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MCL coexpression mm9:2081: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0016331;morphogenesis of embryonic epithelium;0.0402673533117844;231413!GO:0009952;anterior/posterior pattern formation;0.0402673533117844;231413!GO:0002009;morphogenesis of an epithelium;0.0402673533117844;231413!GO:0003002;regionalization;0.0402673533117844;231413!GO:0048598;embryonic morphogenesis;0.0427327014737304;231413!GO:0007389;pattern specification process;0.0427327014737304;231413!
}}

Latest revision as of 17:58, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:64413876..64413931,-p@chr13:64413876..64413931
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Mm9::chr13:64413936..64413962,-p@chr13:64413936..64413962
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Mm9::chr5:89105136..89105154,-p4@Grsf1
Mm9::chr5:89105160..89105211,-p1@Grsf1


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:0016331morphogenesis of embryonic epithelium0.0402673533117844
GO:0009952anterior/posterior pattern formation0.0402673533117844
GO:0002009morphogenesis of an epithelium0.0402673533117844
GO:0003002regionalization0.0402673533117844
GO:0048598embryonic morphogenesis0.0427327014737304
GO:0007389pattern specification process0.0427327014737304



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
trunk region element6.09e-1679
epithelial tube1.68e-1447
trunk4.58e-1490
immaterial anatomical entity1.80e-1379
subdivision of trunk2.75e-1266
mesenchyme6.12e-1061
entire embryonic mesenchyme6.12e-1061
abdomen element1.35e-0849
abdominal segment element1.35e-0849
abdominal segment of trunk1.35e-0849
abdomen1.35e-0849
compound organ1.36e-0843
exocrine gland2.98e-0825
exocrine system2.98e-0825
liver7.84e-0822
epithelial sac7.84e-0822
digestive gland7.84e-0822
epithelium of foregut-midgut junction7.84e-0822
anatomical boundary7.84e-0822
hepatobiliary system7.84e-0822
foregut-midgut junction7.84e-0822
hepatic diverticulum7.84e-0822
liver primordium7.84e-0822
septum transversum7.84e-0822
liver bud7.84e-0822
digestive tract diverticulum2.34e-0723
sac2.34e-0723
cardiovascular system2.75e-0723
circulatory system2.75e-0723
primary circulatory organ3.90e-0718
heart3.90e-0718
primitive heart tube3.90e-0718
primary heart field3.90e-0718
anterior lateral plate mesoderm3.90e-0718
heart tube3.90e-0718
heart primordium3.90e-0718
cardiac mesoderm3.90e-0718
cardiogenic plate3.90e-0718
heart rudiment3.90e-0718
anatomical space6.38e-0757
primordium6.43e-07134
trunk mesenchyme8.82e-0745


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)
MA0003.11.81465
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.14.01037
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
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.11.35097
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.11.28762
MA0056.10
MA0057.12.80216
MA0058.10.581673
MA0059.10.59559
MA0060.10.403071
MA0061.11.95592
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.552621
MA0074.14.47481
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.201215
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.11.47308
MA0103.10.540576
MA0105.10.841866
MA0106.10.899777
MA0107.11.3208
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.10.497293
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.10.957842
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.11.14526
MA0146.12.17792
MA0147.11.15069
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.29.23955
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.21.77707
MA0047.20.845655
MA0112.22.52766
MA0065.21.79447
MA0150.12.71904
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.263609
MA0155.10.650923
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.11.1762
MA0160.10.71003
MA0161.10
MA0162.13.72407
MA0163.12.23835
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.27.90186
MA0102.21.8929
MA0258.12.82549
MA0259.10.441366
MA0442.10
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