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MCL coexpression mm9:517: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!2.85e-09!46;UBERON:0000485!1.82e-07!11
|tfbs_overrepresentation_for_novel_motifs=0.6379,0.462564,0.589984,0.25808,0.123731,0.743234,0.915684,0.0669598,0.251553,0.415336,0.308886,0.892635,0.237599,0.939225,0.419678,0,0.530547,0.118546,0.470307,0.24668,0.176628,0.837419,1.67324,0.388504,0.603782,0.992246,0.203385,0.782755,0.469653,0.338204,0.275529,0.624931,0.117091,0.397142,1.94781,0.155394,0.111136,0.332941,0.097604,0.276416,0.121091,0.279796,0.145909,0.136236,0.314995,1.28656,0.457618,0.300372,0.112678,0.92391,0.514446,0.404841,0.321327,0.759566,0.776306,0.952972,0.163199,0.868243,0.190698,0.36147,0.606104,1.06252,0.569343,0.504093,0.974413,0.541429,0.908031,1.25063,0.60172,1.10561,1.05857,0.0700673,1.23026,0.808562,0.407198,1.48145,1.08401,0.447339,1.44017,0.179738,0.0707051,0.546623,0.411949,0.0636668,0.69807,1.49166,0.156995,0.145915,0.462057,1.41118,0.975915,1.67583,0.636995,0.127646,1.59997,0.0848579,0.865338,0.639644,0.457849,0.529405,0.358446,0.624668,1.75886,0.514993,0.514023,0.76508,0.569344,0.296997,0.539826,1.01053,0.62491,0.744577,0.180573,1.5213,0.982794,0.381263,0.342134,0.26114,1.31704,0.108794,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,1.31219,0.726634,0.252176,0.877862,0.375176,1.0039,0.162091,0.231086,0.768569,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.124893,0.3445,0.763723,0.761071,0.618088,0.374365,0.839715,0.405736,0.440483,0.222538,1.21781,0.96517,0.697256,0.593895,0.620756,0.50503,0.367885,0.356446,0.33468,1.02606
|tfbs_overrepresentation_jaspar=MA0003.1;0.400158,MA0004.1;0.258473,MA0006.1;0.817804,MA0007.1;0.689082,MA0009.1;0.649874,MA0014.1;0.37055,MA0017.1;0.458117,MA0019.1;0.480432,MA0024.1;0.608636,MA0025.1;2.02771,MA0027.1;2.275,MA0028.1;1.97836,MA0029.1;0.588275,MA0030.1;0.594419,MA0031.1;0.561217,MA0038.1;0.992094,MA0040.1;0.661716,MA0041.1;0.577334,MA0042.1;0.189008,MA0043.1;0.74191,MA0046.1;0.683926,MA0048.1;0.0293065,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;0.669354,MA0055.1;0.00347439,MA0056.1;0,MA0057.1;0.261486,MA0058.1;0.183941,MA0059.1;0.563468,MA0060.1;4.03102,MA0061.1;0.0995825,MA0063.1;0,MA0066.1;0.371389,MA0067.1;0.981551,MA0068.1;0.0266408,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;0.0195439,MA0074.1;0.340281,MA0076.1;2.90061,MA0077.1;0.632005,MA0078.1;0.418168,MA0081.1;0.210747,MA0083.1;0.741151,MA0084.1;1.30392,MA0087.1;0.699999,MA0088.1;1.19948,MA0089.1;0,MA0090.1;0.653402,MA0091.1;0.269175,MA0092.1;0.231323,MA0093.1;0.444403,MA0095.1;0,MA0098.1;0,MA0100.1;0.879972,MA0101.1;0.57968,MA0103.1;0.157724,MA0105.1;0.170132,MA0106.1;0.425111,MA0107.1;0.46624,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.242308,MA0113.1;0.400008,MA0114.1;0.665298,MA0115.1;0.744589,MA0116.1;0.411741,MA0117.1;0.713754,MA0119.1;0.580747,MA0122.1;0.732707,MA0124.1;0.929684,MA0125.1;0.857794,MA0130.1;0,MA0131.1;0.476296,MA0132.1;0,MA0133.1;0,MA0135.1;0.77683,MA0136.1;0.357464,MA0139.1;0.231431,MA0140.1;0.330266,MA0141.1;0.171891,MA0142.1;0.547747,MA0143.1;0.414534,MA0144.1;0.100037,MA0145.1;2.13657,MA0146.1;0.662029,MA0147.1;0.709361,MA0148.1;0.271704,MA0149.1;0.204102,MA0062.2;3.21826,MA0035.2;0.33429,MA0039.2;0.753752,MA0138.2;0.469076,MA0002.2;0.235791,MA0137.2;0.169785,MA0104.2;0.547442,MA0047.2;0.380343,MA0112.2;1.6836,MA0065.2;0.190247,MA0150.1;0.246295,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.525346,MA0155.1;1.02012,MA0156.1;0.949678,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.738546,MA0160.1;0.274172,MA0161.1;0,MA0162.1;0.540226,MA0163.1;0.959967,MA0164.1;0.357779,MA0080.2;0.467794,MA0018.2;0.959515,MA0099.2;0.463355,MA0079.2;0.0324544,MA0102.2;1.35579,MA0258.1;0.301988,MA0259.1;0.678628,MA0442.1;0
}}

Latest revision as of 15:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:75905161..75905170,+p@chr10:75905161..75905170
+
Mm9::chr11:40506276..40506304,+p@chr11:40506276..40506304
+
Mm9::chr11:74645494..74645512,-p@chr11:74645494..74645512
-
Mm9::chr13:17897362..17897374,+p@chr13:17897362..17897374
+
Mm9::chr18:80666897..80666910,+p@chr18:80666897..80666910
+
Mm9::chr1:180336546..180336570,-p@chr1:180336546..180336570
-
Mm9::chr1:55084441..55084444,+p@chr1:55084441..55084444
+
Mm9::chr3:151873231..151873284,-p2@Dnajb4
Mm9::chr3:94819682..94819707,+p2@ENSMUST00000128160
Mm9::chr5:135485177..135485187,+p10@Abhd11
Mm9::chr7:19857297..19857302,+p@chr7:19857297..19857302
+
Mm9::chr8:47637081..47637096,-p@chr8:47637081..47637096
-
Mm9::chr8:87187820..87187854,-p@chr8:87187820..87187854
-
Mm9::chr9:61219994..61220018,-p1@Gm10655


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:0031072heat shock protein binding0.0380711781619535
GO:0051082unfolded protein binding0.0380711781619535
GO:0006725aromatic compound metabolic process0.0425816901190811
GO:0006457protein folding0.0425816901190811



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>

Uber Anatomy
Ontology termp-valuen
connective tissue2.85e-0946
simple columnar epithelium1.82e-0711


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)
MA0003.10.400158
MA0004.10.258473
MA0006.10.817804
MA0007.10.689082
MA0009.10.649874
MA0014.10.37055
MA0017.10.458117
MA0019.10.480432
MA0024.10.608636
MA0025.12.02771
MA0027.12.275
MA0028.11.97836
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.992094
MA0040.10.661716
MA0041.10.577334
MA0042.10.189008
MA0043.10.74191
MA0046.10.683926
MA0048.10.0293065
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.10.00347439
MA0056.10
MA0057.10.261486
MA0058.10.183941
MA0059.10.563468
MA0060.14.03102
MA0061.10.0995825
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.0266408
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.10.0195439
MA0074.10.340281
MA0076.12.90061
MA0077.10.632005
MA0078.10.418168
MA0081.10.210747
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.11.19948
MA0089.10
MA0090.10.653402
MA0091.10.269175
MA0092.10.231323
MA0093.10.444403
MA0095.10
MA0098.10
MA0100.10.879972
MA0101.10.57968
MA0103.10.157724
MA0105.10.170132
MA0106.10.425111
MA0107.10.46624
MA0108.20.50131
MA0109.10
MA0111.10.242308
MA0113.10.400008
MA0114.10.665298
MA0115.10.744589
MA0116.10.411741
MA0117.10.713754
MA0119.10.580747
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.357464
MA0139.10.231431
MA0140.10.330266
MA0141.10.171891
MA0142.10.547747
MA0143.10.414534
MA0144.10.100037
MA0145.12.13657
MA0146.10.662029
MA0147.10.709361
MA0148.10.271704
MA0149.10.204102
MA0062.23.21826
MA0035.20.33429
MA0039.20.753752
MA0138.20.469076
MA0002.20.235791
MA0137.20.169785
MA0104.20.547442
MA0047.20.380343
MA0112.21.6836
MA0065.20.190247
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.525346
MA0155.11.02012
MA0156.10.949678
MA0157.10.518122
MA0158.10
MA0159.10.738546
MA0160.10.274172
MA0161.10
MA0162.10.540226
MA0163.10.959967
MA0164.10.357779
MA0080.20.467794
MA0018.20.959515
MA0099.20.463355
MA0079.20.0324544
MA0102.21.35579
MA0258.10.301988
MA0259.10.678628
MA0442.10
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