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MCL coexpression mm9:1642: Difference between revisions

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{{MCL_coexpression_mm9
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binding;0.0112294586646708;66895,13636!GO:0005543;phospholipid binding;0.0112294586646708;66895,13636!GO:0050790;regulation of catalytic activity;0.0112294586646708;13636,54720!GO:0048013;ephrin receptor signaling pathway;0.0112294586646708;13636!GO:0043666;regulation of phosphoprotein phosphatase activity;0.0112294586646708;54720!GO:0065009;regulation of a molecular function;0.0112294586646708;13636,54720!GO:0008289;lipid binding;0.0126774394364876;66895,13636!GO:0019722;calcium-mediated signaling;0.0340461036786531;54720!GO:0050770;regulation of axonogenesis;0.0432118247404294;13636!GO:0000187;activation of MAPK activity;0.0464345050491006;13636!GO:0043406;positive regulation of MAP kinase activity;0.0464345050491006;13636!GO:0050767;regulation of neurogenesis;0.0464345050491006;13636!GO:0007242;intracellular signaling cascade;0.0464345050491006;13636,54720!GO:0007154;cell communication;0.0464345050491006;66895,13636,54720!GO:0043405;regulation of MAP kinase activity;0.0464345050491006;13636!GO:0048741;skeletal muscle fiber development;0.0464345050491006;54720!GO:0048747;muscle fiber development;0.0464345050491006;54720!GO:0048468;cell 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|gostat_on_MCL_coexpression=GO:0035091;phosphoinositide binding;0.0112294586646708;66895,13636!GO:0005543;phospholipid binding;0.0112294586646708;66895,13636!GO:0050790;regulation of catalytic activity;0.0112294586646708;13636,54720!GO:0048013;ephrin receptor signaling pathway;0.0112294586646708;13636!GO:0043666;regulation of phosphoprotein phosphatase activity;0.0112294586646708;54720!GO:0065009;regulation of a molecular function;0.0112294586646708;13636,54720!GO:0008289;lipid binding;0.0126774394364876;66895,13636!GO:0019722;calcium-mediated signaling;0.0340461036786531;54720!GO:0050770;regulation of axonogenesis;0.0432118247404294;13636!GO:0000187;activation of MAPK activity;0.0464345050491006;13636!GO:0043406;positive regulation of MAP kinase activity;0.0464345050491006;13636!GO:0050767;regulation of neurogenesis;0.0464345050491006;13636!GO:0007242;intracellular signaling cascade;0.0464345050491006;13636,54720!GO:0007154;cell communication;0.0464345050491006;66895,13636,54720!GO:0043405;regulation of MAP kinase activity;0.0464345050491006;13636!GO:0048741;skeletal muscle fiber development;0.0464345050491006;54720!GO:0048747;muscle fiber development;0.0464345050491006;54720!GO:0048468;cell development;0.0464345050491006;13636,54720!
|ontology_enrichment_celltype=CL:0000066!1.92e-07!25
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!5.83e-15!118;UBERON:0000925!5.83e-15!118;UBERON:0006595!5.83e-15!118;UBERON:0001007!2.17e-14!116;UBERON:0001555!2.17e-14!116;UBERON:0007026!2.17e-14!116;UBERON:0004921!1.29e-13!114;UBERON:0000160!3.13e-13!31;UBERON:0005409!1.22e-11!47;UBERON:0009569!2.53e-11!66;UBERON:0005177!4.81e-10!79;UBERON:0000344!1.78e-07!15;UBERON:0002048!1.85e-07!14;UBERON:0000117!1.85e-07!14;UBERON:0000171!1.85e-07!14;UBERON:0000170!1.85e-07!14;UBERON:0005597!1.85e-07!14;UBERON:0000118!1.85e-07!14;UBERON:0005178!2.77e-07!17;UBERON:0005181!2.77e-07!17;UBERON:0002224!2.77e-07!17;UBERON:0000915!2.77e-07!17;UBERON:0008947!2.77e-07!17;UBERON:0003258!2.77e-07!17;UBERON:0000466!5.26e-07!79;UBERON:0005153!7.21e-07!17;UBERON:0001242!9.62e-07!13;UBERON:0000060!9.62e-07!13;UBERON:0001262!9.62e-07!13;UBERON:0004786!9.62e-07!13
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.612204,1.31238,1.46803,1.04755,0.618805,0.715644,0.300268,0.836099,0.746305,0.668936,0.702872,0.300533,1.72941,0.424775,0,0.930881,0.397593,0.283802,0.185796,0.489529,0.874994,1.72742,0.404661,0.537749,1.78963,0.274609,0.641282,1.15581,0.227599,0.626183,1.03545,0.395107,0.253145,0.425309,0.0566307,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.84962,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,0.220111,1.18062,1.19842,0.73621,0.469329,0.689304,0.731291,0.734051,2.31619,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.30684,2.08316,1.23259,0.714607,3.61942,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,0.970369,0.618102,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.806207,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,1.23956,0.674448,1.41481,0.399936,1.64321,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.44142,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.416978,1.18223,0.908552,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,4.7139
}}

Latest revision as of 17:15, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:34744542..34744557,-p1@1300014I06Rik
Mm9::chr16:92400312..92400328,-p1@Rcan1
Mm9::chr3:89083505..89083516,-p3@Efna1
Mm9::chr3:89083524..89083549,-p1@Efna1
Mm9::chr3:89083555..89083569,-p2@Efna1


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:0035091phosphoinositide binding0.0112294586646708
GO:0005543phospholipid binding0.0112294586646708
GO:0050790regulation of catalytic activity0.0112294586646708
GO:0048013ephrin receptor signaling pathway0.0112294586646708
GO:0043666regulation of phosphoprotein phosphatase activity0.0112294586646708
GO:0065009regulation of a molecular function0.0112294586646708
GO:0008289lipid binding0.0126774394364876
GO:0019722calcium-mediated signaling0.0340461036786531
GO:0050770regulation of axonogenesis0.0432118247404294
GO:0000187activation of MAPK activity0.0464345050491006
GO:0043406positive regulation of MAP kinase activity0.0464345050491006
GO:0050767regulation of neurogenesis0.0464345050491006
GO:0007242intracellular signaling cascade0.0464345050491006
GO:0007154cell communication0.0464345050491006
GO:0043405regulation of MAP kinase activity0.0464345050491006
GO:0048741skeletal muscle fiber development0.0464345050491006
GO:0048747muscle fiber development0.0464345050491006
GO:0048468cell development0.0464345050491006



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>

Cell Type
Ontology termp-valuen
epithelial cell1.92e-0725

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure5.83e-15118
endoderm5.83e-15118
presumptive endoderm5.83e-15118
digestive system2.17e-14116
digestive tract2.17e-14116
primitive gut2.17e-14116
subdivision of digestive tract1.29e-13114
intestine3.13e-1331
gastrointestinal system1.22e-1147
subdivision of trunk2.53e-1166
trunk region element4.81e-1079
mucosa1.78e-0715
lung1.85e-0714
respiratory tube1.85e-0714
respiration organ1.85e-0714
pair of lungs1.85e-0714
lung primordium1.85e-0714
lung bud1.85e-0714
thoracic cavity element2.77e-0717
thoracic segment organ2.77e-0717
thoracic cavity2.77e-0717
thoracic segment of trunk2.77e-0717
respiratory primordium2.77e-0717
endoderm of foregut2.77e-0717
immaterial anatomical entity5.26e-0779
epithelial bud7.21e-0717
intestinal mucosa9.62e-0713
anatomical wall9.62e-0713
wall of intestine9.62e-0713
gastrointestinal system mucosa9.62e-0713


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)
MA0003.12.77888
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.187732
MA0017.11.14026
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.10.205696
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.10.0851423
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.15.20981
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.453686
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.10.419688
MA0117.11.13165
MA0119.10.524046
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.8026
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.11.48363
MA0146.10.475727
MA0147.10.378658
MA0148.11.50563
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.21.8247
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.315156
MA0047.20.75686
MA0112.20.47695
MA0065.20.158101
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.11.74374
MA0155.10.173445
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.11.87338
MA0163.10.230013
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.20.435944
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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