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MCL coexpression mm9:593: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000540!2.00e-20!33;CL:0000047!2.00e-20!33;CL:0000031!2.00e-20!33;CL:0000404!2.00e-20!33;CL:0000221!9.27e-20!44;CL:0000133!9.27e-20!44;CL:0002319!1.75e-19!43;CL:0000055!2.21e-14!49;CL:0000393!2.80e-14!39;CL:0000211!2.80e-14!39;CL:0000117!5.70e-14!23;CL:0000337!5.70e-14!23;CL:0000107!1.13e-07!9
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!2.45e-36!95;UBERON:0000924!2.45e-36!95;UBERON:0006601!2.45e-36!95;UBERON:0001016!4.67e-36!75;UBERON:0001017!1.97e-35!73;UBERON:0002346!6.29e-29!64;UBERON:0003075!6.29e-29!64;UBERON:0007284!6.29e-29!64;UBERON:0010371!6.23e-27!73;UBERON:0000073!1.06e-24!54;UBERON:0001049!1.28e-23!52;UBERON:0005068!1.28e-23!52;UBERON:0006241!1.28e-23!52;UBERON:0007135!1.28e-23!52;UBERON:0003056!9.38e-22!49;UBERON:0000955!1.11e-20!47;UBERON:0006238!1.11e-20!47;UBERON:0002616!3.52e-20!46;UBERON:0010314!3.65e-20!92;UBERON:0003080!4.29e-19!40;UBERON:0002780!1.29e-18!39;UBERON:0001890!1.29e-18!39;UBERON:0006240!1.29e-18!39;UBERON:0002020!1.86e-18!34;UBERON:0003528!1.22e-15!29;UBERON:0002791!1.22e-15!29;UBERON:0001893!1.22e-15!29;UBERON:0000956!3.92e-11!21;UBERON:0001869!3.92e-11!21;UBERON:0000203!3.92e-11!21;UBERON:0002619!1.16e-08!17;UBERON:0000010!6.79e-08!11;UBERON:0002410!1.13e-07!9;UBERON:0000468!9.03e-07!333
}}

Latest revision as of 15:34, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:28863919..28863932,+p3@6330407J23Rik
Mm9::chr10:28863935..28863970,+p2@6330407J23Rik
Mm9::chr10:52410302..52410360,+p1@Slc35f1
Mm9::chr10:52410380..52410392,+p2@Slc35f1
Mm9::chr15:76648523..76648604,-p1@Arhgap39
Mm9::chr2:181501822..181501834,+p8@Myt1
Mm9::chr3:153636455..153636484,+p2@Slc44a5
Mm9::chr3:153636589..153636654,+p1@Slc44a5
Mm9::chr4:125167652..125167700,+p1@Grik3
Mm9::chr4:125167712..125167737,+p2@Grik3
Mm9::chr4:125167932..125167948,+p3@Grik3
Mm9::chrX:162784541..162784544,+p@chrX:162784541..162784544
+


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
ectoderm-derived structure2.45e-3695
ectoderm2.45e-3695
presumptive ectoderm2.45e-3695
nervous system4.67e-3675
central nervous system1.97e-3573
neurectoderm6.29e-2964
neural plate6.29e-2964
presumptive neural plate6.29e-2964
ecto-epithelium6.23e-2773
regional part of nervous system1.06e-2454
neural tube1.28e-2352
neural rod1.28e-2352
future spinal cord1.28e-2352
neural keel1.28e-2352
pre-chordal neural plate9.38e-2249
brain1.11e-2047
future brain1.11e-2047
regional part of brain3.52e-2046
structure with developmental contribution from neural crest3.65e-2092
anterior neural tube4.29e-1940
regional part of forebrain1.29e-1839
forebrain1.29e-1839
future forebrain1.29e-1839
gray matter1.86e-1834
brain grey matter1.22e-1529
regional part of telencephalon1.22e-1529
telencephalon1.22e-1529
cerebral cortex3.92e-1121
cerebral hemisphere3.92e-1121
pallium3.92e-1121
regional part of cerebral cortex1.16e-0817
peripheral nervous system6.79e-0811
autonomic nervous system1.13e-079
multi-cellular organism9.03e-07333


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)
MA0003.13.0268
MA0004.10.303605
MA0006.10.960584
MA0007.10.290695
MA0009.10.709264
MA0014.13.37192
MA0017.10.186015
MA0019.12.27853
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.10.173587
MA0029.10.64639
MA0030.10.65267
MA0031.10.618697
MA0038.11.1047
MA0040.10.721328
MA0041.10.239557
MA0042.10.228771
MA0043.10.802848
MA0046.10.743934
MA0048.11.99126
MA0050.10.895831
MA0051.10.440863
MA0052.10.729105
MA0055.10.624457
MA0056.10
MA0057.11.40292
MA0058.10.223242
MA0059.10.233271
MA0060.10.351437
MA0061.10.40468
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.10.361347
MA0069.10.729433
MA0070.10.720077
MA0071.10.336739
MA0072.10.711905
MA0073.11.08169
MA0074.10.390075
MA0076.10.200996
MA0077.10.691048
MA0078.10.471303
MA0081.10.702944
MA0083.10.802078
MA0084.11.3693
MA0087.10.760279
MA0088.10.459114
MA0089.10
MA0090.10.27428
MA0091.10.315003
MA0092.11.38104
MA0093.10.179936
MA0095.10
MA0098.10
MA0100.10.989129
MA0101.10.240622
MA0103.10.566591
MA0105.11.78401
MA0106.10.478503
MA0107.11.05738
MA0108.20.557195
MA0109.10
MA0111.10.78079
MA0113.10.452439
MA0114.10.127366
MA0115.10.805567
MA0116.10.496352
MA0117.10.774259
MA0119.10.241106
MA0122.10.793507
MA0124.10.992825
MA0125.10.920215
MA0130.10
MA0131.10.531427
MA0132.10
MA0133.10
MA0135.10.838263
MA0136.10.408073
MA0139.13.42485
MA0140.10.379562
MA0141.10.210047
MA0142.10.604892
MA0143.10.467531
MA0144.10.129525
MA0145.10.494714
MA0146.10.0622241
MA0147.10.428193
MA0148.10.851609
MA0149.10.245177
MA0062.20.235333
MA0035.20.383789
MA0039.20.701947
MA0138.20.523978
MA0002.20.0901987
MA0137.20.207733
MA0104.20.326825
MA0047.21.10318
MA0112.20.025769
MA0065.20.265926
MA0150.10.290598
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.670722
MA0155.11.71283
MA0156.11.09965
MA0157.10.574484
MA0158.10
MA0159.10.145521
MA0160.10.320315
MA0161.10
MA0162.13.53049
MA0163.10.069011
MA0164.10.408402
MA0080.20.556674
MA0018.20.417217
MA0099.20.518072
MA0079.24.18363
MA0102.21.42135
MA0258.10.376353
MA0259.10.408856
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:593&oldid=3072592"