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MCL coexpression mm9:487: Difference between revisions

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{{MCL_coexpression_mm9
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of signal transduction;0.0227247792029203;21858,13805!GO:0030814;regulation of cAMP metabolic process;0.0227247792029203;21858!GO:0008191;metalloendopeptidase inhibitor activity;0.0227247792029203;21858!GO:0030799;regulation of cyclic nucleotide metabolic process;0.0227247792029203;21858!GO:0017015;regulation of transforming growth factor beta receptor signaling pathway;0.0227247792029203;13805!GO:0006140;regulation of nucleotide metabolic process;0.0227247792029203;21858!GO:0043408;regulation of MAPKKK cascade;0.0333077639652004;21858!GO:0046058;cAMP metabolic process;0.0333077639652004;21858!GO:0005178;integrin binding;0.0333077639652004;21858!GO:0045664;regulation of neuron differentiation;0.0367798578299882;21858!GO:0009187;cyclic nucleotide metabolic 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|gostat_on_MCL_coexpression=GO:0009966;regulation of signal transduction;0.0227247792029203;21858,13805!GO:0030814;regulation of cAMP metabolic process;0.0227247792029203;21858!GO:0008191;metalloendopeptidase inhibitor activity;0.0227247792029203;21858!GO:0030799;regulation of cyclic nucleotide metabolic process;0.0227247792029203;21858!GO:0017015;regulation of transforming growth factor beta receptor signaling pathway;0.0227247792029203;13805!GO:0006140;regulation of nucleotide metabolic process;0.0227247792029203;21858!GO:0043408;regulation of MAPKKK cascade;0.0333077639652004;21858!GO:0046058;cAMP metabolic process;0.0333077639652004;21858!GO:0005178;integrin binding;0.0333077639652004;21858!GO:0045664;regulation of neuron differentiation;0.0367798578299882;21858!GO:0009187;cyclic nucleotide metabolic process;0.0457949130069618;21858!
|ontology_enrichment_celltype=CL:0000055!2.56e-11!49;CL:0002319!3.91e-08!43;CL:0000221!6.35e-08!44;CL:0000133!6.35e-08!44;CL:0000333!9.06e-07!10;CL:0000095!9.06e-07!10;CL:0000243!9.06e-07!10;CL:0000123!9.06e-07!10;CL:0000125!9.06e-07!10;CL:0000030!9.06e-07!10;CL:0000339!9.06e-07!10
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!3.64e-14!95;UBERON:0000924!3.64e-14!95;UBERON:0006601!3.64e-14!95;UBERON:0001016!3.06e-13!75;UBERON:0001017!8.63e-13!73;UBERON:0010314!1.79e-08!92;UBERON:0010371!2.63e-08!73;UBERON:0002346!5.55e-08!64;UBERON:0003075!5.55e-08!64;UBERON:0007284!5.55e-08!64;UBERON:0000073!1.57e-07!54;UBERON:0001049!5.17e-07!52;UBERON:0005068!5.17e-07!52;UBERON:0006241!5.17e-07!52;UBERON:0007135!5.17e-07!52
}}

Latest revision as of 15:23, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:118162901..118162927,-p@chr11:118162901..118162927
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Mm9::chr11:118163704..118163718,-p@chr11:118163704..118163718
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Mm9::chr11:118163721..118163737,-p@chr11:118163721..118163737
-
Mm9::chr11:118164101..118164114,-p@chr11:118164101..118164114
-
Mm9::chr11:118164239..118164253,-p@chr11:118164239..118164253
-
Mm9::chr11:118164803..118164838,-p@chr11:118164803..118164838
-
Mm9::chr11:118164951..118164973,-p@chr11:118164951..118164973
-
Mm9::chr11:118165049..118165059,-p@chr11:118165049..118165059
-
Mm9::chr11:118171948..118171959,-p@chr11:118171948..118171959
-
Mm9::chr11:118178793..118178819,-p@chr11:118178793..118178819
-
Mm9::chr11:118216631..118216648,-p1@Timp2
Mm9::chr15:78004356..78004377,-p3@Ift27
Mm9::chr1:64663727..64663812,-p1@Mettl21a
Mm9::chr2:32535786..32535820,+p@chr2:32535786..32535820
+
Mm9::chr3:137286995..137287026,+p3@Ddit4l


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:0009966regulation of signal transduction0.0227247792029203
GO:0030814regulation of cAMP metabolic process0.0227247792029203
GO:0008191metalloendopeptidase inhibitor activity0.0227247792029203
GO:0030799regulation of cyclic nucleotide metabolic process0.0227247792029203
GO:0017015regulation of transforming growth factor beta receptor signaling pathway0.0227247792029203
GO:0006140regulation of nucleotide metabolic process0.0227247792029203
GO:0043408regulation of MAPKKK cascade0.0333077639652004
GO:0046058cAMP metabolic process0.0333077639652004
GO:0005178integrin binding0.0333077639652004
GO:0045664regulation of neuron differentiation0.0367798578299882
GO:0009187cyclic nucleotide metabolic process0.0457949130069618



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>


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)
MA0003.10.213881
MA0004.10.239244
MA0006.10.756673
MA0007.10.64515
MA0009.10.623671
MA0014.10.186007
MA0017.10.420732
MA0019.10.456268
MA0024.10.582844
MA0025.10.845702
MA0027.12.24512
MA0028.10.12472
MA0029.10.562703
MA0030.10.568779
MA0031.10.535959
MA0038.10.358622
MA0040.10.635404
MA0041.10.18185
MA0042.10.172351
MA0043.10.71494
MA0046.10.657417
MA0048.10.102771
MA0050.10.270164
MA0051.10.366328
MA0052.10.642973
MA0055.10.0154075
MA0056.10
MA0057.10.226212
MA0058.10.167504
MA0059.10.176308
MA0060.10.071412
MA0061.10.0877629
MA0063.10
MA0066.10.921885
MA0067.10.953264
MA0068.10.0945752
MA0069.12.62707
MA0070.11.53283
MA0071.10.742345
MA0072.10.626238
MA0073.11.63963e-06
MA0074.10.318792
MA0076.10.453214
MA0077.10.605975
MA0078.10.395048
MA0081.10.56362
MA0083.12.85294
MA0084.11.27474
MA0087.10.673355
MA0088.11.07775
MA0089.10
MA0090.10.212772
MA0091.10.696557
MA0092.10.610874
MA0093.10.130107
MA0095.10
MA0098.10
MA0100.10.309116
MA0101.10.182791
MA0103.10.439015
MA0105.10.341877
MA0106.11.03774
MA0107.10.428571
MA0108.20.476838
MA0109.10
MA0111.10.223614
MA0113.10.377232
MA0114.10.291992
MA0115.10.717599
MA0116.11.23725
MA0117.10.686999
MA0119.12.32003
MA0122.10.705806
MA0124.10.901619
MA0125.10.830088
MA0130.10
MA0131.10.452196
MA0132.10
MA0133.10
MA0135.10.749615
MA0136.10.335579
MA0139.10.0558308
MA0140.10.30902
MA0141.10.472769
MA0142.11.29772
MA0143.11.79536
MA0144.12.73539
MA0145.10.541572
MA0146.10.241206
MA0147.10.0952713
MA0148.10.252062
MA0149.10.18682
MA0062.20.0394542
MA0035.20.312946
MA0039.20.00174261
MA0138.20.445088
MA0002.21.21215
MA0137.22.80783
MA0104.20.0641853
MA0047.20.357963
MA0112.21.15104
MA0065.20.160972
MA0150.10.644946
MA0151.10
MA0152.10.9415
MA0153.10.765498
MA0154.10.10034
MA0155.10.916876
MA0156.10.147567
MA0157.10.493416
MA0158.10
MA0159.10.101261
MA0160.10.254455
MA0161.10
MA0162.10.00971175
MA0163.10.0289848
MA0164.11.60174
MA0080.20.13897
MA0018.20.344133
MA0099.20.439458
MA0079.20.0544154
MA0102.21.32652
MA0258.10.967298
MA0259.10.0890842
MA0442.10
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