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MCL coexpression mm9:548: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!8.66e-11!31;UBERON:0000344!9.69e-09!15;UBERON:0001242!1.49e-07!13;UBERON:0000060!1.49e-07!13;UBERON:0001262!1.49e-07!13;UBERON:0004786!1.49e-07!13
|tfbs_overrepresentation_for_novel_motifs=0.684947,0.0867717,0.223558,0.279403,0.430128,0.291576,0.370193,0.566731,0.999815,2.25447,0.883008,0.35958,0.268656,0.381063,0.15081,0,0.557619,0.416118,0.244912,0.286444,0.194751,0.383765,0.990435,0.137915,0.64994,1.04599,0.0651848,0.309422,0.511682,0.683821,1.4643,0.653099,0.131928,0.779896,0.900171,0.0412484,1.86805,0.937845,0.358188,0.309817,0.42301,0.301802,0.347242,0.152251,1.09496,0.270091,1.2144,1.55597,0.0503358,0.517045,1.3373,0.429887,0.160439,0.788877,0.805733,0.387424,0.18067,0.348382,0.218496,1.00217,0.634076,1.1172,0.302747,0.5308,1.81556,1.39513,0.938213,1.28193,0.629645,1.13654,0.208654,0.277751,0.991331,0.838198,2.24015,0.427563,1.18951,0.473159,0.617814,0.575143,0.587166,0.573903,0.437131,0.548458,0.72691,5.09277,0.0888017,0.170021,0.488122,1.44275,1.0064,0.731688,0.665283,0.143149,0.108477,1.09934,0.0764965,0.667958,0.483845,0.597503,0.125632,0.652833,0.772062,0.541854,0.54087,1.47882,0.596902,0.319507,0.584153,1.08317,0.238877,0.773781,0.19888,0.336214,1.01331,0.134943,1.6023,0.282562,0.558838,0.123076,0.843435,0.511336,1.04956,0.472327,1.06644,0.621313,0.377415,0.658832,0.936732,0.875241,0.755703,0.273302,0.907893,0.399614,1.03449,0.0751544,0.251471,0.303003,0.986296,1.80931,1.41113,0.942814,0.418119,0.66306,0.53483,0.302189,0.486482,1.76978,0.253405,1.37815,0.173337,1.60376,0.790393,1.12484,1.03101,0.869538,0.430798,0.481451,0.242603,0.251242,0.995609,0.726089,0.621734,0.667363,0.531751,0.392164,0.12482,0.358185,0.907144
|tfbs_overrepresentation_jaspar=MA0003.1;3.42788,MA0004.1;0.765938,MA0006.1;1.42352,MA0007.1;1.35441,MA0009.1;0.678286,MA0014.1;0.889864,MA0017.1;0.166909,MA0019.1;1.26393,MA0024.1;0.636635,MA0025.1;0.9035,MA0027.1;2.3071,MA0028.1;3.59417,MA0029.1;0.616052,MA0030.1;0.622264,MA0031.1;0.588678,MA0038.1;0.405578,MA0040.1;0.690239,MA0041.1;0.218039,MA0042.1;0.207696,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;0.0835619,MA0056.1;0,MA0057.1;0.0312525,MA0058.1;0.585652,MA0059.1;0.608499,MA0060.1;2.8217,MA0061.1;0.363764,MA0063.1;0,MA0066.1;1.81001,MA0067.1;1.01206,MA0068.1;0.312793,MA0069.1;0.698271,MA0070.1;0.688999,MA0071.1;0.311956,MA0072.1;0.680902,MA0073.1;0.0915532,MA0074.1;0.363923,MA0076.1;3.8862,MA0077.1;0.660245,MA0078.1;0.443468,MA0081.1;0.230351,MA0083.1;0.77033,MA0084.1;1.33532,MA0087.1;0.728855,MA0088.1;0.394828,MA0089.1;0,MA0090.1;0.251458,MA0091.1;0.290854,MA0092.1;0.251716,MA0093.1;0.485518,MA0095.1;0,MA0098.1;0,MA0100.1;0.931999,MA0101.1;0.219061,MA0103.1;0.174916,MA0105.1;1.16392,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;0.359761,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;0.5556,MA0140.1;0.931776,MA0141.1;0.18979,MA0142.1;0.575041,MA0143.1;0.439766,MA0144.1;0.1137,MA0145.1;0.4279,MA0146.1;2.47852,MA0147.1;1.26251,MA0148.1;0.293462,MA0149.1;0.223436,MA0062.2;4.12963,MA0035.2;0.357786,MA0039.2;3.28548,MA0138.2;0.495254,MA0002.2;0.563955,MA0137.2;0.55008,MA0104.2;1.01662,MA0047.2;0.404891,MA0112.2;0.427883,MA0065.2;0.0897174,MA0150.1;0.267221,MA0151.1;0,MA0152.1;0.404987,MA0153.1;0.822355,MA0154.1;0.326723,MA0155.1;0.778998,MA0156.1;0.532949,MA0157.1;0.545026,MA0158.1;0,MA0159.1;0.403827,MA0160.1;0.296006,MA0161.1;0,MA0162.1;1.89013,MA0163.1;1.42454,MA0164.1;0.381832,MA0080.2;0.170995,MA0018.2;0.390455,MA0099.2;0.489441,MA0079.2;0.632031,MA0102.2;1.38728,MA0258.1;0.336791,MA0259.1;0.741714,MA0442.1;0
}}

Latest revision as of 15:29, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:119645795..119645837,+p2@Tmbim4
Mm9::chr10:80568678..80568749,+p1@Map2k2
Mm9::chr10:80730952..80731015,+p1@Apba3
Mm9::chr15:89259764..89259782,-p5@Chkb
Mm9::chr19:5875268..5875279,-p2@Frmd8
Mm9::chr2:25413381..25413443,+p1@Edf1
p1@Gm11964
Mm9::chr5:136220066..136220074,-p3@Tmem120a
Mm9::chr5:136220076..136220141,-p1@Tmem120a
Mm9::chr8:125736642..125736679,-p1@Chmp1a
Mm9::chr8:125736680..125736689,-p2@Chmp1a
Mm9::chr8:73895182..73895258,+p1@Ocel1
Mm9::chr9:107436331..107436355,+p2@Tmem115
Mm9::chr9:57408741..57408796,+p1@Scamp2


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

no results for this coexpression

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
embryonic cell7.56e-1370
somatic cell9.64e-12118
animal cell7.27e-11115
eukaryotic cell7.27e-11115
epithelial cell8.07e-1025
endodermal cell2.13e-0820

Uber Anatomy
Ontology termp-valuen
intestine8.66e-1131
mucosa9.69e-0915
intestinal mucosa1.49e-0713
anatomical wall1.49e-0713
wall of intestine1.49e-0713
gastrointestinal system mucosa1.49e-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)
MA0003.13.42788
MA0004.10.765938
MA0006.11.42352
MA0007.11.35441
MA0009.10.678286
MA0014.10.889864
MA0017.10.166909
MA0019.11.26393
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.13.59417
MA0029.10.616052
MA0030.10.622264
MA0031.10.588678
MA0038.10.405578
MA0040.10.690239
MA0041.10.218039
MA0042.10.207696
MA0043.10.771094
MA0046.10.712646
MA0048.10.602366
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.10.0835619
MA0056.10
MA0057.10.0312525
MA0058.10.585652
MA0059.10.608499
MA0060.12.8217
MA0061.10.363764
MA0063.10
MA0066.11.81001
MA0067.11.01206
MA0068.10.312793
MA0069.10.698271
MA0070.10.688999
MA0071.10.311956
MA0072.10.680902
MA0073.10.0915532
MA0074.10.363923
MA0076.13.8862
MA0077.10.660245
MA0078.10.443468
MA0081.10.230351
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.10.394828
MA0089.10
MA0090.10.251458
MA0091.10.290854
MA0092.10.251716
MA0093.10.485518
MA0095.10
MA0098.10
MA0100.10.931999
MA0101.10.219061
MA0103.10.174916
MA0105.11.16392
MA0106.10.450539
MA0107.10.170338
MA0108.20.527977
MA0109.10
MA0111.10.727672
MA0113.10.424958
MA0114.10.359761
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
MA0139.10.5556
MA0140.10.931776
MA0141.10.18979
MA0142.10.575041
MA0143.10.439766
MA0144.10.1137
MA0145.10.4279
MA0146.12.47852
MA0147.11.26251
MA0148.10.293462
MA0149.10.223436
MA0062.24.12963
MA0035.20.357786
MA0039.23.28548
MA0138.20.495254
MA0002.20.563955
MA0137.20.55008
MA0104.21.01662
MA0047.20.404891
MA0112.20.427883
MA0065.20.0897174
MA0150.10.267221
MA0151.10
MA0152.10.404987
MA0153.10.822355
MA0154.10.326723
MA0155.10.778998
MA0156.10.532949
MA0157.10.545026
MA0158.10
MA0159.10.403827
MA0160.10.296006
MA0161.10
MA0162.11.89013
MA0163.11.42454
MA0164.10.381832
MA0080.20.170995
MA0018.20.390455
MA0099.20.489441
MA0079.20.632031
MA0102.21.38728
MA0258.10.336791
MA0259.10.741714
MA0442.10
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