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MCL coexpression mm9:500: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0007586;digestion;0.00010769802036991;67373,109791!GO:0004263;chymotrypsin activity;0.0260199797957553;67373!GO:0004295;trypsin activity;0.0260199797957553;67373!
}}

Latest revision as of 15:24, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr17:28695830..28695837,-p@chr17:28695830..28695837
-
Mm9::chr17:28697649..28697663,-p1@Clps
Mm9::chr19:58756236..58756247,+p@chr19:58756236..58756247
+
Mm9::chr2:29600165..29600169,-p@chr2:29600165..29600169
-
Mm9::chr2:29607155..29607189,-p@chr2:29607155..29607189
-
Mm9::chr3:100169701..100169706,-p@chr3:100169701..100169706
-
Mm9::chr3:20149455..20149480,-p@chr3:20149455..20149480
-
Mm9::chr3:20149508..20149534,-p@chr3:20149508..20149534
-
Mm9::chr3:20149544..20149612,-p@chr3:20149544..20149612
-
Mm9::chr6:30595247..30595276,+p@chr6:30595247..30595276
+
Mm9::chr6:30595291..30595323,+p@chr6:30595291..30595323
+
Mm9::chr6:40981585..40981680,-p@chr6:40981585..40981680
-
Mm9::chr6:41474926..41474936,+p@chr6:41474926..41474936
+
Mm9::chr8:108455954..108455997,-p@chr8:108455954..108455997
-
Mm9::chr8:114210505..114210512,-p@chr8:114210505..114210512
-


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:0007586digestion0.00010769802036991
GO:0004263chymotrypsin activity0.0260199797957553
GO:0004295trypsin activity0.0260199797957553



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
pancreas3.97e-2912
viscus1.18e-2019
gastrointestinal system3.43e-1747
intestine1.25e-1031
body cavity2.28e-0937
body cavity or lining2.28e-0937
body cavity precursor4.67e-0938
anatomical cavity9.22e-0939
stomach1.96e-0716
food storage organ1.96e-0716


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)
MA0003.10.0017772
MA0004.10.239244
MA0006.10.118059
MA0007.10.227553
MA0009.10.623671
MA0014.10.000565425
MA0017.10.832511
MA0019.10.456268
MA0024.11.42507
MA0025.10.845702
MA0027.12.24512
MA0028.10.12472
MA0029.11.38259
MA0030.10.568779
MA0031.10.535959
MA0038.10.358622
MA0040.10.635404
MA0041.10.536212
MA0042.10.513077
MA0043.10.71494
MA0046.10.657417
MA0048.10.0239691
MA0050.10.270164
MA0051.10.366328
MA0052.10.642973
MA0055.10.381798
MA0056.10
MA0057.10.0903541
MA0058.10.167504
MA0059.10.176308
MA0060.10.071412
MA0061.10.0877629
MA0063.10
MA0066.10.921885
MA0067.10.953264
MA0068.10.0216542
MA0069.10.643292
MA0070.10.634186
MA0071.10.269487
MA0072.10.626238
MA0073.10.00102304
MA0074.12.34289
MA0076.10.148159
MA0077.10.605975
MA0078.11.80761
MA0081.10.193203
MA0083.10.714187
MA0084.11.27474
MA0087.10.673355
MA0088.10.292366
MA0089.10
MA0090.10.212772
MA0091.10.696557
MA0092.10.610874
MA0093.10.130107
MA0095.10
MA0098.10
MA0100.10.309116
MA0101.10.182791
MA0103.10.863534
MA0105.10.0373599
MA0106.10.401864
MA0107.10.138378
MA0108.20.476838
MA0109.10
MA0111.11.1901
MA0113.10.377232
MA0114.10.609093
MA0115.11.70652
MA0116.10.117928
MA0117.10.686999
MA0119.10.183219
MA0122.10.705806
MA0124.10.901619
MA0125.11.93865
MA0130.10
MA0131.10.452196
MA0132.10
MA0133.10
MA0135.10.749615
MA0136.10.335579
MA0139.10.0558308
MA0140.10.832119
MA0141.10.155997
MA0142.10.522654
MA0143.11.01504
MA0144.10.0881858
MA0145.10.541572
MA0146.10.000953111
MA0147.10.0952713
MA0148.10.70223
MA0149.10.548243
MA0062.20.0394542
MA0035.20.312946
MA0039.26.78765e-05
MA0138.20.445088
MA0002.20.208749
MA0137.20.153989
MA0104.20.0641853
MA0047.20.941296
MA0112.20.819738
MA0065.20.321967
MA0150.10.644946
MA0151.10
MA0152.10.9415
MA0153.10.765498
MA0154.10.247047
MA0155.10.189024
MA0156.10.147567
MA0157.10.493416
MA0158.10
MA0159.10.101261
MA0160.10.254455
MA0161.10
MA0162.10.00143236
MA0163.10.00114117
MA0164.10.335886
MA0080.20.13897
MA0018.20.344133
MA0099.20.439458
MA0079.22.70508e-08
MA0102.21.32652
MA0258.10.967298
MA0259.10.0890842
MA0442.10
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