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MCL coexpression mm9:980: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
}}

Latest revision as of 16:12, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr1:134530782..134530799,-p@chr1:134530782..134530799
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Mm9::chr1:75252424..75252442,-p@chr1:75252424..75252442
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Mm9::chrX:7497133..7497146,+p@chrX:7497133..7497146
+
Mm9::chrX:7499420..7499445,+p@chrX:7499420..7499445
+
Mm9::chrX:7499446..7499477,+p@chrX:7499446..7499477
+
Mm9::chrX:7499494..7499535,+p@chrX:7499494..7499535
+
Mm9::chrX:7499540..7499554,+p@chrX:7499540..7499554
+
Mm9::chrX:7500068..7500101,+p@chrX:7500068..7500101
+


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
central nervous system9.19e-3673
nervous system5.36e-3575
regional part of nervous system2.63e-3154
neurectoderm1.39e-3064
neural plate1.39e-3064
presumptive neural plate1.39e-3064
neural tube2.12e-2952
neural rod2.12e-2952
future spinal cord2.12e-2952
neural keel2.12e-2952
ectoderm-derived structure4.27e-2995
ectoderm4.27e-2995
presumptive ectoderm4.27e-2995
brain3.82e-2547
future brain3.82e-2547
regional part of brain1.99e-2446
ecto-epithelium7.05e-2473
pre-chordal neural plate7.40e-2449
anterior neural tube5.70e-2340
regional part of forebrain3.91e-2239
forebrain3.91e-2239
future forebrain3.91e-2239
structure with developmental contribution from neural crest4.67e-2192
gray matter1.45e-1934
brain grey matter8.60e-1629
regional part of telencephalon8.60e-1629
telencephalon8.60e-1629
cerebral cortex1.77e-1021
cerebral hemisphere1.77e-1021
pallium1.77e-1021
regional part of cerebral cortex6.29e-0917
occipital lobe1.04e-0710
visual cortex1.04e-0710
neocortex1.04e-0710
diencephalon2.72e-0710
future diencephalon2.72e-0710
posterior neural tube7.11e-0712
chordal neural plate7.11e-0712


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)
MA0003.11.45843
MA0004.10.434673
MA0006.12.93377
MA0007.12.82606
MA0009.10.870101
MA0014.10.548455
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.11.40661
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
MA0048.17.91128
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.14.48456
MA0056.10
MA0057.10.31126
MA0058.10.341628
MA0059.10.931383
MA0060.10.197678
MA0061.11.19505
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.657844
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.11.38205
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.11.50158
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.11.29043
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.950493
MA0103.10.827743
MA0105.10.823589
MA0106.10.626997
MA0107.10.814533
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.11.85023
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.362692
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.506952
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.0701568
MA0146.10.198184
MA0147.11.24068
MA0148.10.450593
MA0149.10.367458
MA0062.20.84271
MA0035.20.524137
MA0039.20.812684
MA0138.21.61926
MA0002.20.513194
MA0137.20.32312
MA0104.21.03907
MA0047.20.576767
MA0112.20.2464
MA0065.21.35639
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.330759
MA0155.10.978338
MA0156.10.843735
MA0157.10.729116
MA0158.10
MA0159.10.246253
MA0160.10.453546
MA0161.10
MA0162.10.0925951
MA0163.13.33731
MA0164.10.551114
MA0080.20.816435
MA0018.20.560731
MA0099.20.669311
MA0079.21.39218
MA0102.21.59466
MA0258.10.210437
MA0259.11.87317
MA0442.10
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