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MCL coexpression mm9:693: Difference between revisions

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{{MCL_coexpression_mm9
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organism growth;0.0176644566200871;14431,16000!GO:0030731;guanidinoacetate N-methyltransferase activity;0.0176644566200871;14431!GO:0005159;insulin-like growth factor receptor binding;0.0176644566200871;16000!GO:0006601;creatine biosynthetic process;0.0176644566200871;14431!GO:0018445;prothoracicotrophic hormone activity;0.0176644566200871;16000!GO:0033143;regulation of steroid hormone receptor signaling pathway;0.0176644566200871;16000!GO:0006600;creatine metabolic process;0.0176644566200871;14431!GO:0042396;phosphagen biosynthetic process;0.0176644566200871;14431!GO:0050650;chondroitin sulfate proteoglycan biosynthetic process;0.021406770417925;16000!GO:0050654;chondroitin sulfate proteoglycan metabolic process;0.021406770417925;16000!GO:0006599;phosphagen metabolic process;0.021406770417925;14431!GO:0030104;water homeostasis;0.0247732094639659;16000!GO:0018987;osmoregulation;0.0247732094639659;16000!GO:0021940;positive regulation of granule cell precursor 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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!1.23e-10!22;UBERON:0007499!1.23e-10!22;UBERON:0006925!1.23e-10!22;UBERON:0009497!1.23e-10!22;UBERON:0000015!1.23e-10!22;UBERON:0002423!1.23e-10!22;UBERON:0006235!1.23e-10!22;UBERON:0008835!1.23e-10!22;UBERON:0003894!1.23e-10!22;UBERON:0004161!1.23e-10!22;UBERON:0008836!1.23e-10!22;UBERON:0009854!1.34e-09!23;UBERON:0009856!1.34e-09!23;UBERON:0001264!1.58e-08!12;UBERON:0002365!2.99e-08!25;UBERON:0002330!2.99e-08!25;UBERON:0005256!3.44e-07!45
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.178895,0.297937,0.360062,0.200163,0.373426,0.458558,0.124431,1.91731,1.12691,1.071,0.447169,0.124608,0.470194,0.214197,0,0.656089,0.19356,1.76573,0.786777,0.26524,0.954669,0.469335,1.71972,0.304728,0.496413,0.709649,0.392919,0.67135,0.572447,0.989437,0.754912,2.38223,1.07782,1.1554,0.102262,0.184038,0.443753,0.166348,1.39973,0.196807,0.38461,0.890234,0.215898,1.68044,1.6507,0.578773,0.407653,0.479635,0.677281,0.639101,0.522137,0.935589,0.894161,0.911367,1.20022,0.249055,1.11002,0.101408,1.19606,0.735292,0.531188,0.854737,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,2.15451,0.128829,0.356247,0.944464,1.09617,0.0893951,0.0942164,0.567793,0.718494,0.268962,0.406536,0.673009,0.529804,0.380754,0.830765,4.62561,0.182066,0.271714,1.42647,1.55487,1.11522,0.835661,0.767462,0.205117,1.51576,0.149272,0.388243,0.770215,3.54303,0.50528,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.845852,0.878738,0.26996,1.89958,1.12221,0.195318,0.993542,0.953611,0.657356,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,0.33206,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,3.31507,0.201635,1.46048,0.305197,0.895708,0.153911,0.489108,0.976367,0.523103,0.637798,0.319291,0.876739,2.49793,0.829923,0.722546,0.313083,0.629147,0.482049,1.63125,0.445669,0.19482
|tfbs_overrepresentation_jaspar=MA0003.1;2.23267,MA0004.1;0.360508,MA0006.1;0.604851,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;2.22426,MA0017.1;1.22627,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;0.496338,MA0040.1;0.79313,MA0041.1;0.79301,MA0042.1;0.76637,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.236433,MA0050.1;0.396459,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.0660514,MA0056.1;0,MA0057.1;0.817159,MA0058.1;0.752621,MA0059.1;0.28489,MA0060.1;0.8754,MA0061.1;0.504772,MA0063.1;0,MA0066.1;0.485868,MA0067.1;1.12095,MA0068.1;0.484739,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;0.395679,MA0072.1;0.783532,MA0073.1;0.116023,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;0.623059,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;0.329444,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;0.795627,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;2.19906,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;0.385513,MA0140.1;0.440804,MA0141.1;0.259554,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.506239,MA0145.1;1.03071,MA0146.1;10.0552,MA0147.1;1.6106,MA0148.1;0.979954,MA0149.1;0.2978,MA0062.2;0.0948004,MA0035.2;0.44524,MA0039.2;5.88263,MA0138.2;0.590987,MA0002.2;1.27458,MA0137.2;0.257017,MA0104.2;1.34242,MA0047.2;0.495607,MA0112.2;0.663994,MA0065.2;1.46688,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;0.232525,MA0155.1;0.186607,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.550545,MA0160.1;0.378276,MA0161.1;0,MA0162.1;5.57117,MA0163.1;0.439212,MA0164.1;0.471016,MA0080.2;0.237846,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;2.58709,MA0102.2;1.49914,MA0258.1;0.921856,MA0259.1;0.170828,MA0442.1;0
}}

Latest revision as of 15:44, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79723648..79723690,-p1@Gamt
Mm9::chr10:79723704..79723720,-p2@Gamt
Mm9::chr10:79723749..79723758,-p4@Gamt
Mm9::chr10:79723760..79723771,-p3@Gamt
Mm9::chr10:87324040..87324051,+p14@Igf1
Mm9::chr15:98558459..98558464,-p@chr15:98558459..98558464
-
Mm9::chr4:144483114..144483127,+p9@Dhrs3
Mm9::chr7:72947916..72947934,+p@chr7:72947916..72947934
+
Mm9::chr8:74067075..74067113,+p@chr8:74067075..74067113
+
Mm9::chr8:96910386..96910409,+p1@Herpud1


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:0035264multicellular organism growth0.0176644566200871
GO:0030731guanidinoacetate N-methyltransferase activity0.0176644566200871
GO:0005159insulin-like growth factor receptor binding0.0176644566200871
GO:0006601creatine biosynthetic process0.0176644566200871
GO:0018445prothoracicotrophic hormone activity0.0176644566200871
GO:0033143regulation of steroid hormone receptor signaling pathway0.0176644566200871
GO:0006600creatine metabolic process0.0176644566200871
GO:0042396phosphagen biosynthetic process0.0176644566200871
GO:0050650chondroitin sulfate proteoglycan biosynthetic process0.021406770417925
GO:0050654chondroitin sulfate proteoglycan metabolic process0.021406770417925
GO:0006599phosphagen metabolic process0.021406770417925
GO:0030104water homeostasis0.0247732094639659
GO:0018987osmoregulation0.0247732094639659
GO:0021940positive regulation of granule cell precursor proliferation0.0247732094639659
GO:0021936regulation of granule cell precursor proliferation0.0247732094639659
GO:0048009insulin-like growth factor receptor signaling pathway0.0247732094639659
GO:0021534cell proliferation in hindbrain0.0247732094639659
GO:0021924cell proliferation in the external granule layer0.0247732094639659
GO:0021930granule cell precursor proliferation0.0247732094639659
GO:0030518steroid hormone receptor signaling pathway0.0305848572924333
GO:0030166proteoglycan biosynthetic process0.0358385983338119
GO:0030522intracellular receptor-mediated signaling pathway0.037226303460844
GO:0005184neuropeptide hormone activity0.037226303460844
GO:0006029proteoglycan metabolic process0.037226303460844
GO:0030879mammary gland development0.0413663738297994
GO:0009887organ morphogenesis0.0465295563906256
GO:0042398amino acid derivative biosynthetic process0.0485262686279161
GO:0044272sulfur compound biosynthetic process0.0485262686279161
GO:0051789response to protein stimulus0.0485262686279161
GO:0006986response to unfolded protein0.0485262686279161



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
liver1.23e-1022
epithelial sac1.23e-1022
digestive gland1.23e-1022
epithelium of foregut-midgut junction1.23e-1022
anatomical boundary1.23e-1022
hepatobiliary system1.23e-1022
foregut-midgut junction1.23e-1022
hepatic diverticulum1.23e-1022
liver primordium1.23e-1022
septum transversum1.23e-1022
liver bud1.23e-1022
digestive tract diverticulum1.34e-0923
sac1.34e-0923
pancreas1.58e-0812
exocrine gland2.99e-0825
exocrine system2.99e-0825
trunk mesenchyme3.44e-0745


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)
MA0003.12.23267
MA0004.10.360508
MA0006.10.604851
MA0007.10.346734
MA0009.10.780842
MA0014.12.22426
MA0017.11.22627
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.79301
MA0042.10.76637
MA0043.10.875991
MA0046.10.816137
MA0048.10.236433
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.0660514
MA0056.10
MA0057.10.817159
MA0058.10.752621
MA0059.10.28489
MA0060.10.8754
MA0061.10.504772
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.484739
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.116023
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.623059
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.795627
MA0103.10.242398
MA0105.10.0911942
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.90605
MA0113.10.516916
MA0114.12.19906
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
MA0139.10.385513
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.506239
MA0145.11.03071
MA0146.110.0552
MA0147.11.6106
MA0148.10.979954
MA0149.10.2978
MA0062.20.0948004
MA0035.20.44524
MA0039.25.88263
MA0138.20.590987
MA0002.21.27458
MA0137.20.257017
MA0104.21.34242
MA0047.20.495607
MA0112.20.663994
MA0065.21.46688
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.232525
MA0155.10.186607
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.550545
MA0160.10.378276
MA0161.10
MA0162.15.57117
MA0163.10.439212
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.22.58709
MA0102.21.49914
MA0258.10.921856
MA0259.10.170828
MA0442.10
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