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MCL coexpression mm9:444: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000014!1.37e-12!5;UBERON:0001003!1.37e-12!5;UBERON:0002097!1.37e-12!5;UBERON:0002199!1.37e-12!5;UBERON:0007029!1.37e-12!5;UBERON:0007376!1.37e-12!5;UBERON:0002416!1.37e-12!5;UBERON:0007383!1.37e-12!5
|ontology_enrichment_uberon=UBERON:0000014!1.37e-12!5;UBERON:0001003!1.37e-12!5;UBERON:0002097!1.37e-12!5;UBERON:0002199!1.37e-12!5;UBERON:0007029!1.37e-12!5;UBERON:0007376!1.37e-12!5;UBERON:0002416!1.37e-12!5;UBERON:0007383!1.37e-12!5
|tfbs_overrepresentation_for_novel_motifs=0.175413,0.162984,0.157426,1.1206,0.617852,0.216369,0.286882,2.51694,0.0467632,0.260666,0.252112,0.760086,0.0430464,0.296787,0.322172,0,1.16679,1.00414,0.341555,0.316699,0.133242,0.585659,0.296055,0.613765,0.16256,0.319311,0.13779,0.232181,0.114379,0.439213,0.22152,0.552579,0.0827485,0.279585,0.0978183,0.0757799,0.0778621,0.274364,0.874944,0.0536011,0.290922,0.225414,0.528785,1.10854,0.0430977,0.197508,0.391673,0.244272,0.64057,0.116163,0.445973,0.341665,0.217128,0.683824,1.67046,0.302599,0.385691,0.26711,0.127634,0.300938,0.534331,0.349585,0.427506,0.43605,0.311703,0.471894,0.829699,1.16897,0.530087,1.02503,0.144846,0.17272,0.106553,0.731855,0.288013,0.0256364,0.518029,0.381898,0.518764,0.135947,0.393181,0.476893,0.348372,0.361155,0.623727,0.000989898,1.16643,0.439688,0.395899,1.32869,0.896685,0.62835,0.564287,1.05833,0.231442,0.455703,0.370414,0.56686,1.79677,0.0158068,0.566793,0.552324,0.667487,0.446498,1.1326,0.225081,0.498793,0.676966,0.43037,0.418437,0.980265,0.669156,0.424252,0.256145,0.903482,0.288262,0.105429,0.600007,1.16928,0.262826,0.736964,0.4177,0.858612,0.992328,0.955823,0.522111,0.293459,0.558086,0.828246,1.07003,0.651613,0.580662,0.799981,0.313768,0.92434,0.204108,1.0242,0.64263,0.876916,1.69384,1.29725,0.834212,1.58373,0.562149,0.439856,0.225756,1.02134,1.65442,0.539014,0.0892035,0.447655,0.0270799,0.685297,0.0594762,0.313008,0.762455,0.907028,0.340691,0.173692,0.181136,0.886073,0.622933,1.29742,0.168927,0.436947,0.306938,0.0772819,0.757197,0.00916555
|tfbs_overrepresentation_for_novel_motifs=0.175413,0.162984,0.157426,1.1206,0.617852,0.216369,0.286882,2.51694,0.0467632,0.260666,0.252112,0.760086,0.0430464,0.296787,0.322172,0,1.16679,1.00414,0.341555,0.316699,0.133242,0.585659,0.296055,0.613765,0.16256,0.319311,0.13779,0.232181,0.114379,0.439213,0.22152,0.552579,0.0827485,0.279585,0.0978183,0.0757799,0.0778621,0.274364,0.874944,0.0536011,0.290922,0.225414,0.528785,1.10854,0.0430977,0.197508,0.391673,0.244272,0.64057,0.116163,0.445973,0.341665,0.217128,0.683824,1.67046,0.302599,0.385691,0.26711,0.127634,0.300938,0.534331,0.349585,0.427506,0.43605,0.311703,0.471894,0.829699,1.16897,0.530087,1.02503,0.144846,0.17272,0.106553,0.731855,0.288013,0.0256364,0.518029,0.381898,0.518764,0.135947,0.393181,0.476893,0.348372,0.361155,0.623727,0.000989898,1.16643,0.439688,0.395899,1.32869,0.896685,0.62835,0.564287,1.05833,0.231442,0.455703,0.370414,0.56686,1.79677,0.0158068,0.566793,0.552324,0.667487,0.446498,1.1326,0.225081,0.498793,0.676966,0.43037,0.418437,0.980265,0.669156,0.424252,0.256145,0.903482,0.288262,0.105429,0.600007,1.16928,0.262826,0.736964,0.4177,0.858612,0.992328,0.955823,0.522111,0.293459,0.558086,0.828246,1.07003,0.651613,0.580662,0.799981,0.313768,0.92434,0.204108,1.0242,0.64263,0.876916,1.69384,1.29725,0.834212,1.58373,0.562149,0.439856,0.225756,1.02134,1.65442,0.539014,0.0892035,0.447655,0.0270799,0.685297,0.0594762,0.313008,0.762455,0.907028,0.340691,0.173692,0.181136,0.886073,0.622933,1.29742,0.168927,0.436947,0.306938,0.0772819,0.757197,0.00916555
|tfbs_overrepresentation_jaspar=MA0003.1;0.00760118,MA0004.1;0.594255,MA0006.1;0.0950487,MA0007.1;1.69862,MA0009.1;2.41263,MA0014.1;0.00199206,MA0017.1;0.722188,MA0019.1;0.413421,MA0024.1;0.536784,MA0025.1;0.795679,MA0027.1;2.19092,MA0028.1;0.331378,MA0029.1;0.51708,MA0030.1;0.523021,MA0031.1;0.490954,MA0038.1;0.319246,MA0040.1;0.588314,MA0041.1;0.464691,MA0042.1;0.870067,MA0043.1;0.666547,MA0046.1;0.609938,MA0048.1;0.92498,MA0050.1;0.235075,MA0051.1;0.326637,MA0052.1;1.45222,MA0055.1;0.273388,MA0056.1;0,MA0057.1;0.336486,MA0058.1;0.431697,MA0059.1;0.451977,MA0060.1;0.0544856,MA0061.1;0.0684878,MA0063.1;0,MA0066.1;0.310219,MA0067.1;0.902253,MA0068.1;0.876728,MA0069.1;0.59606,MA0070.1;0.587119,MA0071.1;0.234437,MA0072.1;0.579318,MA0073.1;0.491716,MA0074.1;0.281183,MA0076.1;0.122031,MA0077.1;0.559443,MA0078.1;0.354249,MA0081.1;0.490611,MA0083.1;1.59885,MA0084.1;1.22195,MA0087.1;0.625609,MA0088.1;0.216372,MA0089.1;0,MA0090.1;1.02415,MA0091.1;0.215731,MA0092.1;2.30765,MA0093.1;0.700866,MA0095.1;0,MA0098.1;0,MA0100.1;0.271974,MA0101.1;0.910487,MA0103.1;0.373479,MA0105.1;0.111401,MA0106.1;0.360817,MA0107.1;0.363753,MA0108.2;0.433384,MA0109.1;0,MA0111.1;0.191411,MA0113.1;0.337108,MA0114.1;0.238352,MA0115.1;0.669167,MA0116.1;0.315135,MA0117.1;0.639033,MA0119.1;0.154009,MA0122.1;0.657549,MA0124.1;0.851049,MA0125.1;0.780232,MA0130.1;0,MA0131.1;0.409473,MA0132.1;0,MA0133.1;0,MA0135.1;0.700734,MA0136.1;0.297196,MA0139.1;0.160584,MA0140.1;0.271883,MA0141.1;0.405018,MA0142.1;0.477975,MA0143.1;0.350815,MA0144.1;0.0688535,MA0145.1;0.114551,MA0146.1;0.160232,MA0147.1;0.260161,MA0148.1;0.622748,MA0149.1;0.157322,MA0062.2;0.117092,MA0035.2;0.275617,MA0039.2;0.395647,MA0138.2;0.402586,MA0002.2;0.37393,MA0137.2;0.127311,MA0104.2;0.1822,MA0047.2;0.853678,MA0112.2;0.0402239,MA0065.2;0.422333,MA0150.1;0.567944,MA0151.1;0,MA0152.1;1.54075,MA0153.1;0.716409,MA0154.1;0.0721234,MA0155.1;0.742144,MA0156.1;0.121496,MA0157.1;1.14109,MA0158.1;0,MA0159.1;0.0802352,MA0160.1;1.1773,MA0161.1;0,MA0162.1;0.00501935,MA0163.1;0.044142,MA0164.1;0.297489,MA0080.2;0.113741,MA0018.2;0.8239,MA0099.2;0.397135,MA0079.2;0.711518,MA0102.2;1.27355,MA0258.1;0.219649,MA0259.1;0.0696308,MA0442.1;0
}}
}}

Revision as of 11:45, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:110841223..110841234,+p@chr12:110841223..110841234
+
Mm9::chr13:113352237..113352245,-p@chr13:113352237..113352245
-
Mm9::chr13:31876981..31876989,+p@chr13:31876981..31876989
+
Mm9::chr13:31877002..31877014,+p@chr13:31877002..31877014
+
Mm9::chr13:31895718..31895722,+p@chr13:31895718..31895722
+
Mm9::chr16:26371741..26371767,-p4@Cldn1
Mm9::chr17:31866495..31866498,-p@chr17:31866495..31866498
-
Mm9::chr19:46775834..46775873,-p@chr19:46775834..46775873
-
Mm9::chr19:47021132..47021151,-p@chr19:47021132..47021151
-
Mm9::chr19:56948893..56948964,+p1@Vwa2
Mm9::chr1:176966501..176966506,+p@chr1:176966501..176966506
+
Mm9::chr2:74957367..74957378,-p@chr2:74957367..74957378
-
Mm9::chr3:138005248..138005264,+p@chr3:138005248..138005264
+
Mm9::chr3:92672917..92672929,-p@chr3:92672917..92672929
-
Mm9::chr5:68031122..68031132,+p@chr5:68031122..68031132
+
Mm9::chr7:108312709..108312714,+p@chr7:108312709..108312714
+
Mm9::chr8:125070382..125070401,+p@chr8:125070382..125070401
+


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:0042802identical protein binding0.00185395478476911
GO:0016338calcium-independent cell-cell adhesion0.0069020293440726
GO:0005923tight junction0.0413168687193188
GO:0043296apical junction complex0.0413168687193188
GO:0016327apicolateral plasma membrane0.0413168687193188



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
zone of skin1.37e-125
skin epidermis1.37e-125
skin of body1.37e-125
integument1.37e-125
surface1.37e-125
outer epithelium1.37e-125
integumental system1.37e-125
enveloping layer of ectoderm1.37e-125


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)
MA0003.10.00760118
MA0004.10.594255
MA0006.10.0950487
MA0007.11.69862
MA0009.12.41263
MA0014.10.00199206
MA0017.10.722188
MA0019.10.413421
MA0024.10.536784
MA0025.10.795679
MA0027.12.19092
MA0028.10.331378
MA0029.10.51708
MA0030.10.523021
MA0031.10.490954
MA0038.10.319246
MA0040.10.588314
MA0041.10.464691
MA0042.10.870067
MA0043.10.666547
MA0046.10.609938
MA0048.10.92498
MA0050.10.235075
MA0051.10.326637
MA0052.11.45222
MA0055.10.273388
MA0056.10
MA0057.10.336486
MA0058.10.431697
MA0059.10.451977
MA0060.10.0544856
MA0061.10.0684878
MA0063.10
MA0066.10.310219
MA0067.10.902253
MA0068.10.876728
MA0069.10.59606
MA0070.10.587119
MA0071.10.234437
MA0072.10.579318
MA0073.10.491716
MA0074.10.281183
MA0076.10.122031
MA0077.10.559443
MA0078.10.354249
MA0081.10.490611
MA0083.11.59885
MA0084.11.22195
MA0087.10.625609
MA0088.10.216372
MA0089.10
MA0090.11.02415
MA0091.10.215731
MA0092.12.30765
MA0093.10.700866
MA0095.10
MA0098.10
MA0100.10.271974
MA0101.10.910487
MA0103.10.373479
MA0105.10.111401
MA0106.10.360817
MA0107.10.363753
MA0108.20.433384
MA0109.10
MA0111.10.191411
MA0113.10.337108
MA0114.10.238352
MA0115.10.669167
MA0116.10.315135
MA0117.10.639033
MA0119.10.154009
MA0122.10.657549
MA0124.10.851049
MA0125.10.780232
MA0130.10
MA0131.10.409473
MA0132.10
MA0133.10
MA0135.10.700734
MA0136.10.297196
MA0139.10.160584
MA0140.10.271883
MA0141.10.405018
MA0142.10.477975
MA0143.10.350815
MA0144.10.0688535
MA0145.10.114551
MA0146.10.160232
MA0147.10.260161
MA0148.10.622748
MA0149.10.157322
MA0062.20.117092
MA0035.20.275617
MA0039.20.395647
MA0138.20.402586
MA0002.20.37393
MA0137.20.127311
MA0104.20.1822
MA0047.20.853678
MA0112.20.0402239
MA0065.20.422333
MA0150.10.567944
MA0151.10
MA0152.11.54075
MA0153.10.716409
MA0154.10.0721234
MA0155.10.742144
MA0156.10.121496
MA0157.11.14109
MA0158.10
MA0159.10.0802352
MA0160.11.1773
MA0161.10
MA0162.10.00501935
MA0163.10.044142
MA0164.10.297489
MA0080.20.113741
MA0018.20.8239
MA0099.20.397135
MA0079.20.711518
MA0102.21.27355
MA0258.10.219649
MA0259.10.0696308
MA0442.10
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