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MCL coexpression mm9:324: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.367810303315271,0.752580893010905,0.505829771670382,0.119078361648301,0.105247439647798,0.153628809860867,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.150772256921835,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0.0694776635602275,0.115432590314795,0.16471887555933,0.114425913041783,0.0482820047261801,0.0514097768499148,0.0203050532718322,0.198216364473326,0.501502549787898,0.0651189800845078,0.341740697269037,0.389985287491827,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.417851948377888,0,0,0,0,0.0719048733411253,0.0715670628547189,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111943926817558,0.0922800703916586,0.0780086007519514,0.165185349104694,0.165857749845381,0.110916496694021,0.0911499572672242,0,0.219235970178219,0.295088720045708,0.397180030821517,0.651925092762005,0.566334754986491,0,0,0,0,0,0.0150648328366121,0.00979599995512482,0,0,0,0,0,0,0,0,0,0,0,0,0.046982063026719,0,0,0,0,0,0,0.0518085854197706,0,0,0.301262418743066,0.442327810910981,0.641831894031172,0.648225511465509,0.65257563300509,0.700832760295912,0.435554021529114,0.469177121138666,0.260949644910126,0.311347765518305,0.137398724818722,0.117946305307076,0.0549581289003622,0.0716601710131013,0,0.240302768815063,0,0.0043206515215515,0,0.091558018055706,0.176819906742281,0.214889353108606,0.295714018215793,0.289100623991752,0.406583237752843,0.248683640371834,0.631166289431773,0.57850555803775,0.52040294658141,0,0,0,0,0,0,0,0.0977025055156685,0,0,0,0,0,0,0,0,0,0,0,0.0711694759496908,0,0,0,0.0546451607751108,0.0749695792365393,0.0750375819757342,0.125932715180755,0,0.015864482024224,0,0,0,0,0,0,0,0,0,0.0709019855629759,0.0712812415377886,0.0661577744756082,0.115432414129512,0,0.153407546465022,0,0,0,0,0,0,0,0,0.678293173969202,0.185763834309492,0.324522622518117,0.770673832072228,0.696765192224002,0.784778570519519,0,0,0,0,0,0.00101135887572518,0.0445418537893845,0,0,0,0.034489466458534,0,0,0,0,0,0.0664968100861445,0.0771684068561175,0.0527554171614426,0,0.0481920468563092,0,0,0,0,0,0,0.0326878670752127,0.0530480122014902,0.0661309055243968,0,0,0.0456109315711009,0,0.00662645572994003,0.0135740668741988,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.127580061998599,0.356015384441693,0.211878289366281,0.190760324464606,0.276228948705051,0.209006745960922,0.274670655272745,0.279148527356649,0.208356196637679,0.288502238404483,0.284586228369005,0.247556396095555,0.2791666122773,0.238234975641122,0.229248087711949,0.198307218446548,0.261065738036311,0.274894951296473,0.307198081843346,0.232971531330564,0.290867826191594,0.37502530955386,0.194418948264644,0.245890406569458,0.220841112735204,0.18359421108913,0.228928647067876,0.153693166356719,0.262556714121618,0.252376224309799,0.148982201447044,0.249121084251026,0.249974667329903,0.10035226200149,0.230907198759394,0.216063761676531,0.0760168881589905,0.0865703124974023,0.229324306108569
|gostat_on_MCL_coexpression=GO:0044445;cytosolic part;0.0131363083051239;19192,15130!GO:0008538;proteasome activator activity;0.0184049074230457;19192!GO:0008537;proteasome activator complex;0.0184049074230457;19192!GO:0005833;hemoglobin complex;0.0276005549590017;15130!GO:0019825;oxygen binding;0.0278559241072863;15130!GO:0005829;cytosol;0.0278559241072863;19192,15130!GO:0005344;oxygen transporter activity;0.0286039832815454;15130!GO:0015671;oxygen transport;0.0286039832815454;15130!GO:0015669;gas transport;0.0286039832815454;15130!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0009569!2.13e-09!66;UBERON:0005177!4.44e-08!79
}}

Latest revision as of 15:06, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:101178150..101178204,+p3@Psme3
Mm9::chr14:67619278..67619292,-p4@Bnip3l
p4@Gm10480
p4@LOC100044398
Mm9::chr14:87121708..87121722,-p@chr14:87121708..87121722
-
Mm9::chr15:56003971..56003980,-p@chr15:56003971..56003980
-
Mm9::chr17:26424003..26424010,-p1@ENSMUST00000128900
Mm9::chr1:134255477..134255480,-p@chr1:134255477..134255480
-
Mm9::chr1:176141785..176141789,+p@chr1:176141785..176141789
+
Mm9::chr1:20794895..20794898,-p@chr1:20794895..20794898
-
Mm9::chr2:120851478..120851480,-p@chr2:120851478..120851480
-
Mm9::chr2:13144960..13144961,-p@chr2:13144960..13144961
-
Mm9::chr3:100293086..100293138,-p1@Fam46c
Mm9::chr3:78566382..78566386,-p@chr3:78566382..78566386
-
Mm9::chr4:116665166..116665169,-p@chr4:116665166..116665169
-
Mm9::chr4:154299368..154299372,-p@chr4:154299368..154299372
-
Mm9::chr5:121262888..121262893,+p3@Oas1b
Mm9::chr5:37327766..37327767,+p@chr5:37327766..37327767
+
Mm9::chr6:41651908..41651912,-p@chr6:41651908..41651912
-
Mm9::chr7:110976264..110976276,-p1@Hbb-b2
p1@LOC100503164
p2@Beta-s
p2@Hbb-b1
Mm9::chr7:110976436..110976445,-p1@Beta-s
Mm9::chr7:135419595..135419600,-p@chr7:135419595..135419600
-
Mm9::chr8:24229904..24229908,+p@chr8:24229904..24229908
+
Mm9::chr8:74245714..74245718,-p6@Fcho1
Mm9::chr8:80878949..80878953,-p@chr8:80878949..80878953
-
Mm9::chrX:39718635..39718645,-p@chrX:39718635..39718645
-
Mm9::chrX:53985050..53985052,-p@chrX:53985050..53985052
-


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:0044445cytosolic part0.0131363083051239
GO:0008538proteasome activator activity0.0184049074230457
GO:0008537proteasome activator complex0.0184049074230457
GO:0005833hemoglobin complex0.0276005549590017
GO:0019825oxygen binding0.0278559241072863
GO:0005829cytosol0.0278559241072863
GO:0005344oxygen transporter activity0.0286039832815454
GO:0015671oxygen transport0.0286039832815454
GO:0015669gas transport0.0286039832815454



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
subdivision of trunk2.13e-0966
trunk region element4.44e-0879


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)
MA0003.10.00471067
MA0004.10.377695
MA0006.10.161227
MA0007.10.356106
MA0009.10.438777
MA0014.10.00628418
MA0017.10.424347
MA0019.10.290797
MA0024.10.401898
MA0025.10.645374
MA0027.12.02409
MA0028.10.172544
MA0029.10.383872
MA0030.10.389298
MA0031.10.360121
MA0038.10.209603
MA0040.11.14099
MA0041.10.0795363
MA0042.10.0734808
MA0043.10.522621
MA0046.10.469568
MA0048.10.269917
MA0050.10.435264
MA0051.10.215828
MA0052.10.456356
MA0055.11.24651
MA0056.10
MA0057.10.235119
MA0058.10.24722
MA0059.10.262933
MA0060.11.00385
MA0061.10.501826
MA0063.10
MA0066.10.584787
MA0067.10.748059
MA0068.10.130537
MA0069.10.456647
MA0070.10.448343
MA0071.10.140522
MA0072.10.44111
MA0073.10.000721567
MA0074.11.01086
MA0076.10.0586682
MA0077.10.422739
MA0078.10.239324
MA0081.10.0869359
MA0083.11.29616
MA0084.11.0607
MA0087.10.484199
MA0088.10.232129
MA0089.10
MA0090.10.100075
MA0091.10.791886
MA0092.10.329408
MA0093.10.181765
MA0095.10
MA0098.10
MA0100.10.508591
MA0101.10.274567
MA0103.11.19078
MA0105.10.89289
MA0106.10.244965
MA0107.10.434379
MA0108.20.308463
MA0109.10
MA0111.10.348856
MA0113.10.224694
MA0114.10.793821
MA0115.10.525089
MA0116.10.657566
MA0117.10.496768
MA0119.10.0804194
MA0122.10.514153
MA0124.10.698593
MA0125.10.630583
MA0130.10
MA0131.10.287321
MA0132.10
MA0133.10
MA0135.10.554905
MA0136.10.191208
MA0139.10.165104
MA0140.10.980065
MA0141.10.491507
MA0142.10.34839
MA0143.10.236381
MA0144.10.111883
MA0145.10.0737096
MA0146.10.0544088
MA0147.10.123349
MA0148.10.799685
MA0149.10.0827548
MA0062.20.00745981
MA0035.20.992441
MA0039.20.0762869
MA0138.20.281269
MA0002.20.336716
MA0137.20.223304
MA0104.20.0161848
MA0047.20.601531
MA0112.21.09552
MA0065.20.835288
MA0150.10.110236
MA0151.10
MA0152.10.209147
MA0153.10.569763
MA0154.10.43148
MA0155.10.318388
MA0156.10.212038
MA0157.10.322822
MA0158.10
MA0159.10.313465
MA0160.10.129493
MA0161.10
MA0162.10.0772307
MA0163.10.00483862
MA0164.10.559407
MA0080.20.197063
MA0018.20.197998
MA0099.20.758369
MA0079.24.35949e-05
MA0102.21.11159
MA0258.10.7371
MA0259.10.113327
MA0442.10
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