,0.624931,0.373899,0.397142,0.135203,0.61925,0.111136,0.885722,0.322338,0.581324,0.384293,0.279796,1.08698,0.136236,0.486712,0.24907,0.457618,0.300372,2.04341,0.156829,0.514446,0.404841,0.321327,0.759566,0.776306,0.363247,0.163199,0.325117,0.190698,0.36147,1.47398,0.413233,0.569343,0.504093,0.974413,0.541429,0.908031,1.25063,0.60172,1.10561,1.05857,0.246154,0.351968,0.808562,0.181606,0.0433214,0.702638,0.447339,0.590017,1.61198,0.0707051,1.34858,1.05972,0.227715,0.69807,0.250675,0.0697055,0.611818,0.462057,1.41118,0.975915,0.702809,0.636995,0.401201,0.315787,1.5019,0.503836,0.639644,0.457849,0.842735,0.358446,0.624668,0.742871,0.514993,0.514023,0.76508,0.569344,0.804983,0.539826,0.177945,0.62491,0.744577,1.02113,0.313258,0.982794,1.25018,0.342134,0.26114,0.53175,0.108794,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,1.52534,0.906557,0.807921,0.726634,0.252176,0.877862,0.375176,1.0039,5.29617,0.231086,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,1.16467,1.73788,0.657796,0.394117,0.3445,0.500318,0.761071,0.29706,0.374365,0.839715,0.405736,0.440483,0.222538,0.652913,2.21508,0.697256,0.593895,0.620756,0.50503,0.367885,0.110426,0.33468,0.238727
|tfbs_overrepresentation_jaspar=MA0003.1;0.178528,MA0004.1;0.717031,MA0006.1;0.412095,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;0.37055,MA0017.1;1.43837,MA0019.1;0.480432,MA0024.1;0.608636,MA0025.1;0.873493,MA0027.1;2.275,MA0028.1;0.138956,MA0029.1;0.588275,MA0030.1;0.594419,MA0031.1;0.561217,MA0038.1;0.992094,MA0040.1;0.661716,MA0041.1;0.198922,MA0042.1;0.189008,MA0043.1;0.74191,MA0046.1;0.683926,MA0048.1;0.84922,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;0.669354,MA0055.1;1.23886,MA0056.1;0,MA0057.1;0.489127,MA0058.1;0.541281,MA0059.1;0.19314,MA0060.1;0.586951,MA0061.1;0.32765,MA0063.1;0,MA0066.1;0.970926,MA0067.1;0.981551,MA0068.1;1.17375,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;0.0195439,MA0074.1;1.61724,MA0076.1;0.491745,MA0077.1;1.52827,MA0078.1;0.418168,MA0081.1;0.210747,MA0083.1;0.741151,MA0084.1;1.30392,MA0087.1;0.699999,MA0088.1;0.171343,MA0089.1;0,MA0090.1;1.2186,MA0091.1;0.269175,MA0092.1;0.231323,MA0093.1;0.444403,MA0095.1;0,MA0098.1;0,MA0100.1;0.330364,MA0101.1;0.57968,MA0103.1;0.157724,MA0105.1;0.684733,MA0106.1;0.425111,MA0107.1;1.45792,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.679612,MA0113.1;0.400008,MA0114.1;2.87734,MA0115.1;0.744589,MA0116.1;0.8172,MA0117.1;0.713754,MA0119.1;0.200349,MA0122.1;0.732707,MA0124.1;0.929684,MA0125.1;0.857794,MA0130.1;0,MA0131.1;0.476296,MA0132.1;0,MA0133.1;0,MA0135.1;3.0506,MA0136.1;0.357464,MA0139.1;0.231431,MA0140.1;0.330266,MA0141.1;0.511953,MA0142.1;0.547747,MA0143.1;1.06535,MA0144.1;1.11784,MA0145.1;0.614688,MA0146.1;0.458458,MA0147.1;0.107632,MA0148.1;0.271704,MA0149.1;1.11452,MA0062.2;0.177386,MA0035.2;0.888731,MA0039.2;0.945584,MA0138.2;0.469076,MA0002.2;0.235791,MA0137.2;0.506794,MA0104.2;0.0740839,MA0047.2;0.380343,MA0112.2;0.0731504,MA0065.2;0.371748,MA0150.1;0.246295,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.837005,MA0155.1;0.423059,MA0156.1;0.163042,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.365914,MA0160.1;1.37966,MA0161.1;0,MA0162.1;0.353984,MA0163.1;0.094989,MA0164.1;0.940888,MA0080.2;0.467794,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;0.227458,MA0102.2;1.35579,MA0258.1;1.04836,MA0259.1;0.678628,MA0442.1;0
}}
}}

Revision as of 11:52, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:69388232..69388250,+p2@Ank3
Mm9::chr12:85958276..85958369,-p1@Abcd4
Mm9::chr14:58017323..58017346,-p1@Cryl1
Mm9::chr15:80019562..80019612,+p@chr15:80019562..80019612
+
Mm9::chr15:80019614..80019631,+p@chr15:80019614..80019631
+
Mm9::chr16:21868045..21868054,+p@chr16:21868045..21868054
+
Mm9::chr17:34999406..34999417,-p4@Cfb
Mm9::chr17:85427687..85427744,+p1@Slc3a1
Mm9::chr17:85432956..85432975,+p@chr17:85432956..85432975
+
Mm9::chr1:166388476..166388494,-p1@Atp1b1
Mm9::chr3:101408578..101408612,-p1@Atp1a1
Mm9::chr3:96633992..96634038,+p1@Pdzk1
Mm9::chr3:96634046..96634062,+p2@Pdzk1
Mm9::chr7:54051031..54051092,-p1@Hps5


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:0005391sodium:potassium-exchanging ATPase activity0.000649603968083954
GO:0043492ATPase activity, coupled to movement of substances0.000649603968083954
GO:0042626ATPase activity, coupled to transmembrane movement of substances0.000649603968083954
GO:0016820hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances0.000649603968083954
GO:0015399primary active transmembrane transporter activity0.000649603968083954
GO:0015405P-P-bond-hydrolysis-driven transmembrane transporter activity0.000649603968083954
GO:0042623ATPase activity, coupled0.00299468280554583
GO:0016887ATPase activity0.00406725087011969
GO:0022857transmembrane transporter activity0.00489032804989519
GO:0022804active transmembrane transporter activity0.00489032804989519
GO:0015662ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism0.00489032804989519
GO:0016323basolateral plasma membrane0.00489032804989519
GO:00038694-nitrophenylphosphatase activity0.00489032804989519
GO:0031944negative regulation of glucocorticoid metabolic process0.00489032804989519
GO:0003812alternative-complement-pathway C3/C5 convertase activity0.00489032804989519
GO:0031947negative regulation of glucocorticoid biosynthetic process0.00489032804989519
GO:0050104L-gulonate 3-dehydrogenase activity0.00489032804989519
GO:0045989positive regulation of striated muscle contraction0.00489032804989519
GO:0005890sodium:potassium-exchanging ATPase complex0.00489032804989519
GO:0031402sodium ion binding0.00540356830941047
GO:0042625ATPase activity, coupled to transmembrane movement of ions0.00540356830941047
GO:0016787hydrolase activity0.00665296331702059
GO:0017111nucleoside-triphosphatase activity0.00665296331702059
GO:0016462pyrophosphatase activity0.00665296331702059
GO:0016818hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides0.00665296331702059
GO:0031946regulation of glucocorticoid biosynthetic process0.00665296331702059
GO:0006942regulation of striated muscle contraction0.00665296331702059
GO:0016817hydrolase activity, acting on acid anhydrides0.00665296331702059
GO:0030955potassium ion binding0.00719419230784296
GO:0006814sodium ion transport0.00720758775445428
GO:0051240positive regulation of multicellular organismal process0.00760633875252806
GO:0030641cellular hydrogen ion homeostasis0.00844369105956371
GO:0031943regulation of glucocorticoid metabolic process0.00844369105956371
GO:0006813potassium ion transport0.0117900740447466
GO:0006704glucocorticoid biosynthetic process0.0122164455235837
GO:0045823positive regulation of heart contraction0.0122164455235837
GO:0004556alpha-amylase activity0.0122164455235837
GO:0045933positive regulation of muscle contraction0.0122164455235837
GO:0031420alkali metal ion binding0.013695949110629
GO:0045822negative regulation of heart contraction0.0139240775993345
GO:0019218regulation of steroid metabolic process0.014437015586575
GO:0015991ATP hydrolysis coupled proton transport0.014437015586575
GO:0030004cellular monovalent inorganic cation homeostasis0.014437015586575
GO:0016160amylase activity0.014437015586575
GO:0055067monovalent inorganic cation homeostasis0.014437015586575
GO:0015988energy coupled proton transport, against electrochemical gradient0.0161376681274488
GO:0008211glucocorticoid metabolic process0.0177651960227553
GO:0006957complement activation, alternative pathway0.0193241698064379
GO:0002026regulation of the force of heart contraction0.0245945883898245
GO:0051239regulation of multicellular organismal process0.0258274784993673
GO:0015672monovalent inorganic cation transport0.0267549287020553
GO:0019216regulation of lipid metabolic process0.033833195127419
GO:0030317sperm motility0.0366749634372288
GO:0006810transport0.0425450358553478
GO:0030001metal ion transport0.0449090202084987
GO:0051234establishment of localization0.0451118381541869
GO:0042383sarcolemma0.0454074163261384
GO:0051241negative regulation of multicellular organismal process0.0454261965387048
GO:0006941striated muscle contraction0.0454261965387048
GO:0042493response to drug0.0462005525431601
GO:0006937regulation of muscle contraction0.049958755556072



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>cell_data<br>uberon_data<br><br>


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)
MA0003.10.178528
MA0004.10.717031
MA0006.10.412095
MA0007.10.246385
MA0009.10.649874
MA0014.10.37055
MA0017.11.43837
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.138956
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.992094
MA0040.10.661716
MA0041.10.198922
MA0042.10.189008
MA0043.10.74191
MA0046.10.683926
MA0048.10.84922
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.11.23886
MA0056.10
MA0057.10.489127
MA0058.10.541281
MA0059.10.19314
MA0060.10.586951
MA0061.10.32765
MA0063.10
MA0066.10.970926
MA0067.10.981551
MA0068.11.17375
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.10.0195439
MA0074.11.61724
MA0076.10.491745
MA0077.11.52827
MA0078.10.418168
MA0081.10.210747
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.171343
MA0089.10
MA0090.11.2186
MA0091.10.269175
MA0092.10.231323
MA0093.10.444403
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.57968
MA0103.10.157724
MA0105.10.684733
MA0106.10.425111
MA0107.11.45792
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.10.400008
MA0114.12.87734
MA0115.10.744589
MA0116.10.8172
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.13.0506
MA0136.10.357464
MA0139.10.231431
MA0140.10.330266
MA0141.10.511953
MA0142.10.547747
MA0143.11.06535
MA0144.11.11784
MA0145.10.614688
MA0146.10.458458
MA0147.10.107632
MA0148.10.271704
MA0149.11.11452
MA0062.20.177386
MA0035.20.888731
MA0039.20.945584
MA0138.20.469076
MA0002.20.235791
MA0137.20.506794
MA0104.20.0740839
MA0047.20.380343
MA0112.20.0731504
MA0065.20.371748
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.837005
MA0155.10.423059
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.365914
MA0160.11.37966
MA0161.10
MA0162.10.353984
MA0163.10.094989
MA0164.10.940888
MA0080.20.467794
MA0018.20.366212
MA0099.20.463355
MA0079.20.227458
MA0102.21.35579
MA0258.11.04836
MA0259.10.678628
MA0442.10
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