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MCL coexpression mm9:533: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!4.25e-17!47;UBERON:0000160!4.44e-16!31;UBERON:0000344!2.65e-10!15;UBERON:0004119!1.53e-09!118;UBERON:0000925!1.53e-09!118;UBERON:0006595!1.53e-09!118;UBERON:0001242!4.83e-09!13;UBERON:0000060!4.83e-09!13;UBERON:0001262!4.83e-09!13;UBERON:0004786!4.83e-09!13;UBERON:0001007!7.13e-09!116;UBERON:0001555!7.13e-09!116;UBERON:0007026!7.13e-09!116;UBERON:0004923!1.50e-08!24;UBERON:0004921!4.72e-08!114
|tfbs_overrepresentation_for_novel_motifs=0.6379,0.462564,0.204219,0.25808,0.391122,0.269875,0.346405,0.875434,0.251553,1.25777,0.831817,0.336042,0.876414,0.357027,0.419678,0,0.530547,0.118546,1.72841,0.100162,0.176628,1.55869,0.937489,0.122718,0.210021,0.992246,0.203385,0.287195,0.915208,0.611262,0.275529,0.624931,0.752328,0.702925,3.35788,0.425764,1.19268,0.332941,0.097604,0.0808072,0.121091,0.76591,0.0536251,0.836602,1.56054,0.24907,1.15859,1.47501,0.0394476,0.474834,0.514446,0.404841,0.137142,0.759566,0.776306,0.952972,0.163199,0.325117,0.424359,0.36147,0.606104,0.413233,0.569343,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,1.66972,0.899779,0.88203,0.808562,0.407198,2.52588,0.17621,1.13643,0.590017,0.531085,0.247973,0.546623,0.411949,0.0636668,0.69807,1.16224,0.0697055,0.611818,0.462057,1.41118,0.975915,0.702809,0.636995,0.127646,0.0951738,0.287636,0.233568,0.639644,0.457849,0.286529,0.111186,0.624668,0.742871,1.28142,0.514023,0.279432,0.569344,0.804983,0.539826,0.526725,0.218949,0.744577,0.180573,1.5213,0.982794,0.381263,1.09124,0.723174,0.53175,0.352143,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.129636,0.726634,0.252176,0.877862,0.375176,1.0039,0.0607709,0.65343,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.394117,0.3445,0.500318,0.761071,0.29706,0.374365,0.839715,0.405736,0.143092,0.222538,1.21781,0.96517,1.6643,0.593895,0.21719,0.50503,0.367885,0.356446,0.33468,0.559027
|tfbs_overrepresentation_jaspar=MA0003.1;2.00246,MA0004.1;0.717031,MA0006.1;0.817804,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;3.59398,MA0017.1;0.150118,MA0019.1;0.480432,MA0024.1;1.47929,MA0025.1;0.873493,MA0027.1;2.275,MA0028.1;1.37032,MA0029.1;0.588275,MA0030.1;0.594419,MA0031.1;0.561217,MA0038.1;0.381016,MA0040.1;0.661716,MA0041.1;0.198922,MA0042.1;1.05492,MA0043.1;0.74191,MA0046.1;0.683926,MA0048.1;1.66446,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;0.669354,MA0055.1;0.14835,MA0056.1;0,MA0057.1;1.14497,MA0058.1;0.541281,MA0059.1;0.563468,MA0060.1;0.989444,MA0061.1;0.671982,MA0063.1;0,MA0066.1;1.72598,MA0067.1;0.981551,MA0068.1;3.75732,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;19.8817,MA0074.1;0.902074,MA0076.1;0.952244,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;0.0649199,MA0089.1;0,MA0090.1;0.231074,MA0091.1;0.269175,MA0092.1;0.231323,MA0093.1;0.444403,MA0095.1;0,MA0098.1;0,MA0100.1;0.330364,MA0101.1;1.09804,MA0103.1;0.477056,MA0105.1;0.385363,MA0106.1;1.08833,MA0107.1;0.153373,MA0108.2;1.25225,MA0109.1;0,MA0111.1;0.679612,MA0113.1;0.400008,MA0114.1;0.0981613,MA0115.1;0.744589,MA0116.1;1.32557,MA0117.1;0.713754,MA0119.1;1.0998,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;1.06535,MA0144.1;0.328866,MA0145.1;1.27611,MA0146.1;2.21874,MA0147.1;0.709361,MA0148.1;0.271704,MA0149.1;0.204102,MA0062.2;0.706083,MA0035.2;0.33429,MA0039.2;9.20349,MA0138.2;5.30378,MA0002.2;0.0664561,MA0137.2;0.169785,MA0104.2;0.547442,MA0047.2;0.380343,MA0112.2;1.6836,MA0065.2;0.0735294,MA0150.1;0.688872,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.525346,MA0155.1;0.423059,MA0156.1;0.163042,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.114033,MA0160.1;0.274172,MA0161.1;0,MA0162.1;1.34043,MA0163.1;12.4264,MA0164.1;0.357779,MA0080.2;0.467794,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;22.6684,MA0102.2;1.35579,MA0258.1;0.626814,MA0259.1;1.12445,MA0442.1;0
}}

Latest revision as of 15:28, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:72021039..72021122,+p1@Txndc17
Mm9::chr11:97660975..97661023,+p1@Lasp1
Mm9::chr13:55423352..55423414,+p1@LOC100046650
p1@Prelid1
Mm9::chr14:26661709..26661720,+p4@Gm2260
p4@Gm2274
p6@Anxa11
Mm9::chr14:26661724..26661735,+p3@Gm2260
p3@Gm2274
p5@Anxa11
Mm9::chr2:143741277..143741304,+p1@Dstn
Mm9::chr3:108926022..108926085,+p1@Slc25a24
Mm9::chr3:108926094..108926114,+p2@Slc25a24
Mm9::chr3:51465089..51465111,+p1@Mgst2
Mm9::chr4:57969155..57969170,-p1@Txn1
Mm9::chr9:122203461..122203473,-p3@Ano10
Mm9::chr9:92145033..92145112,+p1@Plscr1
Mm9::chrX:19941767..19941792,+p2@Rp2h
Mm9::chrX:19941798..19941809,+p3@Rp2h


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:0045454cell redox homeostasis0.0416104037996739



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 system4.25e-1747
intestine4.44e-1631
mucosa2.65e-1015
endoderm-derived structure1.53e-09118
endoderm1.53e-09118
presumptive endoderm1.53e-09118
intestinal mucosa4.83e-0913
anatomical wall4.83e-0913
wall of intestine4.83e-0913
gastrointestinal system mucosa4.83e-0913
digestive system7.13e-09116
digestive tract7.13e-09116
primitive gut7.13e-09116
organ component layer1.50e-0824
subdivision of digestive tract4.72e-08114


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)
MA0003.12.00246
MA0004.10.717031
MA0006.10.817804
MA0007.10.246385
MA0009.10.649874
MA0014.13.59398
MA0017.10.150118
MA0019.10.480432
MA0024.11.47929
MA0025.10.873493
MA0027.12.275
MA0028.11.37032
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.198922
MA0042.11.05492
MA0043.10.74191
MA0046.10.683926
MA0048.11.66446
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.10.14835
MA0056.10
MA0057.11.14497
MA0058.10.541281
MA0059.10.563468
MA0060.10.989444
MA0061.10.671982
MA0063.10
MA0066.11.72598
MA0067.10.981551
MA0068.13.75732
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.119.8817
MA0074.10.902074
MA0076.10.952244
MA0077.10.632005
MA0078.10.418168
MA0081.10.210747
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.0649199
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.10.444403
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.11.09804
MA0103.10.477056
MA0105.10.385363
MA0106.11.08833
MA0107.10.153373
MA0108.21.25225
MA0109.10
MA0111.10.679612
MA0113.10.400008
MA0114.10.0981613
MA0115.10.744589
MA0116.11.32557
MA0117.10.713754
MA0119.11.0998
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
MA0143.11.06535
MA0144.10.328866
MA0145.11.27611
MA0146.12.21874
MA0147.10.709361
MA0148.10.271704
MA0149.10.204102
MA0062.20.706083
MA0035.20.33429
MA0039.29.20349
MA0138.25.30378
MA0002.20.0664561
MA0137.20.169785
MA0104.20.547442
MA0047.20.380343
MA0112.21.6836
MA0065.20.0735294
MA0150.10.688872
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.525346
MA0155.10.423059
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.114033
MA0160.10.274172
MA0161.10
MA0162.11.34043
MA0163.112.4264
MA0164.10.357779
MA0080.20.467794
MA0018.20.366212
MA0099.20.463355
MA0079.222.6684
MA0102.21.35579
MA0258.10.626814
MA0259.11.12445
MA0442.10
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