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MCL coexpression mm9:147: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002048!1.49e-33!14;UBERON:0000117!1.49e-33!14;UBERON:0000171!1.49e-33!14;UBERON:0000170!1.49e-33!14;UBERON:0005597!1.49e-33!14;UBERON:0000118!1.49e-33!14;UBERON:0005153!2.18e-27!17;UBERON:0005178!2.18e-27!17;UBERON:0005181!2.18e-27!17;UBERON:0002224!2.18e-27!17;UBERON:0000915!2.18e-27!17;UBERON:0008947!2.18e-27!17;UBERON:0003258!2.18e-27!17;UBERON:0005157!4.54e-23!20;UBERON:0000065!1.70e-10!41;UBERON:0001004!3.29e-10!42;UBERON:0000464!4.04e-07!57
|ontology_enrichment_uberon=UBERON:0002048!1.49e-33!14;UBERON:0000117!1.49e-33!14;UBERON:0000171!1.49e-33!14;UBERON:0000170!1.49e-33!14;UBERON:0005597!1.49e-33!14;UBERON:0000118!1.49e-33!14;UBERON:0005153!2.18e-27!17;UBERON:0005178!2.18e-27!17;UBERON:0005181!2.18e-27!17;UBERON:0002224!2.18e-27!17;UBERON:0000915!2.18e-27!17;UBERON:0008947!2.18e-27!17;UBERON:0003258!2.18e-27!17;UBERON:0005157!4.54e-23!20;UBERON:0000065!1.70e-10!41;UBERON:0001004!3.29e-10!42;UBERON:0000464!4.04e-07!57
|tfbs_overrepresentation_for_novel_motifs=0.129234,0.0142223,0.0413035,0.184963,0.59291,0.206575,0.0728399,0.396098,0.322772,0.0266597,0.0102024,0.57768,0.123402,0.0798205,1.72773,0,0.0669724,0.39333,0.440994,0.318814,0.567203,0.231725,0.0174662,0.0214332,0.538897,0.0222934,0.522894,0.114392,0.00409062,0.0842771,0.0349811,0.713885,0.0183312,0.398899,0.0100109,0.148583,0.142125,0.0644755,1.40575,0.114226,0.986864,0.0368275,0.388133,1.74883,0.339667,0.169154,0.161756,0.0465099,1.25929,0.644699,0.219558,0.0275925,0.0112126,0.183641,3.1806,0.0187545,0.329484,0.0598656,0.463591,0.0184223,0.0995356,0.0296263,1.06979,0.0571113,0.0206377,0.24957,0.774573,0.560216,0.66206,0.437083,0.0013408,0.307619,1.62214e-05,0.615239,2.07732e-05,0.0226391,0.832466,0.350687,0.307387,0.399828,0.0829644,0.0733631,0.534036,0.0638867,0.147288,1.36263e-10,0.00270183,0.615363,0.165992,0.703643,0.334085,0.14997,1.21572,1.93188,0.0517243,0.305139,0.516121,0.115971,0.0418739,0.336191,3.00978,0.351337,0.173448,0.479196,0.825242,0.00687733,0.0828978,0.99178,0.0290628,0.0010013,0.0514436,0.174479,0.813756,0.0532324,0.899989,0.401795,7.79556e-07,0.087326,0.0674403,1.60196,0.218281,1.13341,1.93981,0.628526,0.380615,0.0936555,0.637399,0.111428,0.282532,0.0598296,0.491987,0.750139,0.72526,0.0925156,0.355631,0.163439,0.898407,0.401338,0.318925,1.04798,0.674956,0.286919,0.106142,0.364576,0.807304,0.624177,3.10331,1.01005,0.266459,0.00745781,0.00684083,4.41406e-10,2.33001,0.0810047,0.0209163,1.236,1.19785,0.551036,4.60443,0.00313115,0.325921,0.881899,0.0938469,0.226809,0.0574465,1.0161,0.0774985,0.573085,0.000768618
}}
}}

Revision as of 17:52, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:107209466..107209493,-p6@Pitpnc1
Mm9::chr11:107209509..107209527,-p8@Pitpnc1
Mm9::chr11:120590834..120590843,-p@chr11:120590834..120590843
-
Mm9::chr11:120590872..120590952,+p@chr11:120590872..120590952
+
Mm9::chr11:120590980..120591002,+p@chr11:120590980..120591002
+
Mm9::chr11:120590988..120591010,-p@chr11:120590988..120591010
-
Mm9::chr11:120591128..120591136,-p@chr11:120591128..120591136
-
Mm9::chr11:120591618..120591626,-p2@Cbr2
Mm9::chr11:120591790..120591801,-p4@Cbr2
Mm9::chr11:120591816..120591829,-p3@Cbr2
Mm9::chr11:120592141..120592159,-p@chr11:120592141..120592159
-
Mm9::chr11:120592356..120592367,-p@chr11:120592356..120592367
-
Mm9::chr11:120593297..120593312,-p1@Cbr2
Mm9::chr11:120609314..120609317,-p@chr11:120609314..120609317
-
Mm9::chr11:30121640..30121646,+p@chr11:30121640..30121646
+
Mm9::chr11:3964884..3964901,+p1@Sec14l3
Mm9::chr11:3964912..3964930,+p2@Sec14l3
Mm9::chr11:89896063..89896075,+p@chr11:89896063..89896075
+
Mm9::chr11:89896092..89896106,+p@chr11:89896092..89896106
+
Mm9::chr13:113971164..113971175,-p1@Gzmk
Mm9::chr13:42961804..42961819,+p16@Phactr1
Mm9::chr13:92070234..92070242,+p@chr13:92070234..92070242
+
Mm9::chr13:92070269..92070276,+p@chr13:92070269..92070276
+
Mm9::chr14:32371068..32371080,-p3@Colq
Mm9::chr14:41947925..41947941,+p@chr14:41947925..41947941
+
Mm9::chr14:70936011..70936035,+p@chr14:70936011..70936035
+
Mm9::chr15:57491606..57491613,-p@chr15:57491606..57491613
-
Mm9::chr15:76447545..76447556,-p5@Slc39a4
Mm9::chr15:76447559..76447576,-p6@Slc39a4
Mm9::chr15:79996197..79996201,+p@chr15:79996197..79996201
+
Mm9::chr16:92519298..92519322,+p@chr16:92519298..92519322
+
Mm9::chr17:27382011..27382021,-p@chr17:27382011..27382021
-
Mm9::chr17:28116011..28116035,+p@chr17:28116011..28116035
+
Mm9::chr17:34735388..34735395,+p@chr17:34735388..34735395
+
Mm9::chr17:87159776..87159787,+p@chr17:87159776..87159787
+
Mm9::chr17:87226886..87226907,-p@chr17:87226886..87226907
-
Mm9::chr19:49442800..49442806,-p@chr19:49442800..49442806
-
Mm9::chr19:9158157..9158192,-p@chr19:9158157..9158192
-
Mm9::chr19:9158189..9158194,+p@chr19:9158189..9158194
+
Mm9::chr19:9158204..9158211,+p@chr19:9158204..9158211
+
Mm9::chr19:9158204..9158213,-p@chr19:9158204..9158213
-
Mm9::chr19:9158216..9158233,-p@chr19:9158216..9158233
-
Mm9::chr19:9158235..9158240,-p@chr19:9158235..9158240
-
Mm9::chr19:9158241..9158266,-p@chr19:9158241..9158266
-
Mm9::chr19:9158281..9158290,-p@chr19:9158281..9158290
-
Mm9::chr19:9158293..9158303,-p@chr19:9158293..9158303
-
Mm9::chr19:9159673..9159694,+p@chr19:9159673..9159694
+
Mm9::chr19:9159710..9159829,-p@chr19:9159710..9159829
-
Mm9::chr19:9159831..9159840,-p@chr19:9159831..9159840
-
Mm9::chr19:9159845..9159898,-p@chr19:9159845..9159898
-
Mm9::chr19:9162435..9162452,-p1@Scgb1a1
Mm9::chr1:164796490..164796533,-p4@Fmo1
Mm9::chr1:184333318..184333337,-p@chr1:184333318..184333337
-
Mm9::chr1:21288301..21288341,-p1@Gm4956
Mm9::chr1:40657758..40657794,+p@chr1:40657758..40657794
+
Mm9::chr1:73975078..73975103,-p4@Tns1
Mm9::chr2:104342689..104342700,-p@chr2:104342689..104342700
-
Mm9::chr2:131944253..131944261,-p@chr2:131944253..131944261
-
Mm9::chr2:131944500..131944511,-p@chr2:131944500..131944511
-
Mm9::chr2:153968616..153968621,+p1@Bpifa1
Mm9::chr2:164374820..164374835,-p@chr2:164374820..164374835
-
Mm9::chr2:164374839..164374850,-p@chr2:164374839..164374850
-
Mm9::chr4:53240210..53240250,+p@chr4:53240210..53240250
+
Mm9::chr4:67901948..67901953,-p@chr4:67901948..67901953
-
Mm9::chr5:104076512..104076524,-p@chr5:104076512..104076524
-
Mm9::chr5:124625423..124625439,+p@chr5:124625423..124625439
+
Mm9::chr6:125271876..125271887,+p@chr6:125271876..125271887
+
Mm9::chr6:128074330..128074341,-p6@Tspan9
Mm9::chr6:128074349..128074373,-p3@Tspan9
Mm9::chr6:83156088..83156098,+p@chr6:83156088..83156098
+
Mm9::chr6:83156112..83156124,+p@chr6:83156112..83156124
+
Mm9::chr7:133495063..133495074,-p@chr7:133495063..133495074
-
Mm9::chr7:28546351..28546372,-p@chr7:28546351..28546372
-
Mm9::chr8:3685317..3685322,-p@chr8:3685317..3685322
-
Mm9::chr8:42103084..42103098,+p1@ENSMUST00000152188
Mm9::chr8:42124922..42124935,-p21@Mtus1
Mm9::chr9:118610978..118610987,-p@chr9:118610978..118610987
-
Mm9::chr9:79487579..79487585,-p10@Col12a1


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:0006811ion transport0.026953790878137
GO:0006116NADH oxidation0.0444858379444475
GO:0008526phosphatidylinositol transporter activity0.0444858379444475
GO:0006734NADH metabolic process0.0444858379444475



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
lung1.49e-3314
respiratory tube1.49e-3314
respiration organ1.49e-3314
pair of lungs1.49e-3314
lung primordium1.49e-3314
lung bud1.49e-3314
epithelial bud2.18e-2717
thoracic cavity element2.18e-2717
thoracic segment organ2.18e-2717
thoracic cavity2.18e-2717
thoracic segment of trunk2.18e-2717
respiratory primordium2.18e-2717
endoderm of foregut2.18e-2717
epithelial fold4.54e-2320
respiratory tract1.70e-1041
respiratory system3.29e-1042
anatomical space4.04e-0757


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)

{{{tfbs_overrepresentation_jaspar}}}

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