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MCL coexpression mm9:2203: Difference between revisions

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{{MCL_coexpression_mm9
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transmembrane transporter activity;0.00164356544129732;224674!GO:0015794;glycerol-3-phosphate transport;0.00164356544129732;224674!GO:0015793;glycerol transport;0.00164356544129732;224674!GO:0015169;glycerol-3-phosphate transmembrane transporter activity;0.00164356544129732;224674!GO:0015168;glycerol transmembrane transporter activity;0.00164356544129732;224674!GO:0015166;polyol transmembrane transporter activity;0.00164356544129732;224674!GO:0006127;glycerophosphate shuttle;0.00164356544129732;224674!GO:0002065;columnar/cuboidal epithelial cell differentiation;0.00230092858385784;27428!GO:0015791;polyol transport;0.00230092858385784;224674!GO:0002066;columnar/cuboidal epithelial cell development;0.00230092858385784;27428!GO:0006072;glycerol-3-phosphate metabolic process;0.00627457213097509;224674!GO:0002064;epithelial cell development;0.00671012245769187;27428!GO:0006071;glycerol metabolic process;0.0164270998043318;224674!GO:0019751;polyol metabolic process;0.0164270998043318;224674!GO:0030855;epithelial cell differentiation;0.0233848781821928;27428!GO:0005351;sugar:hydrogen ion symporter activity;0.0233848781821928;224674!GO:0051119;sugar transmembrane transporter activity;0.0233848781821928;224674!GO:0015144;carbohydrate transmembrane transporter activity;0.0233848781821928;224674!GO:0001843;neural tube closure;0.0233848781821928;27428!GO:0014020;primary neural tube formation;0.0233848781821928;27428!GO:0022603;regulation of anatomical structure morphogenesis;0.0233848781821928;27428!GO:0008360;regulation of cell shape;0.0233848781821928;27428!GO:0022604;regulation of cell morphogenesis;0.0233848781821928;27428!GO:0016324;apical plasma membrane;0.0233848781821928;27428!GO:0001841;neural tube formation;0.0233848781821928;27428!GO:0001839;neural plate morphogenesis;0.0233848781821928;27428!GO:0001840;neural plate development;0.0233848781821928;27428!GO:0001838;embryonic epithelial tube 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|gostat_on_MCL_coexpression=GO:0015665;alcohol transmembrane transporter activity;0.00164356544129732;224674!GO:0015794;glycerol-3-phosphate transport;0.00164356544129732;224674!GO:0015793;glycerol transport;0.00164356544129732;224674!GO:0015169;glycerol-3-phosphate transmembrane transporter activity;0.00164356544129732;224674!GO:0015168;glycerol transmembrane transporter activity;0.00164356544129732;224674!GO:0015166;polyol transmembrane transporter activity;0.00164356544129732;224674!GO:0006127;glycerophosphate shuttle;0.00164356544129732;224674!GO:0002065;columnar/cuboidal epithelial cell differentiation;0.00230092858385784;27428!GO:0015791;polyol transport;0.00230092858385784;224674!GO:0002066;columnar/cuboidal epithelial cell development;0.00230092858385784;27428!GO:0006072;glycerol-3-phosphate metabolic process;0.00627457213097509;224674!GO:0002064;epithelial cell development;0.00671012245769187;27428!GO:0006071;glycerol metabolic process;0.0164270998043318;224674!GO:0019751;polyol metabolic process;0.0164270998043318;224674!GO:0030855;epithelial cell differentiation;0.0233848781821928;27428!GO:0005351;sugar:hydrogen ion symporter activity;0.0233848781821928;224674!GO:0051119;sugar transmembrane transporter activity;0.0233848781821928;224674!GO:0015144;carbohydrate transmembrane transporter activity;0.0233848781821928;224674!GO:0001843;neural tube closure;0.0233848781821928;27428!GO:0014020;primary neural tube formation;0.0233848781821928;27428!GO:0022603;regulation of anatomical structure morphogenesis;0.0233848781821928;27428!GO:0008360;regulation of cell shape;0.0233848781821928;27428!GO:0022604;regulation of cell morphogenesis;0.0233848781821928;27428!GO:0016324;apical plasma membrane;0.0233848781821928;27428!GO:0001841;neural tube formation;0.0233848781821928;27428!GO:0001839;neural plate morphogenesis;0.0233848781821928;27428!GO:0001840;neural plate development;0.0233848781821928;27428!GO:0001838;embryonic epithelial tube formation;0.0233848781821928;27428!GO:0005912;adherens junction;0.0237371809789831;27428!GO:0008643;carbohydrate transport;0.0237371809789831;224674!GO:0021915;neural tube development;0.0240810054663014;27428!GO:0016331;morphogenesis of embryonic epithelium;0.0261939190023719;27428!GO:0045177;apical part of cell;0.0267890120980656;27428!GO:0043296;apical junction complex;0.0295120490852277;27428!GO:0016327;apicolateral plasma membrane;0.0295120490852277;27428!GO:0002009;morphogenesis of an epithelium;0.0391772335293738;27428!GO:0015293;symporter activity;0.0412061163507711;224674!GO:0035239;tube morphogenesis;0.0440692222694824;27428!GO:0005911;intercellular junction;0.0440692222694824;27428!GO:0030036;actin cytoskeleton organization and biogenesis;0.0441084378769543;27428!GO:0030029;actin filament-based process;0.0460924290274504;27428!GO:0015291;secondary active transmembrane transporter activity;0.0479801284305496;224674!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!7.41e-16!47;UBERON:0000160!4.66e-15!31;UBERON:0000344!7.60e-10!15;UBERON:0001242!8.26e-09!13;UBERON:0000060!8.26e-09!13;UBERON:0001262!8.26e-09!13;UBERON:0004786!8.26e-09!13;UBERON:0000464!3.56e-07!57;UBERON:0004923!5.50e-07!24
}}

Latest revision as of 18:09, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr17:31433667..31433739,+p2@Slc37a1
Mm9::chr17:31433741..31433761,+p3@Slc37a1
Mm9::chr5:93238358..93238397,+p2@Shroom3
Mm9::chr5:93238398..93238462,+p1@Shroom3


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:0015665alcohol transmembrane transporter activity0.00164356544129732
GO:0015794glycerol-3-phosphate transport0.00164356544129732
GO:0015793glycerol transport0.00164356544129732
GO:0015169glycerol-3-phosphate transmembrane transporter activity0.00164356544129732
GO:0015168glycerol transmembrane transporter activity0.00164356544129732
GO:0015166polyol transmembrane transporter activity0.00164356544129732
GO:0006127glycerophosphate shuttle0.00164356544129732
GO:0002065columnar/cuboidal epithelial cell differentiation0.00230092858385784
GO:0015791polyol transport0.00230092858385784
GO:0002066columnar/cuboidal epithelial cell development0.00230092858385784
GO:0006072glycerol-3-phosphate metabolic process0.00627457213097509
GO:0002064epithelial cell development0.00671012245769187
GO:0006071glycerol metabolic process0.0164270998043318
GO:0019751polyol metabolic process0.0164270998043318
GO:0030855epithelial cell differentiation0.0233848781821928
GO:0005351sugar:hydrogen ion symporter activity0.0233848781821928
GO:0051119sugar transmembrane transporter activity0.0233848781821928
GO:0015144carbohydrate transmembrane transporter activity0.0233848781821928
GO:0001843neural tube closure0.0233848781821928
GO:0014020primary neural tube formation0.0233848781821928
GO:0022603regulation of anatomical structure morphogenesis0.0233848781821928
GO:0008360regulation of cell shape0.0233848781821928
GO:0022604regulation of cell morphogenesis0.0233848781821928
GO:0016324apical plasma membrane0.0233848781821928
GO:0001841neural tube formation0.0233848781821928
GO:0001839neural plate morphogenesis0.0233848781821928
GO:0001840neural plate development0.0233848781821928
GO:0001838embryonic epithelial tube formation0.0233848781821928
GO:0005912adherens junction0.0237371809789831
GO:0008643carbohydrate transport0.0237371809789831
GO:0021915neural tube development0.0240810054663014
GO:0016331morphogenesis of embryonic epithelium0.0261939190023719
GO:0045177apical part of cell0.0267890120980656
GO:0043296apical junction complex0.0295120490852277
GO:0016327apicolateral plasma membrane0.0295120490852277
GO:0002009morphogenesis of an epithelium0.0391772335293738
GO:0015293symporter activity0.0412061163507711
GO:0035239tube morphogenesis0.0440692222694824
GO:0005911intercellular junction0.0440692222694824
GO:0030036actin cytoskeleton organization and biogenesis0.0441084378769543
GO:0030029actin filament-based process0.0460924290274504
GO:0015291secondary active transmembrane transporter activity0.0479801284305496



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
gastrointestinal system7.41e-1647
intestine4.66e-1531
mucosa7.60e-1015
intestinal mucosa8.26e-0913
anatomical wall8.26e-0913
wall of intestine8.26e-0913
gastrointestinal system mucosa8.26e-0913
anatomical space3.56e-0757
organ component layer5.50e-0724


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)
MA0003.14.15047
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.11.46333
MA0017.10.528196
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.10.846479
MA0040.11.16866
MA0041.10.604221
MA0042.11.4388
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.10.731539
MA0051.11.99205
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.11.83511
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.00221226
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.11.33576
MA0105.10.313353
MA0106.10.899777
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.12.15201
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.12.20468
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.10.365453
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.11.11951
MA0145.10.21199
MA0146.10.0944145
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.20.0959929
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.211985
MA0065.20.212467
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.728853
MA0155.12.6534
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.11.70461
MA0163.10.327769
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.0553806
MA0102.21.8929
MA0258.10.419871
MA0259.11.12353
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:2203&oldid=3074202"