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MCL coexpression mm9:936: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=}}
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,MA0080.2;0.302064,MA0018.2;0.560731,MA0099.2;0.669311,MA0079.2;0.118858,MA0102.2;1.59466,MA0258.1;0.60477,MA0259.1;0.643936,MA0442.1;0}}

Latest revision as of 16:08, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:55963659..55963678,-p@chr12:55963659..55963678
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Mm9::chr8:47292898..47292953,+p@chr8:47292898..47292953
+
Mm9::chr8:47292948..47292980,-p@chr8:47292948..47292980
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Mm9::chr8:47293792..47293823,-p@chr8:47293792..47293823
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Mm9::chr8:47293871..47293897,-p@chr8:47293871..47293897
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Mm9::chr8:47294410..47294476,-p@chr8:47294410..47294476
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Mm9::chr8:47294492..47294511,-p@chr8:47294492..47294511
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Mm9::chr8:47294593..47294612,-p@chr8:47294593..47294612
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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

no results for this coexpression

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>

Uber Anatomy
Ontology termp-valuen
structure with developmental contribution from neural crest3.44e-2592
central nervous system1.87e-2073
nervous system2.77e-1975
regional part of nervous system2.26e-1754
ectoderm-derived structure1.14e-1695
ectoderm1.14e-1695
presumptive ectoderm1.14e-1695
neurectoderm5.10e-1664
neural plate5.10e-1664
presumptive neural plate5.10e-1664
neural tube6.21e-1652
neural rod6.21e-1652
future spinal cord6.21e-1652
neural keel6.21e-1652
gray matter5.78e-1434
brain3.22e-1347
future brain3.22e-1347
regional part of brain4.88e-1346
ecto-epithelium5.74e-1373
compound organ8.27e-1343
tube7.63e-12114
anatomical conduit1.40e-11122
brain grey matter2.57e-1129
regional part of telencephalon2.57e-1129
telencephalon2.57e-1129
primary circulatory organ3.11e-1118
heart3.11e-1118
primitive heart tube3.11e-1118
primary heart field3.11e-1118
anterior lateral plate mesoderm3.11e-1118
heart tube3.11e-1118
heart primordium3.11e-1118
cardiac mesoderm3.11e-1118
cardiogenic plate3.11e-1118
heart rudiment3.11e-1118
anterior neural tube7.02e-1140
pre-chordal neural plate1.14e-1049
regional part of forebrain1.26e-1039
forebrain1.26e-1039
future forebrain1.26e-1039
cardiovascular system1.12e-0823
circulatory system1.12e-0823
cerebral cortex3.61e-0821
cerebral hemisphere3.61e-0821
pallium3.61e-0821
regional part of cerebral cortex3.17e-0717
occipital lobe9.25e-0710
visual cortex9.25e-0710
neocortex9.25e-0710


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)
MA0003.11.1343
MA0004.10.434673
MA0006.10.271714
MA0007.10.419994
MA0009.10.870101
MA0014.10.0611475
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.281528
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.360875
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.11.13456
MA0050.10.472794
MA0051.11.43259
MA0052.10.890676
MA0055.10.282934
MA0056.10
MA0057.10.31126
MA0058.10.90507
MA0059.10.931383
MA0060.10.197678
MA0061.11.19505
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.0965831
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.12.02638
MA0073.10.0216016
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.853781
MA0089.10
MA0090.11.82869
MA0091.10.447561
MA0092.11.03695
MA0093.10.787675
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.307078
MA0105.10.41549
MA0106.11.51778
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.10.222763
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.362692
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.11.63575
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.169849
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.11.19766
MA0145.10.0701568
MA0146.10.946874
MA0147.10.236889
MA0148.10.450593
MA0149.10.367458
MA0062.20.137653
MA0035.20.524137
MA0039.20.144815
MA0138.20.675599
MA0002.20.513194
MA0137.20.32312
MA0104.20.54394
MA0047.20.576767
MA0112.20.0701537
MA0065.20.0704227
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.100744
MA0155.10.275377
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.11.276
MA0160.10.453546
MA0161.10
MA0162.10.439322
MA0163.10.991519
MA0164.10.551114
MA0080.20.302064
MA0018.20.560731
MA0099.20.669311
MA0079.20.118858
MA0102.21.59466
MA0258.10.60477
MA0259.10.643936
MA0442.10
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