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MCL coexpression mm9:1477: Difference between revisions

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{{MCL_coexpression_mm9
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growth factor receptor binding;0.00723129172825533;16002!GO:0018445;prothoracicotrophic hormone activity;0.00723129172825533;16002!GO:0030513;positive regulation of BMP signaling pathway;0.00723129172825533;14734!GO:0008283;cell proliferation;0.00980652068650246;16002,14734!GO:0009887;organ morphogenesis;0.00980652068650246;16002,14734!GO:0030510;regulation of BMP signaling pathway;0.017166789799002;14734!GO:0001658;ureteric bud branching;0.017166789799002;14734!GO:0005184;neuropeptide hormone activity;0.017166789799002;16002!GO:0045926;negative regulation of growth;0.0200748149452051;14734!GO:0030509;BMP signaling pathway;0.0202856665377052;14734!GO:0001657;ureteric bud development;0.0202856665377052;14734!GO:0009653;anatomical structure morphogenesis;0.0202856665377052;16002,14734!GO:0001656;metanephros development;0.0247492752265413;14734!GO:0048513;organ development;0.0247492752265413;16002,14734!GO:0048754;branching morphogenesis of a tube;0.0271467911307937;14734!GO:0001763;morphogenesis of a branching structure;0.0271467911307937;14734!GO:0009967;positive regulation of signal transduction;0.0271467911307937;14734!GO:0001822;kidney development;0.0271467911307937;14734!GO:0048731;system development;0.0271467911307937;16002,14734!GO:0001655;urogenital system development;0.0271467911307937;14734!GO:0007178;transmembrane receptor protein serine/threonine kinase signaling pathway;0.0271467911307937;14734!GO:0048856;anatomical structure development;0.0319733690770696;16002,14734!GO:0005615;extracellular space;0.0319733690770696;16002,14734!GO:0008285;negative regulation of cell proliferation;0.0319733690770696;14734!GO:0048503;GPI anchor binding;0.0319733690770696;14734!GO:0005179;hormone activity;0.0319733690770696;16002!GO:0044421;extracellular region part;0.0319733690770696;16002,14734!GO:0007275;multicellular organismal development;0.0321147276600331;16002,14734!GO:0035239;tube 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|gostat_on_MCL_coexpression=GO:0005159;insulin-like growth factor receptor binding;0.00723129172825533;16002!GO:0018445;prothoracicotrophic hormone activity;0.00723129172825533;16002!GO:0030513;positive regulation of BMP signaling pathway;0.00723129172825533;14734!GO:0008283;cell proliferation;0.00980652068650246;16002,14734!GO:0009887;organ morphogenesis;0.00980652068650246;16002,14734!GO:0030510;regulation of BMP signaling pathway;0.017166789799002;14734!GO:0001658;ureteric bud branching;0.017166789799002;14734!GO:0005184;neuropeptide hormone activity;0.017166789799002;16002!GO:0045926;negative regulation of growth;0.0200748149452051;14734!GO:0030509;BMP signaling pathway;0.0202856665377052;14734!GO:0001657;ureteric bud development;0.0202856665377052;14734!GO:0009653;anatomical structure morphogenesis;0.0202856665377052;16002,14734!GO:0001656;metanephros development;0.0247492752265413;14734!GO:0048513;organ development;0.0247492752265413;16002,14734!GO:0048754;branching morphogenesis of a tube;0.0271467911307937;14734!GO:0001763;morphogenesis of a branching structure;0.0271467911307937;14734!GO:0009967;positive regulation of signal transduction;0.0271467911307937;14734!GO:0001822;kidney development;0.0271467911307937;14734!GO:0048731;system development;0.0271467911307937;16002,14734!GO:0001655;urogenital system development;0.0271467911307937;14734!GO:0007178;transmembrane receptor protein serine/threonine kinase signaling pathway;0.0271467911307937;14734!GO:0048856;anatomical structure development;0.0319733690770696;16002,14734!GO:0005615;extracellular space;0.0319733690770696;16002,14734!GO:0008285;negative regulation of cell proliferation;0.0319733690770696;14734!GO:0048503;GPI anchor binding;0.0319733690770696;14734!GO:0005179;hormone activity;0.0319733690770696;16002!GO:0044421;extracellular region part;0.0319733690770696;16002,14734!GO:0007275;multicellular organismal development;0.0321147276600331;16002,14734!GO:0035239;tube morphogenesis;0.0346178339930072;14734!GO:0040008;regulation of growth;0.0346178339930072;14734!GO:0008083;growth factor activity;0.0346178339930072;16002!GO:0035091;phosphoinositide binding;0.0368969072946606;14734!GO:0005543;phospholipid binding;0.0425178054670808;14734!GO:0035295;tube development;0.0425178054670808;14734!GO:0032502;developmental process;0.0444869144100882;16002,14734!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000468!8.81e-11!333;UBERON:0000922!3.24e-07!320;UBERON:0005177!4.11e-07!79
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.819928,0.464605,0.535892,0.346849,0.550971,0.645383,0.247459,0.257202,1.00112,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.656199,0.143775,0.426133,0.35122,0.657163,0.345236,0.472505,0.686615,0.223823,0.572827,1.02135,0.534301,0.558142,0.960397,3.34545,0.589948,2.56614,0.951637,0.326478,0.629145,0.303703,0.27383,0.342638,0.56353,0.0995018,0.366415,0.659176,0.524258,0.77511,0.589246,0.594982,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,1.50238,1.15584,0.663395,2.16366,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.11437,1.156,0.599223,0.19692,0.204132,0.763395,0.922432,1.10012,0.254777,0.874787,0.722675,0.240896,1.03903,0.0539203,1.75124,1.02367,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.244935,0.976308,0.775372,0.483322,1.56871,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,1.11115,1.09461,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,3.10162,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.706252,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.920761,1.63376,0.667976,1.10596,0.287383,0.678689,1.18867,1.70209,0.376898,0.48935,1.25034,1.31911,1.03816,0.926663,1.21135,0.82857,0.671017,0.86867,0.63125,0.30995
|tfbs_overrepresentation_jaspar=MA0003.1;1.03722,MA0004.1;0.536396,MA0006.1;0.359699,MA0007.1;1.29371,MA0009.1;0.987341,MA0014.1;9.25427,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;0.486223,MA0050.1;0.57678,MA0051.1;0.695779,MA0052.1;1.00829,MA0055.1;0.0585191,MA0056.1;0,MA0057.1;0.895081,MA0058.1;0.436487,MA0059.1;0.449345,MA0060.1;0.757042,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;0.401473,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;1.74419,MA0089.1;0,MA0090.1;0.500693,MA0091.1;0.55008,MA0092.1;1.25163,MA0093.1;0.379257,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;0.824407,MA0109.1;0,MA0111.1;1.2824,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;0.243463,MA0140.1;0.625902,MA0141.1;0.419361,MA0142.1;0.876028,MA0143.1;0.725672,MA0144.1;0.307873,MA0145.1;0.119202,MA0146.1;0.353523,MA0147.1;0.320675,MA0148.1;0.553294,MA0149.1;0.464445,MA0062.2;0.204999,MA0035.2;0.630778,MA0039.2;3.59125,MA0138.2;0.788113,MA0002.2;0.689262,MA0137.2;0.416331,MA0104.2;0.261255,MA0047.2;0.685741,MA0112.2;0.119197,MA0065.2;0.380324,MA0150.1;1.29346,MA0151.1;0,MA0152.1;0.685852,MA0153.1;1.13945,MA0154.1;0.159217,MA0155.1;0.822245,MA0156.1;0.406559,MA0157.1;0.843181,MA0158.1;0,MA0159.1;0.331229,MA0160.1;0.556423,MA0161.1;0,MA0162.1;0.70356,MA0163.1;0.163321,MA0164.1;0.658997,MA0080.2;0.393257,MA0018.2;0.669032,MA0099.2;0.781628,MA0079.2;1.33539,MA0102.2;1.7182,MA0258.1;0.290587,MA0259.1;0.833237,MA0442.1;0
}}

Latest revision as of 16:59, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr7:149844662..149844672,-p8@Igf2
Mm9::chrX:49625849..49625871,-p@chrX:49625849..49625871
-
Mm9::chrX:49967074..49967087,-p2@Gpc3
Mm9::chrX:49967090..49967101,-p3@Gpc3
Mm9::chrX:49967113..49967156,-p1@Gpc3
Mm9::chrX:49967416..49967437,-p4@Gpc3


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:0005159insulin-like growth factor receptor binding0.00723129172825533
GO:0018445prothoracicotrophic hormone activity0.00723129172825533
GO:0030513positive regulation of BMP signaling pathway0.00723129172825533
GO:0008283cell proliferation0.00980652068650246
GO:0009887organ morphogenesis0.00980652068650246
GO:0030510regulation of BMP signaling pathway0.017166789799002
GO:0001658ureteric bud branching0.017166789799002
GO:0005184neuropeptide hormone activity0.017166789799002
GO:0045926negative regulation of growth0.0200748149452051
GO:0030509BMP signaling pathway0.0202856665377052
GO:0001657ureteric bud development0.0202856665377052
GO:0009653anatomical structure morphogenesis0.0202856665377052
GO:0001656metanephros development0.0247492752265413
GO:0048513organ development0.0247492752265413
GO:0048754branching morphogenesis of a tube0.0271467911307937
GO:0001763morphogenesis of a branching structure0.0271467911307937
GO:0009967positive regulation of signal transduction0.0271467911307937
GO:0001822kidney development0.0271467911307937
GO:0048731system development0.0271467911307937
GO:0001655urogenital system development0.0271467911307937
GO:0007178transmembrane receptor protein serine/threonine kinase signaling pathway0.0271467911307937
GO:0048856anatomical structure development0.0319733690770696
GO:0005615extracellular space0.0319733690770696
GO:0008285negative regulation of cell proliferation0.0319733690770696
GO:0048503GPI anchor binding0.0319733690770696
GO:0005179hormone activity0.0319733690770696
GO:0044421extracellular region part0.0319733690770696
GO:0007275multicellular organismal development0.0321147276600331
GO:0035239tube morphogenesis0.0346178339930072
GO:0040008regulation of growth0.0346178339930072
GO:0008083growth factor activity0.0346178339930072
GO:0035091phosphoinositide binding0.0368969072946606
GO:0005543phospholipid binding0.0425178054670808
GO:0035295tube development0.0425178054670808
GO:0032502developmental process0.0444869144100882



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
multi-cellular organism8.81e-11333
embryo3.24e-07320
trunk region element4.11e-0779


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)
MA0003.11.03722
MA0004.10.536396
MA0006.10.359699
MA0007.11.29371
MA0009.10.987341
MA0014.19.25427
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
MA0048.10.486223
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.0585191
MA0056.10
MA0057.10.895081
MA0058.10.436487
MA0059.10.449345
MA0060.10.757042
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
MA0073.10.401473
MA0074.10.638014
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.11.74419
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.11.25163
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.10.199622
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.11.2824
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
MA0139.10.243463
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.307873
MA0145.10.119202
MA0146.10.353523
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.20.204999
MA0035.20.630778
MA0039.23.59125
MA0138.20.788113
MA0002.20.689262
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.20.119197
MA0065.20.380324
MA0150.11.29346
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.159217
MA0155.10.822245
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.10.70356
MA0163.10.163321
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.21.33539
MA0102.21.7182
MA0258.10.290587
MA0259.10.833237
MA0442.10
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