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MCL coexpression mm9:422: Difference between revisions

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{{MCL_coexpression_mm9
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filament;0.000326876098614358;239673,68239!GO:0045111;intermediate filament cytoskeleton;0.000326876098614358;239673,68239!GO:0044430;cytoskeletal part;0.00405038207043356;239673,68239!GO:0005856;cytoskeleton;0.00829596680278759;239673,68239!GO:0043228;non-membrane-bound organelle;0.0160504418866585;239673,68239!GO:0043232;intracellular non-membrane-bound organelle;0.0160504418866585;239673,68239!GO:0044446;intracellular organelle part;0.0296300689162874;239673,68239!GO:0044422;organelle 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|gostat_on_MCL_coexpression=GO:0005882;intermediate filament;0.000326876098614358;239673,68239!GO:0045111;intermediate filament cytoskeleton;0.000326876098614358;239673,68239!GO:0044430;cytoskeletal part;0.00405038207043356;239673,68239!GO:0005856;cytoskeleton;0.00829596680278759;239673,68239!GO:0043228;non-membrane-bound organelle;0.0160504418866585;239673,68239!GO:0043232;intracellular non-membrane-bound organelle;0.0160504418866585;239673,68239!GO:0044446;intracellular organelle part;0.0296300689162874;239673,68239!GO:0044422;organelle part;0.0296300689162874;239673,68239!
}}

Latest revision as of 15:16, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:100131211..100131215,-p1@Krt42
Mm9::chr11:99246593..99246617,-p@chr11:99246593..99246617
-
Mm9::chr11:99246901..99246915,+p@chr11:99246901..99246915
+
Mm9::chr11:99250054..99250067,+p@chr11:99250054..99250067
+
Mm9::chr11:99250361..99250376,+p@chr11:99250361..99250376
+
Mm9::chr15:101393320..101393323,-p1@4732456N10Rik
Mm9::chr15:101675900..101675918,-p@chr15:101675900..101675918
-
Mm9::chr15:101680554..101680565,+p@chr15:101680554..101680565
+
Mm9::chr15:101680574..101680595,+p@chr15:101680574..101680595
+
Mm9::chr16:36359583..36359596,-p@chr16:36359583..36359596
-
Mm9::chr16:36367620..36367637,-p1@BC100530
Mm9::chr16:36450651..36450667,-p@chr16:36450651..36450667
-
Mm9::chr16:89141129..89141134,+p1@Gm2683
Mm9::chr18:44231044..44231056,+p1@Spink6
Mm9::chr18:44275843..44275850,+p@chr18:44275843..44275850
+
Mm9::chr18:76203933..76203938,-p@chr18:76203933..76203938
-
Mm9::chr2:92868100..92868114,+p1@ENSMUST00000111270
p1@ENSMUST00000136401
p1@uc008lfp.1
p1@uc012bzq.1
Mm9::chr3:59756057..59756089,+p1@Gm9696


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:0005882intermediate filament0.000326876098614358
GO:0045111intermediate filament cytoskeleton0.000326876098614358
GO:0044430cytoskeletal part0.00405038207043356
GO:0005856cytoskeleton0.00829596680278759
GO:0043228non-membrane-bound organelle0.0160504418866585
GO:0043232intracellular non-membrane-bound organelle0.0160504418866585
GO:0044446intracellular organelle part0.0296300689162874
GO:0044422organelle part0.0296300689162874



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
zone of skin3.83e-115
skin epidermis3.83e-115
skin of body3.83e-115
integument3.83e-115
surface3.83e-115
outer epithelium3.83e-115
integumental system3.83e-115
enveloping layer of ectoderm3.83e-115
surface structure5.16e-0822


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)
MA0003.10.000367447
MA0004.10.191582
MA0006.10.0854592
MA0007.10.181021
MA0009.10.5557
MA0014.10.000149633
MA0017.10.328722
MA0019.10.394308
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.10.0910441
MA0029.10.496599
MA0030.10.502474
MA0031.10.470779
MA0038.10.301835
MA0040.10.567108
MA0041.10.140298
MA0042.10.131965
MA0043.10.644695
MA0046.10.58854
MA0048.10.0131913
MA0050.10.219748
MA0051.10.309072
MA0052.10.574473
MA0055.10.00632122
MA0056.10
MA0057.10.0109462
MA0058.10.127732
MA0059.10.13543
MA0060.10.0476793
MA0061.10.060618
MA0063.10
MA0066.10.293002
MA0067.10.879099
MA0068.10.0116947
MA0069.10.574784
MA0070.11.38939
MA0071.11.17286
MA0072.11.37306
MA0073.10.0275581
MA0074.10.264633
MA0076.10.110983
MA0077.11.33139
MA0078.10.336143
MA0081.10.458627
MA0083.10.643958
MA0084.11.1979
MA0087.11.46972
MA0088.10.185982
MA0089.10
MA0090.10.167748
MA0091.10.200988
MA0092.10.167962
MA0093.10.316906
MA0095.10
MA0098.10
MA0100.10.255651
MA0101.10.141127
MA0103.10.345124
MA0105.10.0222933
MA0106.10.342589
MA0107.10.102611
MA0108.21.87232
MA0109.10
MA0111.10.525581
MA0113.10.319332
MA0114.10.0595575
MA0115.10.647296
MA0116.10.288992
MA0117.10.617392
MA0119.10.141504
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.10.390422
MA0132.10
MA0133.10
MA0135.10.67864
MA0136.10.280269
MA0139.10.0357525
MA0140.10.710317
MA0141.10.11774
MA0142.11.15933
MA0143.11.59073
MA0144.10.478562
MA0145.10.0967733
MA0146.10.0100022
MA0147.10.0666796
MA0148.10.203219
MA0149.11.40541
MA0062.20.102085
MA0035.20.718714
MA0039.20.000301019
MA0138.20.383644
MA0002.20.611367
MA0137.20.747445
MA0104.20.0420926
MA0047.20.301217
MA0112.20.0329313
MA0065.20.0973139
MA0150.11.02262
MA0151.10
MA0152.10.814717
MA0153.10.694211
MA0154.10.0127415
MA0155.10.118163
MA0156.10.356573
MA0157.10.429861
MA0158.10
MA0159.10.0715631
MA0160.10.592791
MA0161.10
MA0162.10.00359771
MA0163.10.000347337
MA0164.10.280556
MA0080.20.337091
MA0018.20.288261
MA0099.20.37828
MA0079.22.88859e-11
MA0102.21.24942
MA0258.10.197969
MA0259.10.0616796
MA0442.10
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