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MCL coexpression mm9:1135: Difference between revisions

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{{MCL_coexpression_mm9
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activation;0.0130524352190759;17387!GO:0030574;collagen catabolic process;0.0130524352190759;17387!GO:0044256;protein digestion;0.0130524352190759;17387!GO:0044254;multicellular organismal protein catabolic process;0.0130524352190759;17387!GO:0044266;multicellular organismal macromolecule catabolic process;0.0130524352190759;17387!GO:0044259;multicellular organismal macromolecule metabolic process;0.0130524352190759;17387!GO:0044243;multicellular organismal catabolic process;0.0130524352190759;17387!GO:0044268;multicellular organismal protein metabolic process;0.0130524352190759;17387!GO:0005509;calcium ion binding;0.0130524352190759;17387,14314!GO:0032963;collagen metabolic process;0.0130524352190759;17387!GO:0044236;multicellular organismal metabolic process;0.0130524352190759;17387!GO:0007586;digestion;0.0251744122614664;17387!GO:0048754;branching morphogenesis of a tube;0.0276721088505452;17387!GO:0008201;heparin binding;0.0276721088505452;14314!GO:0001763;morphogenesis of a branching structure;0.0276721088505452;17387!GO:0030324;lung development;0.0276721088505452;17387!GO:0030323;respiratory tube development;0.0276721088505452;17387!GO:0016485;protein processing;0.0276721088505452;17387!GO:0005539;glycosaminoglycan binding;0.0293868873408014;14314!GO:0030247;polysaccharide binding;0.0305312052801401;14314!GO:0001871;pattern binding;0.0305312052801401;14314!GO:0004222;metalloendopeptidase activity;0.0349291874710246;17387!GO:0005615;extracellular space;0.0349291874710246;17387,14314!GO:0044421;extracellular region part;0.037605042039508;17387,14314!GO:0035239;tube 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|gostat_on_MCL_coexpression=GO:0031638;zymogen activation;0.0130524352190759;17387!GO:0030574;collagen catabolic process;0.0130524352190759;17387!GO:0044256;protein digestion;0.0130524352190759;17387!GO:0044254;multicellular organismal protein catabolic process;0.0130524352190759;17387!GO:0044266;multicellular organismal macromolecule catabolic process;0.0130524352190759;17387!GO:0044259;multicellular organismal macromolecule metabolic process;0.0130524352190759;17387!GO:0044243;multicellular organismal catabolic process;0.0130524352190759;17387!GO:0044268;multicellular organismal protein metabolic process;0.0130524352190759;17387!GO:0005509;calcium ion binding;0.0130524352190759;17387,14314!GO:0032963;collagen metabolic process;0.0130524352190759;17387!GO:0044236;multicellular organismal metabolic process;0.0130524352190759;17387!GO:0007586;digestion;0.0251744122614664;17387!GO:0048754;branching morphogenesis of a tube;0.0276721088505452;17387!GO:0008201;heparin binding;0.0276721088505452;14314!GO:0001763;morphogenesis of a branching structure;0.0276721088505452;17387!GO:0030324;lung development;0.0276721088505452;17387!GO:0030323;respiratory tube development;0.0276721088505452;17387!GO:0016485;protein processing;0.0276721088505452;17387!GO:0005539;glycosaminoglycan binding;0.0293868873408014;14314!GO:0030247;polysaccharide binding;0.0305312052801401;14314!GO:0001871;pattern binding;0.0305312052801401;14314!GO:0004222;metalloendopeptidase activity;0.0349291874710246;17387!GO:0005615;extracellular space;0.0349291874710246;17387,14314!GO:0044421;extracellular region part;0.037605042039508;17387,14314!GO:0035239;tube morphogenesis;0.044577337318088;17387!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004535!1.83e-08!23;UBERON:0001009!1.83e-08!23;UBERON:0004872!1.93e-07!33;UBERON:0007100!2.84e-07!18;UBERON:0000948!2.84e-07!18;UBERON:0005498!2.84e-07!18;UBERON:0004140!2.84e-07!18;UBERON:0009881!2.84e-07!18;UBERON:0004141!2.84e-07!18;UBERON:0003084!2.84e-07!18;UBERON:0007005!2.84e-07!18;UBERON:0004139!2.84e-07!18;UBERON:0004291!2.84e-07!18;UBERON:0000468!3.91e-07!333
|tfbs_overrepresentation_for_novel_motifs=0.438063,2.48969,1.05921,0.480627,0.810002,0.495263,0.587291,1.12275,0.616096,0.219671,0.542749,0.575086,0.206435,0.599731,0.315771,0,0.795315,0.291368,0.19222,0.361892,0.978328,0.08187,0.598814,0.29769,0.419327,0.62766,1.0368,0.516511,0.344372,0.446946,0.50223,0.897561,0.289148,0.964228,0.316253,3.60442,0.279977,0.57142,0.258564,2.65781,0.295233,0.507468,0.54842,0.851774,0.515031,0.469348,0.714592,0.532496,0.0609361,0.917701,0.777641,0.654933,0.431711,1.04034,1.0579,1.47583,0.937475,0.56214,0.176152,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.21183,0.0869413,1.09164,0.507615,0.159969,0.498755,0.703064,0.859987,0.378988,0.610783,0.812889,0.663039,0.200155,0.975495,0.613286,0.042613,2.72752,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.668513,0.203879,0.913319,0.71485,0.79664,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,1.10097,1.02459,0.380122,0.547992,1.27206,0.796976,3.30647,0.484437,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,1.5026,1.00568,0.473246,1.16374,2.55494,1.29374,1.46009,0.446555,1.26843,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.813943,0.147909,0.0736236,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.0907999
|tfbs_overrepresentation_jaspar=MA0003.1;0.79075,MA0004.1;0.481116,MA0006.1;0.311391,MA0007.1;0.465969,MA0009.1;0.92425,MA0014.1;2.85278,MA0017.1;0.337808,MA0019.1;0.740036,MA0024.1;0.880057,MA0025.1;1.15921,MA0027.1;2.57545,MA0028.1;0.321735,MA0029.1;0.858105,MA0030.1;0.864739,MA0031.1;0.828781,MA0038.1;0.62758,MA0040.1;0.936879,MA0041.1;0.404721,MA0042.1;0.391504,MA0043.1;1.02178,MA0046.1;0.960497,MA0048.1;0.128106,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;0.0406078,MA0056.1;0,MA0057.1;0.117936,MA0058.1;0.384683,MA0059.1;0.397033,MA0060.1;0.232592,MA0061.1;0.261749,MA0063.1;0,MA0066.1;0.616444,MA0067.1;1.27078,MA0068.1;0.121435,MA0069.1;0.945354,MA0070.1;0.93557,MA0071.1;0.519509,MA0072.1;0.927016,MA0073.1;4.19963e-05,MA0074.1;0.580087,MA0076.1;0.356883,MA0077.1;0.905143,MA0078.1;0.670113,MA0081.1;0.420276,MA0083.1;1.02098,MA0084.1;1.59945,MA0087.1;0.977537,MA0088.1;1.49527,MA0089.1;0,MA0090.1;0.446539,MA0091.1;0.494398,MA0092.1;0.446857,MA0093.1;0.329976,MA0095.1;0,MA0098.1;0,MA0100.1;0.568369,MA0101.1;0.406019,MA0103.1;0.348572,MA0105.1;0.162418,MA0106.1;0.677988,MA0107.1;0.906859,MA0108.2;0.763162,MA0109.1;0,MA0111.1;0.460823,MA0113.1;0.649407,MA0114.1;1.32534,MA0115.1;1.0246,MA0116.1;0.311187,MA0117.1;0.992087,MA0119.1;0.40661,MA0122.1;1.01209,MA0124.1;1.21735,MA0125.1;1.14291,MA0130.1;0,MA0131.1;0.735438,MA0132.1;0,MA0133.1;0,MA0135.1;1.05845,MA0136.1;0.600242,MA0139.1;0.585936,MA0140.1;2.38485,MA0141.1;0.368264,MA0142.1;0.814115,MA0143.1;1.59922,MA0144.1;0.262477,MA0145.1;1.56174,MA0146.1;0.264322,MA0147.1;0.274511,MA0148.1;1.24416,MA0149.1;0.411562,MA0062.2;0.167299,MA0035.2;1.40435,MA0039.2;0.367001,MA0138.2;0.727395,MA0002.2;0.205289,MA0137.2;0.365364,MA0104.2;0.218974,MA0047.2;0.626803,MA0112.2;1.05549,MA0065.2;0.305574,MA0150.1;0.465855,MA0151.1;0,MA0152.1;0.626912,MA0153.1;1.07519,MA0154.1;1.29007,MA0155.1;0.336768,MA0156.1;0.356017,MA0157.1;0.781683,MA0158.1;0,MA0159.1;0.776527,MA0160.1;0.50056,MA0161.1;0,MA0162.1;0.878466,MA0163.1;3.82111,MA0164.1;0.600609,MA0080.2;1.62792,MA0018.2;0.610433,MA0099.2;0.721008,MA0079.2;2.82057,MA0102.2;1.65195,MA0258.1;0.246285,MA0259.1;0.26402,MA0442.1;0
}}

Latest revision as of 16:27, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:55050434..55050510,+p1@Mmp14
Mm9::chr14:55050533..55050544,+p2@Mmp14
Mm9::chr16:37777131..37777151,+p1@Fstl1
Mm9::chr16:37777154..37777165,+p3@Fstl1
Mm9::chr16:37777178..37777192,+p2@Fstl1
Mm9::chr16:37834557..37834607,+p@chr16:37834557..37834607
+
Mm9::chr16:37834640..37834657,+p@chr16:37834640..37834657
+


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:0031638zymogen activation0.0130524352190759
GO:0030574collagen catabolic process0.0130524352190759
GO:0044256protein digestion0.0130524352190759
GO:0044254multicellular organismal protein catabolic process0.0130524352190759
GO:0044266multicellular organismal macromolecule catabolic process0.0130524352190759
GO:0044259multicellular organismal macromolecule metabolic process0.0130524352190759
GO:0044243multicellular organismal catabolic process0.0130524352190759
GO:0044268multicellular organismal protein metabolic process0.0130524352190759
GO:0005509calcium ion binding0.0130524352190759
GO:0032963collagen metabolic process0.0130524352190759
GO:0044236multicellular organismal metabolic process0.0130524352190759
GO:0007586digestion0.0251744122614664
GO:0048754branching morphogenesis of a tube0.0276721088505452
GO:0008201heparin binding0.0276721088505452
GO:0001763morphogenesis of a branching structure0.0276721088505452
GO:0030324lung development0.0276721088505452
GO:0030323respiratory tube development0.0276721088505452
GO:0016485protein processing0.0276721088505452
GO:0005539glycosaminoglycan binding0.0293868873408014
GO:0030247polysaccharide binding0.0305312052801401
GO:0001871pattern binding0.0305312052801401
GO:0004222metalloendopeptidase activity0.0349291874710246
GO:0005615extracellular space0.0349291874710246
GO:0044421extracellular region part0.037605042039508
GO:0035239tube morphogenesis0.044577337318088



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>


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)
MA0003.10.79075
MA0004.10.481116
MA0006.10.311391
MA0007.10.465969
MA0009.10.92425
MA0014.12.85278
MA0017.10.337808
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.321735
MA0029.10.858105
MA0030.10.864739
MA0031.10.828781
MA0038.10.62758
MA0040.10.936879
MA0041.10.404721
MA0042.10.391504
MA0043.11.02178
MA0046.10.960497
MA0048.10.128106
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.0406078
MA0056.10
MA0057.10.117936
MA0058.10.384683
MA0059.10.397033
MA0060.10.232592
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.10.121435
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.14.19963e-05
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.11.49527
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.10.329976
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.10.406019
MA0103.10.348572
MA0105.10.162418
MA0106.10.677988
MA0107.10.906859
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.11.32534
MA0115.11.0246
MA0116.10.311187
MA0117.10.992087
MA0119.10.40661
MA0122.11.01209
MA0124.11.21735
MA0125.11.14291
MA0130.10
MA0131.10.735438
MA0132.10
MA0133.10
MA0135.11.05845
MA0136.10.600242
MA0139.10.585936
MA0140.12.38485
MA0141.10.368264
MA0142.10.814115
MA0143.11.59922
MA0144.10.262477
MA0145.11.56174
MA0146.10.264322
MA0147.10.274511
MA0148.11.24416
MA0149.10.411562
MA0062.20.167299
MA0035.21.40435
MA0039.20.367001
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.21.05549
MA0065.20.305574
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.11.29007
MA0155.10.336768
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.776527
MA0160.10.50056
MA0161.10
MA0162.10.878466
MA0163.13.82111
MA0164.10.600609
MA0080.21.62792
MA0018.20.610433
MA0099.20.721008
MA0079.22.82057
MA0102.21.65195
MA0258.10.246285
MA0259.10.26402
MA0442.10
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