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MCL coexpression mm9:1467: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=}}
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Latest revision as of 16:58, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr5:14025267..14025291,+p5@Sema3e
Mm9::chr5:14025305..14025327,+p3@Sema3e
Mm9::chr5:14025338..14025373,+p2@Sema3e
Mm9::chr5:14025416..14025472,+p1@Sema3e
Mm9::chr5:14025474..14025488,+p6@Sema3e
Mm9::chr5:14025609..14025625,+p4@Sema3e


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>

Cell Type
Ontology termp-valuen
ectodermal cell6.07e-0744
neurectodermal cell6.07e-0744
non-terminally differentiated cell9.69e-0749

Uber Anatomy
Ontology termp-valuen
ectoderm-derived structure3.33e-1995
ectoderm3.33e-1995
presumptive ectoderm3.33e-1995
nervous system1.10e-1675
central nervous system2.56e-1673
ecto-epithelium3.13e-1473
neurectoderm6.54e-1264
neural plate6.54e-1264
presumptive neural plate6.54e-1264
regional part of nervous system1.26e-1054
brain4.06e-1047
future brain4.06e-1047
neural tube8.64e-1052
neural rod8.64e-1052
future spinal cord8.64e-1052
neural keel8.64e-1052
regional part of brain1.30e-0946
lung2.42e-0914
respiratory tube2.42e-0914
respiration organ2.42e-0914
pair of lungs2.42e-0914
lung primordium2.42e-0914
lung bud2.42e-0914
pre-chordal neural plate4.69e-0949
thoracic cavity element5.91e-0917
thoracic segment organ5.91e-0917
thoracic cavity5.91e-0917
thoracic segment of trunk5.91e-0917
respiratory primordium5.91e-0917
endoderm of foregut5.91e-0917
epithelial fold6.10e-0920
anterior neural tube1.64e-0840
regional part of forebrain3.73e-0839
forebrain3.73e-0839
future forebrain3.73e-0839
epithelial bud2.67e-0717
structure with developmental contribution from neural crest2.90e-0792
brain grey matter9.74e-0729
regional part of telencephalon9.74e-0729
telencephalon9.74e-0729


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)
MA0003.10.04894
MA0004.13.35456
MA0006.10.359699
MA0007.10.52077
MA0009.10.987341
MA0014.10.0315641
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.370592
MA0029.10.920529
MA0030.10.927235
MA0031.13.40681
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.10.443591
MA0043.11.08567
MA0046.11.02391
MA0048.10.161427
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.0585191
MA0056.10
MA0057.10.149949
MA0058.13.94958
MA0059.12.96156
MA0060.10.275911
MA0061.10.307097
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.00638767
MA0074.10.638014
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.111145
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.13.60927
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.11.72386
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.11.2824
MA0113.10.708789
MA0114.10.304661
MA0115.11.08851
MA0116.10.359483
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.12.53503
MA0136.10.658622
MA0139.10.243463
MA0140.10.625902
MA0141.10.419361
MA0142.16.35774
MA0143.12.8893
MA0144.19.72937
MA0145.10.761789
MA0146.10.635245
MA0147.13.24836
MA0148.10.553294
MA0149.10.464445
MA0062.20.204999
MA0035.20.630778
MA0039.20.525037
MA0138.20.788113
MA0002.20.246463
MA0137.29.90583
MA0104.22.86466
MA0047.20.685741
MA0112.23.91625
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.159217
MA0155.10.132921
MA0156.10.406559
MA0157.13.25835
MA0158.10
MA0159.14.30149
MA0160.10.556423
MA0161.10
MA0162.10.0465447
MA0163.10.0423021
MA0164.10.658997
MA0080.22.70103
MA0018.20.669032
MA0099.20.781628
MA0079.20.0520572
MA0102.21.7182
MA0258.13.05667
MA0259.12.29705
MA0442.10
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