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MCL coexpression mm9:1616: Difference between revisions

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{{MCL_coexpression_mm9
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complex;0.0265739732497567;320910!GO:0006576;biogenic amine metabolic process;0.0265739732497567;320981!GO:0006575;amino acid derivative metabolic process;0.0288883626643423;320981!GO:0007229;integrin-mediated signaling pathway;0.0288883626643423;320910!GO:0016042;lipid catabolic process;0.0288883626643423;320981!GO:0005886;plasma membrane;0.0289955740435956;320910,320981!GO:0006643;membrane lipid metabolic process;0.0423700426692558;320910!GO:0009117;nucleotide metabolic process;0.0484393834823058;320981!GO:0055086;nucleobase, nucleoside and nucleotide metabolic 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|gostat_on_MCL_coexpression=GO:0019695;choline metabolic process;0.0098589613379595;320981!GO:0042439;ethanolamine and derivative metabolic process;0.0098589613379595;320981!GO:0008889;glycerophosphodiester phosphodiesterase activity;0.0098589613379595;320981!GO:0001573;ganglioside metabolic process;0.0098589613379595;320910!GO:0006629;lipid metabolic process;0.0098589613379595;320910,320981!GO:0006687;glycosphingolipid metabolic process;0.0098589613379595;320910!GO:0006664;glycolipid metabolic process;0.0135186383516479;320910!GO:0006672;ceramide metabolic process;0.0164248485915314;320910!GO:0046519;sphingoid metabolic process;0.0164248485915314;320910!GO:0008305;integrin complex;0.0200990548039927;320910!GO:0006665;sphingolipid metabolic process;0.0225661800323921;320910!GO:0007160;cell-matrix adhesion;0.0265739732497567;320910!GO:0008081;phosphoric diester hydrolase activity;0.0265739732497567;320981!GO:0031589;cell-substrate adhesion;0.0265739732497567;320910!GO:0043235;receptor complex;0.0265739732497567;320910!GO:0006576;biogenic amine metabolic process;0.0265739732497567;320981!GO:0006575;amino acid derivative metabolic process;0.0288883626643423;320981!GO:0007229;integrin-mediated signaling pathway;0.0288883626643423;320910!GO:0016042;lipid catabolic process;0.0288883626643423;320981!GO:0005886;plasma membrane;0.0289955740435956;320910,320981!GO:0006643;membrane lipid metabolic process;0.0423700426692558;320910!GO:0009117;nucleotide metabolic process;0.0484393834823058;320981!GO:0055086;nucleobase, nucleoside and nucleotide metabolic process;0.0496433578567692;320981!
}}

Latest revision as of 17:13, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:120476799..120476810,-p12@Itgb8
Mm9::chr8:48072237..48072245,+p3@Enpp6
Mm9::chr8:48072252..48072264,+p2@Enpp6
Mm9::chr8:48072267..48072316,+p1@Enpp6
Mm9::chr8:48180161..48180170,+p@chr8:48180161..48180170
+


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:0019695choline metabolic process0.0098589613379595
GO:0042439ethanolamine and derivative metabolic process0.0098589613379595
GO:0008889glycerophosphodiester phosphodiesterase activity0.0098589613379595
GO:0001573ganglioside metabolic process0.0098589613379595
GO:0006629lipid metabolic process0.0098589613379595
GO:0006687glycosphingolipid metabolic process0.0098589613379595
GO:0006664glycolipid metabolic process0.0135186383516479
GO:0006672ceramide metabolic process0.0164248485915314
GO:0046519sphingoid metabolic process0.0164248485915314
GO:0008305integrin complex0.0200990548039927
GO:0006665sphingolipid metabolic process0.0225661800323921
GO:0007160cell-matrix adhesion0.0265739732497567
GO:0008081phosphoric diester hydrolase activity0.0265739732497567
GO:0031589cell-substrate adhesion0.0265739732497567
GO:0043235receptor complex0.0265739732497567
GO:0006576biogenic amine metabolic process0.0265739732497567
GO:0006575amino acid derivative metabolic process0.0288883626643423
GO:0007229integrin-mediated signaling pathway0.0288883626643423
GO:0016042lipid catabolic process0.0288883626643423
GO:0005886plasma membrane0.0289955740435956
GO:0006643membrane lipid metabolic process0.0423700426692558
GO:0009117nucleotide metabolic process0.0484393834823058
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0496433578567692



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
tube4.60e-10114
compound organ2.66e-0943
anatomical conduit1.08e-08122
structure with developmental contribution from neural crest1.81e-0892
occipital lobe1.69e-0710
visual cortex1.69e-0710
neocortex1.69e-0710
primary circulatory organ2.59e-0718
heart2.59e-0718
primitive heart tube2.59e-0718
primary heart field2.59e-0718
anterior lateral plate mesoderm2.59e-0718
heart tube2.59e-0718
heart primordium2.59e-0718
cardiac mesoderm2.59e-0718
cardiogenic plate2.59e-0718
heart rudiment2.59e-0718


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)
MA0003.10.0185483
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.187732
MA0017.11.14026
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.12.48306
MA0050.11.55615
MA0051.10.767098
MA0052.11.08379
MA0055.10.0851423
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.00450236
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.148348
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.949408
MA0115.11.16466
MA0116.10.419688
MA0117.11.13165
MA0119.12.24029
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.295945
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.927481
MA0146.10.0604336
MA0147.10.378658
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.0511423
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.315156
MA0047.20.75686
MA0112.21.4836
MA0065.20.158101
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.203217
MA0155.10.173445
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.10.0699535
MA0163.10.230013
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.20.00167664
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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