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MCL coexpression mm9:563: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!6.46e-21!47;UBERON:0000160!1.40e-16!31
|tfbs_overrepresentation_for_novel_motifs=0.244604,0.341626,0.223558,0.279403,0.138992,0.291576,0.370193,0.959416,0.59395,0.138274,0.331725,0.944872,0.567414,0.381063,0.459846,0,0.557619,0.824658,0.244912,0.529269,0.194751,0.634211,0.38026,1.36389,0.229596,0.405649,0.232118,0.309422,0.511682,0.169823,0.297405,0.653099,0.131928,0.779896,0.151158,0.332588,0.125578,0.356403,0.111088,0.0929685,0.42301,0.301802,0.347242,0.152251,0.0153958,0.270091,0.48361,0.322976,0.484795,0.994443,0.541299,0.429887,0.160439,0.788877,0.805733,0.387424,1.02153,0.920073,0.0605105,0.385607,0.634076,0.438439,0.628157,0.5308,0.397364,0.568642,0.938213,1.28193,1.52333,1.13654,0.208654,0.0812872,0.0186364,0.838198,0.0571922,0.192403,0.202885,0.473159,0.617814,0.198007,0.279684,0.573903,0.437131,0.258127,0.72691,0.0240533,0.0297453,0.170021,0.488122,1.44275,1.0064,0.731688,0.665283,0.440626,0.108477,0.321665,0.264364,0.667958,0.483845,0.141268,0.396021,0.652833,0.772062,0.541854,0.54087,0.301427,0.596902,0.855679,0.201775,0.196131,0.238877,0.773781,0.19888,0.336214,1.01331,0.83101,0.00714903,0.282562,0.558838,0.123076,0.843435,0.511336,0.407285,2.069,1.06644,0.621313,0.377415,0.658832,0.936732,0.145259,0.755703,0.273302,0.907893,0.399614,1.03449,0.193774,0.251471,3.13637,0.986296,1.80931,1.41113,0.942814,0.418119,0.66306,0.53483,0.302189,1.22055,1.76978,0.253405,0.140226,0.391484,0.0139939,0.790393,0.331601,1.03101,0.869538,0.430798,0.481451,0.242603,0.251242,0.995609,0.726089,0.621734,0.237049,0.531751,0.392164,0.12482,0.358185,0.085942
|tfbs_overrepresentation_jaspar=MA0003.1;0.00492315,MA0004.1;0.279808,MA0006.1;0.14766,MA0007.1;0.267314,MA0009.1;0.678286,MA0014.1;0.00137258,MA0017.1;0.166909,MA0019.1;0.506787,MA0024.1;0.636635,MA0025.1;0.9035,MA0027.1;2.3071,MA0028.1;0.155127,MA0029.1;0.616052,MA0030.1;0.622264,MA0031.1;2.45115,MA0038.1;0.405578,MA0040.1;0.690239,MA0041.1;0.218039,MA0042.1;0.598261,MA0043.1;0.771094,MA0046.1;0.712646,MA0048.1;0.602366,MA0050.1;0.312673,MA0051.1;0.413609,MA0052.1;0.697946,MA0055.1;0.00491474,MA0056.1;0,MA0057.1;0.127633,MA0058.1;0.202403,MA0059.1;0.212009,MA0060.1;1.59086,MA0061.1;0.363764,MA0063.1;0,MA0066.1;0.395746,MA0067.1;1.01206,MA0068.1;0.0328198,MA0069.1;0.698271,MA0070.1;0.688999,MA0071.1;1.51664,MA0072.1;0.680902,MA0073.1;2.51754e-06,MA0074.1;2.56184,MA0076.1;0.181159,MA0077.1;0.660245,MA0078.1;0.443468,MA0081.1;0.651709,MA0083.1;0.77033,MA0084.1;1.33532,MA0087.1;0.728855,MA0088.1;0.204026,MA0089.1;0,MA0090.1;2.00218,MA0091.1;0.290854,MA0092.1;0.251716,MA0093.1;0.161141,MA0095.1;0,MA0098.1;0,MA0100.1;0.353762,MA0101.1;0.219061,MA0103.1;0.174916,MA0105.1;0.0530438,MA0106.1;0.450539,MA0107.1;0.170338,MA0108.2;0.527977,MA0109.1;0,MA0111.1;0.727672,MA0113.1;0.424958,MA0114.1;0.111687,MA0115.1;0.773793,MA0116.1;0.147513,MA0117.1;0.742722,MA0119.1;0.219527,MA0122.1;0.761823,MA0124.1;0.959967,MA0125.1;0.887718,MA0130.1;0,MA0131.1;0.502588,MA0132.1;0,MA0133.1;0,MA0135.1;0.806261,MA0136.1;0.38151,MA0139.1;0.0756871,MA0140.1;1.66422,MA0141.1;0.18979,MA0142.1;0.575041,MA0143.1;0.439766,MA0144.1;0.1137,MA0145.1;0.4279,MA0146.1;0.213574,MA0147.1;0.121834,MA0148.1;0.293462,MA0149.1;0.223436,MA0062.2;0.0556611,MA0035.2;2.53243,MA0039.2;0.00534808,MA0138.2;0.495254,MA0002.2;0.563955,MA0137.2;0.187581,MA0104.2;0.0856657,MA0047.2;0.404891,MA0112.2;0.0201854,MA0065.2;0.0203041,MA0150.1;0.267221,MA0151.1;0,MA0152.1;0.404987,MA0153.1;0.822355,MA0154.1;0.0349712,MA0155.1;0.105935,MA0156.1;0.532949,MA0157.1;2.3091,MA0158.1;0,MA0159.1;0.128669,MA0160.1;0.296006,MA0161.1;0,MA0162.1;0.00307515,MA0163.1;0.0518456,MA0164.1;0.381832,MA0080.2;0.509758,MA0018.2;0.390455,MA0099.2;0.489441,MA0079.2;6.32766e-07,MA0102.2;1.38728,MA0258.1;0.336791,MA0259.1;0.114734,MA0442.1;0
}}

Latest revision as of 15:31, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:58193138..58193178,+p@chr11:58193138..58193178
+
Mm9::chr11:67584617..67584636,-p1@Glp2r
Mm9::chr12:109918660..109918664,-p@chr12:109918660..109918664
-
Mm9::chr12:13419575..13419591,+p@chr12:13419575..13419591
+
Mm9::chr14:69200097..69200110,-p3@Adamdec1
Mm9::chr14:69200135..69200149,-p1@Adamdec1
Mm9::chr14:69200154..69200178,-p2@Adamdec1
Mm9::chr14:69200229..69200240,-p4@Adamdec1
Mm9::chr17:25506212..25506225,+p1@Tpsg1
Mm9::chr17:25506273..25506282,+p3@Tpsg1
Mm9::chr17:31579859..31579873,+p4@Pde9a
Mm9::chr5:99365674..99365677,-p@chr5:99365674..99365677
-
Mm9::chr5:99450614..99450617,-p@chr5:99450614..99450617
-


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:0004967glucagon receptor activity0.020159412520626
GO:00475553',5'-cyclic-GMP phosphodiesterase activity0.0352644772779151
GO:0004175endopeptidase activity0.0363121210749945
GO:0001633secretin-like receptor activity0.0363121210749945
GO:0016787hydrolase activity0.0363121210749945
GO:00041143',5'-cyclic-nucleotide phosphodiesterase activity0.0363121210749945
GO:0004112cyclic-nucleotide phosphodiesterase activity0.0363121210749945
GO:0006508proteolysis0.0363121210749945
GO:0008233peptidase activity0.0384766220589543



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
gastrointestinal system6.46e-2147
intestine1.40e-1631


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)
MA0003.10.00492315
MA0004.10.279808
MA0006.10.14766
MA0007.10.267314
MA0009.10.678286
MA0014.10.00137258
MA0017.10.166909
MA0019.10.506787
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.10.155127
MA0029.10.616052
MA0030.10.622264
MA0031.12.45115
MA0038.10.405578
MA0040.10.690239
MA0041.10.218039
MA0042.10.598261
MA0043.10.771094
MA0046.10.712646
MA0048.10.602366
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.10.00491474
MA0056.10
MA0057.10.127633
MA0058.10.202403
MA0059.10.212009
MA0060.11.59086
MA0061.10.363764
MA0063.10
MA0066.10.395746
MA0067.11.01206
MA0068.10.0328198
MA0069.10.698271
MA0070.10.688999
MA0071.11.51664
MA0072.10.680902
MA0073.12.51754e-06
MA0074.12.56184
MA0076.10.181159
MA0077.10.660245
MA0078.10.443468
MA0081.10.651709
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.10.204026
MA0089.10
MA0090.12.00218
MA0091.10.290854
MA0092.10.251716
MA0093.10.161141
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.219061
MA0103.10.174916
MA0105.10.0530438
MA0106.10.450539
MA0107.10.170338
MA0108.20.527977
MA0109.10
MA0111.10.727672
MA0113.10.424958
MA0114.10.111687
MA0115.10.773793
MA0116.10.147513
MA0117.10.742722
MA0119.10.219527
MA0122.10.761823
MA0124.10.959967
MA0125.10.887718
MA0130.10
MA0131.10.502588
MA0132.10
MA0133.10
MA0135.10.806261
MA0136.10.38151
MA0139.10.0756871
MA0140.11.66422
MA0141.10.18979
MA0142.10.575041
MA0143.10.439766
MA0144.10.1137
MA0145.10.4279
MA0146.10.213574
MA0147.10.121834
MA0148.10.293462
MA0149.10.223436
MA0062.20.0556611
MA0035.22.53243
MA0039.20.00534808
MA0138.20.495254
MA0002.20.563955
MA0137.20.187581
MA0104.20.0856657
MA0047.20.404891
MA0112.20.0201854
MA0065.20.0203041
MA0150.10.267221
MA0151.10
MA0152.10.404987
MA0153.10.822355
MA0154.10.0349712
MA0155.10.105935
MA0156.10.532949
MA0157.12.3091
MA0158.10
MA0159.10.128669
MA0160.10.296006
MA0161.10
MA0162.10.00307515
MA0163.10.0518456
MA0164.10.381832
MA0080.20.509758
MA0018.20.390455
MA0099.20.489441
MA0079.26.32766e-07
MA0102.21.38728
MA0258.10.336791
MA0259.10.114734
MA0442.10
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