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MCL coexpression mm9:557: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!2.41e-20!22;UBERON:0007499!2.41e-20!22;UBERON:0006925!2.41e-20!22;UBERON:0009497!2.41e-20!22;UBERON:0000015!2.41e-20!22;UBERON:0002423!2.41e-20!22;UBERON:0006235!2.41e-20!22;UBERON:0008835!2.41e-20!22;UBERON:0003894!2.41e-20!22;UBERON:0004161!2.41e-20!22;UBERON:0008836!2.41e-20!22;UBERON:0009854!3.77e-19!23;UBERON:0009856!3.77e-19!23;UBERON:0002365!4.72e-17!25;UBERON:0002330!4.72e-17!25;UBERON:0005172!8.19e-11!49;UBERON:0005173!8.19e-11!49;UBERON:0002417!8.19e-11!49;UBERON:0000916!8.19e-11!49;UBERON:0005256!9.71e-11!45;UBERON:0003104!3.56e-07!61;UBERON:0009142!3.56e-07!61;UBERON:0003914!9.67e-07!47
|tfbs_overrepresentation_for_novel_motifs=0.244604,0.794189,0.635766,0.765013,0.848472,0.792702,0.370193,0.566731,0.283485,0.050306,0.331725,0.35958,0.567414,0.381063,0.15081,0,0.557619,0.133477,0.524522,0.286444,1.07772,0.197405,0.38026,0.427399,0.229596,0.405649,0.0651848,0.309422,0.171781,0.384773,0.297405,0.653099,0.131928,0.202991,0.151158,0.100057,0.125578,0.356403,0.111088,0.0929685,1.35318,0.301802,0.580776,0.904763,0.119688,0.270091,0.48361,0.322976,0.742531,0.173974,0.541299,0.429887,0.160439,0.788877,0.805733,0.387424,0.18067,0.348382,0.0605105,0.385607,0.634076,0.438439,0.302747,0.5308,0.397364,0.568642,0.938213,1.28193,0.629645,1.13654,0.208654,0.277751,0.211975,0.838198,0.0571922,0.427563,0.0552358,0.473159,0.617814,1.71489,0.279684,0.573903,0.437131,1.39638,0.72691,0.00415894,0.805257,0.0444451,0.488122,1.44275,1.0064,0.731688,1.59777,1.39608,0.108477,0.661488,0.0764965,0.667958,0.483845,0.141268,0.125632,0.652833,0.772062,0.541854,0.54087,0.301427,0.596902,1.54362,0.201775,0.196131,0.671624,0.773781,0.577235,0.336214,1.01331,0.83101,0.00714903,0.282562,0.558838,0.123076,0.843435,1.27363,0.407285,0.472327,2.42111,0.621313,0.377415,0.658832,0.936732,0.145259,1.78539,0.273302,0.907893,0.399614,1.03449,0.0163629,0.251471,0.303003,0.986296,1.80931,1.41113,0.942814,0.418119,1.59313,0.53483,0.302189,0.486482,1.76978,0.253405,0.140226,0.694195,0.0139939,0.790393,0.101059,0.398786,0.869538,0.430798,0.481451,0.242603,0.251242,0.995609,0.726089,0.621734,0.237049,0.531751,0.392164,0.12482,0.358185,0.00980506
|tfbs_overrepresentation_jaspar=MA0003.1;0.00492315,MA0004.1;0.279808,MA0006.1;0.14766,MA0007.1;0.267314,MA0009.1;0.678286,MA0014.1;0.00137258,MA0017.1;2.19772,MA0019.1;0.506787,MA0024.1;0.636635,MA0025.1;6.50166,MA0027.1;2.3071,MA0028.1;0.155127,MA0029.1;0.616052,MA0030.1;1.50787,MA0031.1;1.43735,MA0038.1;0.405578,MA0040.1;0.690239,MA0041.1;0.622762,MA0042.1;1.12856,MA0043.1;3.03256,MA0046.1;4.12161,MA0048.1;0.332541,MA0050.1;0.312673,MA0051.1;0.413609,MA0052.1;0.697946,MA0055.1;0.183408,MA0056.1;0,MA0057.1;0.0312525,MA0058.1;0.202403,MA0059.1;0.212009,MA0060.1;0.0941959,MA0061.1;0.113212,MA0063.1;0,MA0066.1;0.395746,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;0.0201813,MA0074.1;0.363923,MA0076.1;0.181159,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;0.0176316,MA0089.1;0,MA0090.1;0.251458,MA0091.1;0.791063,MA0092.1;2.00353,MA0093.1;0.161141,MA0095.1;0,MA0098.1;0,MA0100.1;0.353762,MA0101.1;0.219061,MA0103.1;0.519343,MA0105.1;0.196316,MA0106.1;1.99603,MA0107.1;0.170338,MA0108.2;0.527977,MA0109.1;0,MA0111.1;0.263095,MA0113.1;0.424958,MA0114.1;2.37343,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;0.0756871,MA0140.1;0.353662,MA0141.1;0.555407,MA0142.1;0.575041,MA0143.1;1.12007,MA0144.1;1.2096,MA0145.1;0.0892922,MA0146.1;0.213574,MA0147.1;0.121834,MA0148.1;0.293462,MA0149.1;0.223436,MA0062.2;0.0556611,MA0035.2;0.357786,MA0039.2;0.00534808,MA0138.2;0.495254,MA0002.2;0.266731,MA0137.2;0.55008,MA0104.2;0.0856657,MA0047.2;0.404891,MA0112.2;0.223965,MA0065.2;0.224871,MA0150.1;0.267221,MA0151.1;0,MA0152.1;0.404987,MA0153.1;4.58638,MA0154.1;0.326723,MA0155.1;0.258579,MA0156.1;0.532949,MA0157.1;0.545026,MA0158.1;0,MA0159.1;0.403827,MA0160.1;0.296006,MA0161.1;0,MA0162.1;0.00307515,MA0163.1;0.0157648,MA0164.1;0.381832,MA0080.2;0.509758,MA0018.2;0.390455,MA0099.2;0.489441,MA0079.2;1.21124e-07,MA0102.2;1.38728,MA0258.1;0.336791,MA0259.1;0.367748,MA0442.1;0
}}

Latest revision as of 15:30, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:101415122..101415138,+p@chr11:101415122..101415138
+
Mm9::chr14:31995973..31996021,-p3@Nisch
Mm9::chr16:23317621..23317640,+p@chr16:23317621..23317640
+
Mm9::chr16:23317644..23317655,+p@chr16:23317644..23317655
+
Mm9::chr16:23317673..23317705,+p@chr16:23317673..23317705
+
Mm9::chr17:25015170..25015209,+p2@Igfals
Mm9::chr1:187071835..187071867,+p@chr1:187071835..187071867
+
Mm9::chr3:129549932..129549981,-p@chr3:129549932..129549981
-
Mm9::chr3:98663634..98663644,-p4@Hsd3b1
Mm9::chr3:98663652..98663672,-p2@Hsd3b1
Mm9::chr3:98663676..98663692,-p3@Hsd3b1
Mm9::chr6:82002310..82002324,+p5@Fam176a
Mm9::chr8:10928449..10928464,-p2@3930402G23Rik


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:00038543-beta-hydroxy-delta5-steroid dehydrogenase activity0.0332886086484886
GO:0004769steroid delta-isomerase activity0.0332886086484886
GO:0006700C21-steroid hormone biosynthetic process0.0332886086484886
GO:0030336negative regulation of cell migration0.0332886086484886
GO:0016601Rac protein signal transduction0.0332886086484886
GO:0016863intramolecular oxidoreductase activity, transposing C



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
liver2.41e-2022
epithelial sac2.41e-2022
digestive gland2.41e-2022
epithelium of foregut-midgut junction2.41e-2022
anatomical boundary2.41e-2022
hepatobiliary system2.41e-2022
foregut-midgut junction2.41e-2022
hepatic diverticulum2.41e-2022
liver primordium2.41e-2022
septum transversum2.41e-2022
liver bud2.41e-2022
digestive tract diverticulum3.77e-1923
sac3.77e-1923
exocrine gland4.72e-1725
exocrine system4.72e-1725
abdomen element8.19e-1149
abdominal segment element8.19e-1149
abdominal segment of trunk8.19e-1149
abdomen8.19e-1149
trunk mesenchyme9.71e-1145
mesenchyme3.56e-0761
entire embryonic mesenchyme3.56e-0761
epithelial tube9.67e-0747


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)
MA0003.10.00492315
MA0004.10.279808
MA0006.10.14766
MA0007.10.267314
MA0009.10.678286
MA0014.10.00137258
MA0017.12.19772
MA0019.10.506787
MA0024.10.636635
MA0025.16.50166
MA0027.12.3071
MA0028.10.155127
MA0029.10.616052
MA0030.11.50787
MA0031.11.43735
MA0038.10.405578
MA0040.10.690239
MA0041.10.622762
MA0042.11.12856
MA0043.13.03256
MA0046.14.12161
MA0048.10.332541
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.10.183408
MA0056.10
MA0057.10.0312525
MA0058.10.202403
MA0059.10.212009
MA0060.10.0941959
MA0061.10.113212
MA0063.10
MA0066.10.395746
MA0067.11.01206
MA0068.10.312793
MA0069.10.698271
MA0070.10.688999
MA0071.10.311956
MA0072.10.680902
MA0073.10.0201813
MA0074.10.363923
MA0076.10.181159
MA0077.10.660245
MA0078.10.443468
MA0081.10.230351
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.10.0176316
MA0089.10
MA0090.10.251458
MA0091.10.791063
MA0092.12.00353
MA0093.10.161141
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.219061
MA0103.10.519343
MA0105.10.196316
MA0106.11.99603
MA0107.10.170338
MA0108.20.527977
MA0109.10
MA0111.10.263095
MA0113.10.424958
MA0114.12.37343
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
MA0139.10.0756871
MA0140.10.353662
MA0141.10.555407
MA0142.10.575041
MA0143.11.12007
MA0144.11.2096
MA0145.10.0892922
MA0146.10.213574
MA0147.10.121834
MA0148.10.293462
MA0149.10.223436
MA0062.20.0556611
MA0035.20.357786
MA0039.20.00534808
MA0138.20.495254
MA0002.20.266731
MA0137.20.55008
MA0104.20.0856657
MA0047.20.404891
MA0112.20.223965
MA0065.20.224871
MA0150.10.267221
MA0151.10
MA0152.10.404987
MA0153.14.58638
MA0154.10.326723
MA0155.10.258579
MA0156.10.532949
MA0157.10.545026
MA0158.10
MA0159.10.403827
MA0160.10.296006
MA0161.10
MA0162.10.00307515
MA0163.10.0157648
MA0164.10.381832
MA0080.20.509758
MA0018.20.390455
MA0099.20.489441
MA0079.21.21124e-07
MA0102.21.38728
MA0258.10.336791
MA0259.10.367748
MA0442.10
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