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MCL coexpression mm9:534: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!2.13e-46!22;UBERON:0007499!2.13e-46!22;UBERON:0006925!2.13e-46!22;UBERON:0009497!2.13e-46!22;UBERON:0000015!2.13e-46!22;UBERON:0002423!2.13e-46!22;UBERON:0006235!2.13e-46!22;UBERON:0008835!2.13e-46!22;UBERON:0003894!2.13e-46!22;UBERON:0004161!2.13e-46!22;UBERON:0008836!2.13e-46!22;UBERON:0009854!2.72e-44!23;UBERON:0009856!2.72e-44!23;UBERON:0002365!1.40e-40!25;UBERON:0002330!1.40e-40!25;UBERON:0005256!1.30e-24!45;UBERON:0005172!2.06e-22!49;UBERON:0005173!2.06e-22!49;UBERON:0002417!2.06e-22!49;UBERON:0000916!2.06e-22!49;UBERON:0003914!1.45e-20!47;UBERON:0002368!7.16e-18!60;UBERON:0003104!1.54e-17!61;UBERON:0009142!1.54e-17!61;UBERON:0003929!3.05e-17!55;UBERON:0002530!2.59e-16!65;UBERON:0009569!4.98e-16!66;UBERON:0000949!1.72e-14!72;UBERON:0000490!5.54e-14!66;UBERON:0005911!2.84e-13!69;UBERON:0005177!5.44e-13!79;UBERON:0000466!2.71e-11!79;UBERON:0001041!4.01e-11!80;UBERON:0002100!4.24e-11!90;UBERON:0004921!3.20e-08!114;UBERON:0001007!4.91e-08!116;UBERON:0001555!4.91e-08!116;UBERON:0007026!4.91e-08!116;UBERON:0004119!7.44e-08!118;UBERON:0000925!7.44e-08!118;UBERON:0006595!7.44e-08!118;UBERON:0000025!4.43e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.462564,0.204219,0.716126,0.781942,0.743234,0.915684,0.237242,0.0719629,0.00750165,0.308886,0.336042,0.511203,0.357027,0.830717,0,0.530547,0.758854,0.215337,0.100162,0.176628,0.554623,0.356242,0.122718,1.13761,0.381085,0.448115,0.287195,0.154744,0.145734,0.275529,0.624931,0.117091,0.0464745,0.135203,0.0766511,0.111136,0.332941,0.322338,0.0808072,0.384293,0.279796,0.769605,0.836602,0.0932122,0.24907,0.457618,0.300372,0.929173,0.474834,0.514446,0.404841,0.137142,0.759566,0.776306,0.363247,0.950326,0.325117,0.424359,0.36147,0.606104,0.413233,0.569343,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,0.189925,0.0700673,0.0681764,0.808562,0.0481979,0.674012,0.396955,0.447339,0.590017,0.531085,0.0707051,0.546623,0.411949,0.0636668,0.69807,0.00290338,0.0697055,0.0368325,0.462057,1.41118,0.975915,0.702809,0.636995,1.29962,0.0951738,0.0848579,0.503836,0.639644,0.457849,0.0288834,0.358446,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.296997,0.183341,0.177945,0.218949,0.744577,0.533113,0.313258,0.982794,0.381263,0.0290103,0.723174,0.53175,1.17709,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.129636,0.726634,0.252176,0.877862,0.375176,1.0039,0.012643,0.231086,0.768569,0.955897,1.77738,1.3796,0.91261,1.01903,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.124893,0.0377782,0.0106906,0.761071,0.0882878,0.374365,0.839715,0.405736,0.440483,0.633366,0.230865,0.96517,0.697256,0.593895,0.21719,0.50503,0.367885,0.356446,0.33468,0.0649099
}}

Latest revision as of 15:28, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:75272939..75272964,+p@chr11:75272939..75272964
+
Mm9::chr12:16590801..16590805,-p@chr12:16590801..16590805
-
Mm9::chr1:67175496..67175507,+p@chr1:67175496..67175507
+
Mm9::chr1:67181411..67181413,+p@chr1:67181411..67181413
+
Mm9::chr1:67183316..67183344,+p@chr1:67183316..67183344
+
Mm9::chr1:67199041..67199051,+p@chr1:67199041..67199051
+
Mm9::chr1:67275984..67276002,+p@chr1:67275984..67276002
+
Mm9::chr2:58622389..58622405,+p@chr2:58622389..58622405
+
Mm9::chr2:58622410..58622437,+p@chr2:58622410..58622437
+
Mm9::chr6:97212547..97212563,+p@chr6:97212547..97212563
+
Mm9::chr8:112519984..112520017,+p@chr8:112519984..112520017
+
Mm9::chr8:112522671..112522686,+p@chr8:112522671..112522686
+
Mm9::chr8:112522849..112522858,+p@chr8:112522849..112522858
+
Mm9::chr8:41972453..41972458,-p@chr8:41972453..41972458
-


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
metabolising cell4.15e-165
endopolyploid cell4.15e-165
parenchymal cell4.15e-165
polyploid cell4.15e-165
hepatocyte4.15e-165

Uber Anatomy
Ontology termp-valuen
liver2.13e-4622
epithelial sac2.13e-4622
digestive gland2.13e-4622
epithelium of foregut-midgut junction2.13e-4622
anatomical boundary2.13e-4622
hepatobiliary system2.13e-4622
foregut-midgut junction2.13e-4622
hepatic diverticulum2.13e-4622
liver primordium2.13e-4622
septum transversum2.13e-4622
liver bud2.13e-4622
digestive tract diverticulum2.72e-4423
sac2.72e-4423
exocrine gland1.40e-4025
exocrine system1.40e-4025
trunk mesenchyme1.30e-2445
abdomen element2.06e-2249
abdominal segment element2.06e-2249
abdominal segment of trunk2.06e-2249
abdomen2.06e-2249
epithelial tube1.45e-2047
endocrine gland7.16e-1860
mesenchyme1.54e-1761
entire embryonic mesenchyme1.54e-1761
gut epithelium3.05e-1755
gland2.59e-1665
subdivision of trunk4.98e-1666
endocrine system1.72e-1472
unilaminar epithelium5.54e-1466
endo-epithelium2.84e-1369
trunk region element5.44e-1379
immaterial anatomical entity2.71e-1179
foregut4.01e-1180
trunk4.24e-1190
subdivision of digestive tract3.20e-08114
digestive system4.91e-08116
digestive tract4.91e-08116
primitive gut4.91e-08116
endoderm-derived structure7.44e-08118
endoderm7.44e-08118
presumptive endoderm7.44e-08118
tube4.43e-07114


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)
MA0003.15.9896e-05
MA0004.10.258473
MA0006.10.1319
MA0007.10.246385
MA0009.10.649874
MA0014.10.00088087
MA0017.10.150118
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.138956
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.198922
MA0042.10.189008
MA0043.10.74191
MA0046.10.683926
MA0048.10.0293065
MA0050.11.43876
MA0051.10.388883
MA0052.10.669354
MA0055.10.0206669
MA0056.10
MA0057.10.0252827
MA0058.10.183941
MA0059.10.19314
MA0060.10.0819399
MA0061.10.0995825
MA0063.10
MA0066.11.72598
MA0067.10.981551
MA0068.10.112041
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.17.91335e-08
MA0074.10.340281
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.210747
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.0136969
MA0089.10
MA0090.10.653402
MA0091.10.269175
MA0092.10.231323
MA0093.10.144649
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.57968
MA0103.10.157724
MA0105.10.0444807
MA0106.10.425111
MA0107.10.153373
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.10.400008
MA0114.10.0981613
MA0115.10.744589
MA0116.10.131762
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.357464
MA0139.10.0649474
MA0140.10.330266
MA0141.10.511953
MA0142.11.35096
MA0143.10.414534
MA0144.10.100037
MA0145.10.0731548
MA0146.10.00972339
MA0147.10.107632
MA0148.10.271704
MA0149.10.204102
MA0062.20.046824
MA0035.20.888731
MA0039.21.17257e-05
MA0138.20.469076
MA0002.20.5079
MA0137.20.169785
MA0104.20.0740839
MA0047.20.380343
MA0112.20.189423
MA0065.20.190247
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.525346
MA0155.10.0879017
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.114033
MA0160.10.274172
MA0161.10
MA0162.10.00209837
MA0163.10.00169705
MA0164.10.940888
MA0080.20.467794
MA0018.20.366212
MA0099.20.463355
MA0079.23.37562e-09
MA0102.21.35579
MA0258.10.626814
MA0259.10.101001
MA0442.10
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