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MCL coexpression mm9:3342: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0051213;dioxygenase activity;0.0295120490852277;227696!GO:0016702;oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen;0.0295120490852277;227696!GO:0016701;oxidoreductase activity, acting on single donors with incorporation of molecular oxygen;0.0295120490852277;227696!GO:0005923;tight junction;0.0295120490852277;64945!GO:0043296;apical junction complex;0.0295120490852277;64945!GO:0016327;apicolateral plasma membrane;0.0295120490852277;64945!GO:0005911;intercellular junction;0.0420906041267709;64945!
}}

Latest revision as of 19:57, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr2:30122323..30122406,+p1@Phyhd1
Mm9::chr5:5514877..5514891,-p2@Cldn12
Mm9::chr5:5514906..5514918,-p4@Cldn12


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:0051213dioxygenase activity0.0295120490852277
GO:0016702oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen0.0295120490852277
GO:0016701oxidoreductase activity, acting on single donors with incorporation of molecular oxygen0.0295120490852277
GO:0005923tight junction0.0295120490852277
GO:0043296apical junction complex0.0295120490852277
GO:0016327apicolateral plasma membrane0.0295120490852277
GO:0005911intercellular junction0.0420906041267709



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>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
non-terminally differentiated cell1.18e-1149
embryonic cell2.65e-1070
ectodermal cell2.01e-0944
neurectodermal cell2.01e-0944
neural cell3.92e-0943
electrically responsive cell6.74e-0839
electrically active cell6.74e-0839

Uber Anatomy
Ontology termp-valuen
tube2.49e-18114
anatomical conduit2.29e-17122
ectoderm-derived structure1.09e-1595
ectoderm1.09e-1595
presumptive ectoderm1.09e-1595
nervous system2.80e-1475
central nervous system6.35e-1473
anatomical cluster6.46e-12244
epithelial tube2.05e-1147
structure with developmental contribution from neural crest2.44e-1092
liver5.46e-1022
epithelial sac5.46e-1022
digestive gland5.46e-1022
epithelium of foregut-midgut junction5.46e-1022
anatomical boundary5.46e-1022
hepatobiliary system5.46e-1022
foregut-midgut junction5.46e-1022
hepatic diverticulum5.46e-1022
liver primordium5.46e-1022
septum transversum5.46e-1022
liver bud5.46e-1022
ecto-epithelium6.91e-1073
neurectoderm9.96e-1064
neural plate9.96e-1064
presumptive neural plate9.96e-1064
brain8.49e-0947
future brain8.49e-0947
digestive tract diverticulum9.16e-0923
sac9.16e-0923
exocrine gland1.01e-0825
exocrine system1.01e-0825
regional part of nervous system1.28e-0854
regional part of brain2.42e-0846
neural tube5.27e-0852
neural rod5.27e-0852
future spinal cord5.27e-0852
neural keel5.27e-0852
mesenchyme1.43e-0761
entire embryonic mesenchyme1.43e-0761
pre-chordal neural plate4.63e-0749
cell layer6.87e-07176


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)
MA0003.10.899234
MA0004.10.801718
MA0006.10.60285
MA0007.10.784593
MA0009.11.27673
MA0014.10.825079
MA0017.10.635031
MA0019.11.08369
MA0024.11.23079
MA0025.11.51835
MA0027.12.9431
MA0028.11.49373
MA0029.11.20789
MA0030.11.21482
MA0031.11.17722
MA0038.10.963265
MA0040.11.28983
MA0041.10.714279
MA0042.10.69885
MA0043.11.3775
MA0046.11.31428
MA0048.10.353763
MA0050.10.845669
MA0051.10.973068
MA0052.11.29825
MA0055.10.190475
MA0056.10
MA0057.10.896032
MA0058.10.690848
MA0059.10.705317
MA0060.10.502699
MA0061.10.5406
MA0063.10
MA0066.10.951196
MA0067.11.63197
MA0068.10.908538
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.10.00834468
MA0074.10.911576
MA0076.10.657929
MA0077.11.2569
MA0078.11.0091
MA0081.10.732313
MA0083.13.04822
MA0084.11.96428
MA0087.11.33189
MA0088.10.766354
MA0089.10
MA0090.10.762482
MA0091.10.816659
MA0092.10.762845
MA0093.10.62555
MA0095.10
MA0098.10
MA0100.10.89873
MA0101.10.71579
MA0103.10.647985
MA0105.10.405648
MA0106.11.01755
MA0107.10.640607
MA0108.21.10817
MA0109.10
MA0111.10.778753
MA0113.10.986839
MA0114.10.537669
MA0115.11.38041
MA0116.10.602598
MA0117.11.34691
MA0119.14.13797
MA0122.11.36752
MA0124.11.57762
MA0125.11.5017
MA0130.10
MA0131.11.07881
MA0132.10
MA0133.10
MA0135.11.4152
MA0136.10.933582
MA0139.10.462282
MA0140.10.898603
MA0141.10.671467
MA0142.11.16183
MA0143.11.00467
MA0144.10.541532
MA0145.10.794492
MA0146.10.151124
MA0147.10.556853
MA0148.10.820161
MA0149.10.722227
MA0062.21.86813
MA0035.20.903829
MA0039.20.181475
MA0138.21.07027
MA0002.20.466067
MA0137.21.60348
MA0104.20.48458
MA0047.20.962424
MA0112.20.29236
MA0065.20.292912
MA0150.10.784464
MA0151.10
MA0152.10.962542
MA0153.11.43238
MA0154.10.35067
MA0155.10.312898
MA0156.10.656895
MA0157.11.12772
MA0158.10
MA0159.10.569393
MA0160.10.823568
MA0161.10
MA0162.10.166722
MA0163.10.157796
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.20.0831329
MA0102.22.01714
MA0258.10.520639
MA0259.10.543506
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:3342&oldid=3075341"