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MCL coexpression mm9:463: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=CL:0000117!3.21e-09!23;CL:0000337!3.21e-09!23;CL:0000540!3.08e-08!33;CL:0000047!3.08e-08!33;CL:0000031!3.08e-08!33;CL:0000404!3.08e-08!33;CL:0000393!4.91e-07!39;CL:0000211!4.91e-07!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!1.11e-25!64;UBERON:0003075!1.11e-25!64;UBERON:0007284!1.11e-25!64;UBERON:0000073!6.47e-23!54;UBERON:0010371!1.10e-22!73;UBERON:0001017!1.83e-22!73;UBERON:0001049!3.18e-22!52;UBERON:0005068!3.18e-22!52;UBERON:0006241!3.18e-22!52;UBERON:0007135!3.18e-22!52;UBERON:0003056!3.82e-22!49;UBERON:0001016!1.85e-21!75;UBERON:0004121!3.08e-21!95;UBERON:0000924!3.08e-21!95;UBERON:0006601!3.08e-21!95;UBERON:0000955!7.77e-20!47;UBERON:0006238!7.77e-20!47;UBERON:0002616!3.15e-19!46;UBERON:0003080!1.41e-18!40;UBERON:0010314!2.69e-18!92;UBERON:0002780!7.12e-18!39;UBERON:0001890!7.12e-18!39;UBERON:0006240!7.12e-18!39;UBERON:0002020!7.63e-15!34;UBERON:0003528!1.08e-12!29;UBERON:0002791!1.08e-12!29;UBERON:0001893!1.08e-12!29;UBERON:0000956!5.86e-09!21;UBERON:0001869!5.86e-09!21;UBERON:0000203!5.86e-09!21;UBERON:0000468!7.91e-09!333;UBERON:0000025!1.08e-08!114;UBERON:0004111!2.09e-08!122;UBERON:0002619!8.74e-08!17;UBERON:0002021!1.54e-07!10;UBERON:0000411!1.54e-07!10;UBERON:0001950!1.54e-07!10;UBERON:0000922!3.45e-07!320
}}

Latest revision as of 15:20, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:63892980..63893029,+p1@2810001G20Rik
Mm9::chr14:58042891..58042930,+p1@Ift88
Mm9::chr15:84867509..84867573,+p1@Fam118a
Mm9::chr15:89422286..89422347,-p1@Rabl2
Mm9::chr16:32099990..32100059,+p2@1500031L02Rik
Mm9::chr16:59638950..59639017,-p1@Arl6
Mm9::chr1:59176923..59176979,-p2@Als2cr4
Mm9::chr1:63319777..63319804,+p2@Zdbf2
Mm9::chr1:88051327..88051396,+p1@Armc9
Mm9::chr2:5816371..5816454,-p1@Sec61a2
Mm9::chr4:10801685..10801754,+p1@2610301B20Rik
Mm9::chr4:12015059..12015158,-p1@Tmem67
Mm9::chr5:141178195..141178275,-p1@Iqce
Mm9::chr5:65590930..65590974,+p1@Wdr19
Mm9::chr6:34730412..34730467,+p1@Agbl3
Mm9::chr9:114549293..114549336,-p2@Cnot10


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)3.21e-0923
neuroblast (sensu Vertebrata)3.21e-0923
neuron3.08e-0833
neuronal stem cell3.08e-0833
neuroblast3.08e-0833
electrically signaling cell3.08e-0833
electrically responsive cell4.91e-0739
electrically active cell4.91e-0739

Uber Anatomy
Ontology termp-valuen
neurectoderm1.11e-2564
neural plate1.11e-2564
presumptive neural plate1.11e-2564
regional part of nervous system6.47e-2354
ecto-epithelium1.10e-2273
central nervous system1.83e-2273
neural tube3.18e-2252
neural rod3.18e-2252
future spinal cord3.18e-2252
neural keel3.18e-2252
pre-chordal neural plate3.82e-2249
nervous system1.85e-2175
ectoderm-derived structure3.08e-2195
ectoderm3.08e-2195
presumptive ectoderm3.08e-2195
brain7.77e-2047
future brain7.77e-2047
regional part of brain3.15e-1946
anterior neural tube1.41e-1840
structure with developmental contribution from neural crest2.69e-1892
regional part of forebrain7.12e-1839
forebrain7.12e-1839
future forebrain7.12e-1839
gray matter7.63e-1534
brain grey matter1.08e-1229
regional part of telencephalon1.08e-1229
telencephalon1.08e-1229
cerebral cortex5.86e-0921
cerebral hemisphere5.86e-0921
pallium5.86e-0921
multi-cellular organism7.91e-09333
tube1.08e-08114
anatomical conduit2.09e-08122
regional part of cerebral cortex8.74e-0817
occipital lobe1.54e-0710
visual cortex1.54e-0710
neocortex1.54e-0710
embryo3.45e-07320


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)
MA0003.11.51351
MA0004.10.631712
MA0006.11.15737
MA0007.10.210531
MA0009.10.599391
MA0014.10.382659
MA0017.10.387005
MA0019.11.10761
MA0024.11.3747
MA0025.10.819843
MA0027.12.21717
MA0028.13.06623
MA0029.10.53905
MA0030.11.34526
MA0031.10.512616
MA0038.10.897243
MA0040.10.611015
MA0041.10.166538
MA0042.10.15744
MA0043.10.689898
MA0046.10.632833
MA0048.10.687863
MA0050.10.251816
MA0051.10.914027
MA0052.10.618515
MA0055.10.0395234
MA0056.10
MA0057.10.0166073
MA0058.10.464825
MA0059.10.161227
MA0060.10.485984
MA0061.10.564632
MA0063.10
MA0066.10.328887
MA0067.10.92691
MA0068.10.0798662
MA0069.10.618831
MA0070.10.609808
MA0071.10.251158
MA0072.10.601934
MA0073.10.00111286
MA0074.10.299171
MA0076.14.9772
MA0077.10.581866
MA0078.10.37382
MA0081.10.177433
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.11.68962
MA0089.10
MA0090.10.196267
MA0091.10.231874
MA0092.10.196497
MA0093.10.752955
MA0095.10
MA0098.10
MA0100.11.43649
MA0101.10.501038
MA0103.10.128989
MA0105.10.881005
MA0106.10.380511
MA0107.10.394565
MA0108.20.454274
MA0109.10
MA0111.10.206727
MA0113.11.6736
MA0114.10.263654
MA0115.10.692537
MA0116.10.344035
MA0117.10.662171
MA0119.10.16785
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.11.09893
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.84684
MA0139.10.0480655
MA0140.10.289637
MA0141.10.437281
MA0142.10.499475
MA0143.10.37032
MA0144.10.95924
MA0145.10.732278
MA0146.10.479142
MA0147.10.599447
MA0148.10.23425
MA0149.10.171305
MA0062.22.82033
MA0035.20.293466
MA0039.20.989198
MA0138.20.423003
MA0002.20.413675
MA0137.20.139909
MA0104.20.783486
MA0047.20.337465
MA0112.20.277674
MA0065.20.136177
MA0150.10.210447
MA0151.10
MA0152.10.337555
MA0153.10.740107
MA0154.10.215016
MA0155.10.824691
MA0156.12.60701
MA0157.10.47062
MA0158.10
MA0159.10.626722
MA0160.10.23657
MA0161.10
MA0162.12.38061
MA0163.10.517288
MA0164.10.315868
MA0080.20.790324
MA0018.20.323932
MA0099.20.417463
MA0079.20.0118288
MA0102.21.29919
MA0258.10.24394
MA0259.10.570812
MA0442.10
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