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MCL coexpression mm9:708: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!6.24e-17!23;CL:0000337!6.24e-17!23;CL:0000540!1.88e-11!33;CL:0000047!1.88e-11!33;CL:0000031!1.88e-11!33;CL:0000404!1.88e-11!33;CL:0000393!3.75e-08!39;CL:0000211!3.75e-08!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!3.56e-30!54;UBERON:0002346!6.99e-30!64;UBERON:0003075!6.99e-30!64;UBERON:0007284!6.99e-30!64;UBERON:0001049!3.98e-28!52;UBERON:0005068!3.98e-28!52;UBERON:0006241!3.98e-28!52;UBERON:0007135!3.98e-28!52;UBERON:0001017!7.03e-26!73;UBERON:0010371!8.08e-26!73;UBERON:0003056!9.29e-26!49;UBERON:0000955!1.14e-24!47;UBERON:0006238!1.14e-24!47;UBERON:0001016!1.58e-24!75;UBERON:0003080!3.75e-24!40;UBERON:0002616!6.15e-24!46;UBERON:0002780!2.30e-23!39;UBERON:0001890!2.30e-23!39;UBERON:0006240!2.30e-23!39;UBERON:0002020!4.38e-23!34;UBERON:0004121!3.45e-22!95;UBERON:0000924!3.45e-22!95;UBERON:0006601!3.45e-22!95;UBERON:0010314!2.02e-20!92;UBERON:0003528!1.27e-19!29;UBERON:0002791!1.27e-19!29;UBERON:0001893!1.27e-19!29;UBERON:0000956!1.34e-13!21;UBERON:0001869!1.34e-13!21;UBERON:0000203!1.34e-13!21;UBERON:0002619!3.76e-11!17;UBERON:0002021!7.24e-10!10;UBERON:0000411!7.24e-10!10;UBERON:0001950!7.24e-10!10;UBERON:0002420!2.98e-07!8;UBERON:0007245!2.98e-07!8;UBERON:0010009!2.98e-07!8;UBERON:0010011!2.98e-07!8;UBERON:0000454!2.98e-07!8
}}

Latest revision as of 15:45, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:36491274..36491288,-p6@Odz2
Mm9::chr14:122138275..122138292,-p13@Dock9
Mm9::chr3:152636592..152636604,-p@chr3:152636592..152636604
-
Mm9::chr3:152645151..152645180,-p1@St6galnac5
Mm9::chr3:152645204..152645215,-p2@St6galnac5
Mm9::chr3:54719736..54719749,-p3@6030405A18Rik
Mm9::chr3:54719789..54719806,-p1@6030405A18Rik
Mm9::chr3:54719907..54719943,-p2@6030405A18Rik
Mm9::chr6:138369900..138369926,-p5@Lmo3
Mm9::chr7:3390971..3391049,+p@chr7:3390971..3391049
+


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
CNS neuron (sensu Vertebrata)6.24e-1723
neuroblast (sensu Vertebrata)6.24e-1723
neuron1.88e-1133
neuronal stem cell1.88e-1133
neuroblast1.88e-1133
electrically signaling cell1.88e-1133
electrically responsive cell3.75e-0839
electrically active cell3.75e-0839

Uber Anatomy
Ontology termp-valuen
regional part of nervous system3.56e-3054
neurectoderm6.99e-3064
neural plate6.99e-3064
presumptive neural plate6.99e-3064
neural tube3.98e-2852
neural rod3.98e-2852
future spinal cord3.98e-2852
neural keel3.98e-2852
central nervous system7.03e-2673
ecto-epithelium8.08e-2673
pre-chordal neural plate9.29e-2649
brain1.14e-2447
future brain1.14e-2447
nervous system1.58e-2475
anterior neural tube3.75e-2440
regional part of brain6.15e-2446
regional part of forebrain2.30e-2339
forebrain2.30e-2339
future forebrain2.30e-2339
gray matter4.38e-2334
ectoderm-derived structure3.45e-2295
ectoderm3.45e-2295
presumptive ectoderm3.45e-2295
structure with developmental contribution from neural crest2.02e-2092
brain grey matter1.27e-1929
regional part of telencephalon1.27e-1929
telencephalon1.27e-1929
cerebral cortex1.34e-1321
cerebral hemisphere1.34e-1321
pallium1.34e-1321
regional part of cerebral cortex3.76e-1117
occipital lobe7.24e-1010
visual cortex7.24e-1010
neocortex7.24e-1010
basal ganglion2.98e-078
nuclear complex of neuraxis2.98e-078
aggregate regional part of brain2.98e-078
collection of basal ganglia2.98e-078
cerebral subcortex2.98e-078


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)
MA0003.10.0568289
MA0004.10.946922
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.189966
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.291712
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.509074
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.344
MA0056.10
MA0057.10.817159
MA0058.10.752621
MA0059.10.777514
MA0060.10.8754
MA0061.10.973999
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.484739
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.460904
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.34573
MA0089.10
MA0090.10.877277
MA0091.10.372635
MA0092.10.329444
MA0093.10.642324
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.67982
MA0105.11.56265
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.167085
MA0115.10.878749
MA0116.10.210297
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.10.772315
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.10.371997
MA0146.10.0389394
MA0147.10.530496
MA0148.10.375491
MA0149.10.2978
MA0062.20.0948004
MA0035.20.44524
MA0039.20.0609996
MA0138.20.590987
MA0002.20.391079
MA0137.20.257017
MA0104.20.418613
MA0047.20.495607
MA0112.20.0422488
MA0065.20.163769
MA0150.10.916186
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.232525
MA0155.10.732931
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.10.378276
MA0161.10
MA0162.10.0488928
MA0163.10.252535
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.21.09834
MA0102.21.49914
MA0258.10.156336
MA0259.10.50935
MA0442.10
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