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MCL coexpression mm9:782: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0043422;protein kinase B binding;0.0352818714731825;108686!GO:0032148;activation of protein kinase B;0.0352818714731825;108686!
|ontology_enrichment_celltype=CL:0000540!2.58e-11!33;CL:0000047!2.58e-11!33;CL:0000031!2.58e-11!33;CL:0000404!2.58e-11!33;CL:0000117!1.34e-10!23;CL:0000337!1.34e-10!23;CL:0000393!8.20e-08!39;CL:0000211!8.20e-08!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!7.33e-22!64;UBERON:0003075!7.33e-22!64;UBERON:0007284!7.33e-22!64;UBERON:0010371!3.02e-19!73;UBERON:0003056!1.07e-18!49;UBERON:0001017!3.06e-18!73;UBERON:0000073!4.11e-18!54;UBERON:0004121!9.13e-18!95;UBERON:0000924!9.13e-18!95;UBERON:0006601!9.13e-18!95;UBERON:0001049!2.28e-17!52;UBERON:0005068!2.28e-17!52;UBERON:0006241!2.28e-17!52;UBERON:0007135!2.28e-17!52;UBERON:0001016!2.49e-17!75;UBERON:0010314!3.01e-15!92;UBERON:0000955!7.90e-15!47;UBERON:0006238!7.90e-15!47;UBERON:0002020!9.42e-15!34;UBERON:0003080!1.73e-14!40;UBERON:0002616!3.41e-14!46;UBERON:0002780!5.96e-14!39;UBERON:0001890!5.96e-14!39;UBERON:0006240!5.96e-14!39;UBERON:0003528!3.72e-12!29;UBERON:0002791!3.72e-12!29;UBERON:0001893!3.72e-12!29;UBERON:0000956!2.05e-08!21;UBERON:0001869!2.05e-08!21;UBERON:0000203!2.05e-08!21;UBERON:0002619!4.04e-07!17;UBERON:0002021!4.10e-07!10;UBERON:0000411!4.10e-07!10;UBERON:0001950!4.10e-07!10
}}

Latest revision as of 15:52, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:29273590..29273613,+p2@Ccdc88a
Mm9::chr11:29273618..29273723,+p1@Ccdc88a
Mm9::chr14:57397138..57397189,-p1@Pspc1
Mm9::chr1:33871252..33871313,-p2@Zfp451
Mm9::chr2:6243667..6243693,+p2@Usp6nl
Mm9::chr3:119486180..119486230,-p1@Ptbp2
Mm9::chr3:94217166..94217218,+p1@Tdrkh
Mm9::chr4:83132319..83132343,-p1@Psip1
Mm9::chrX:9793811..9793891,-p1@Rpgr


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:0043422protein kinase B binding0.0352818714731825
GO:0032148activation of protein kinase B0.0352818714731825



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
neuron2.58e-1133
neuronal stem cell2.58e-1133
neuroblast2.58e-1133
electrically signaling cell2.58e-1133
CNS neuron (sensu Vertebrata)1.34e-1023
neuroblast (sensu Vertebrata)1.34e-1023
electrically responsive cell8.20e-0839
electrically active cell8.20e-0839

Uber Anatomy
Ontology termp-valuen
neurectoderm7.33e-2264
neural plate7.33e-2264
presumptive neural plate7.33e-2264
ecto-epithelium3.02e-1973
pre-chordal neural plate1.07e-1849
central nervous system3.06e-1873
regional part of nervous system4.11e-1854
ectoderm-derived structure9.13e-1895
ectoderm9.13e-1895
presumptive ectoderm9.13e-1895
neural tube2.28e-1752
neural rod2.28e-1752
future spinal cord2.28e-1752
neural keel2.28e-1752
nervous system2.49e-1775
structure with developmental contribution from neural crest3.01e-1592
brain7.90e-1547
future brain7.90e-1547
gray matter9.42e-1534
anterior neural tube1.73e-1440
regional part of brain3.41e-1446
regional part of forebrain5.96e-1439
forebrain5.96e-1439
future forebrain5.96e-1439
brain grey matter3.72e-1229
regional part of telencephalon3.72e-1229
telencephalon3.72e-1229
cerebral cortex2.05e-0821
cerebral hemisphere2.05e-0821
pallium2.05e-0821
regional part of cerebral cortex4.04e-0717
occipital lobe4.10e-0710
visual cortex4.10e-0710
neocortex4.10e-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)
MA0003.13.51844
MA0004.10.394951
MA0006.11.24699
MA0007.10.38073
MA0009.10.82278
MA0014.12.09919
MA0017.10.26239
MA0019.10.642876
MA0024.10.779446
MA0025.11.05446
MA0027.12.46647
MA0028.11.28203
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.10.534262
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.12.03411
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.11.02213
MA0056.10
MA0057.10.258928
MA0058.10.305206
MA0059.10.849123
MA0060.10.505012
MA0061.10.194456
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.266547
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.10.0217447
MA0074.10.488775
MA0076.10.279739
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.11.11906
MA0089.10
MA0090.10.362551
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.11.20151
MA0101.10.324888
MA0103.10.748482
MA0105.10.35523
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.11.74164
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.238371
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.11.54167
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.13.45591
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.195095
MA0145.10.200183
MA0146.10.77944
MA0147.11.75741
MA0148.10.410398
MA0149.10.330018
MA0062.20.365726
MA0035.20.482026
MA0039.20.618828
MA0138.20.630612
MA0002.20.145685
MA0137.20.287486
MA0104.22.12419
MA0047.20.533516
MA0112.20.771888
MA0065.20.200864
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.276788
MA0155.10.490492
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.16.14973
MA0163.10.820439
MA0164.10.508398
MA0080.20.267388
MA0018.20.51781
MA0099.20.624421
MA0079.21.52717
MA0102.21.5442
MA0258.10.533988
MA0259.11.08444
MA0442.10
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