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MCL coexpression mm9:496: Difference between revisions

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{{MCL_coexpression_mm9
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Latest revision as of 15:24, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:40820555..40820584,-p14@Tfap2a
Mm9::chr13:40821195..40821200,-p@chr13:40821195..40821200
-
Mm9::chr1:19199021..19199048,+p8@Tfap2b
Mm9::chr1:19199064..19199075,+p10@Tfap2b
Mm9::chr1:19199079..19199092,+p7@Tfap2b
Mm9::chr1:19199095..19199114,+p5@Tfap2b
Mm9::chr1:19199119..19199134,+p4@Tfap2b
Mm9::chr1:19199151..19199170,+p3@Tfap2b
Mm9::chr1:19199193..19199207,+p11@Tfap2b
Mm9::chr1:19199221..19199234,+p6@Tfap2b
Mm9::chr1:19225407..19225413,+p@chr1:19225407..19225413
+
Mm9::chr1:19225850..19225863,+p@chr1:19225850..19225863
+
Mm9::chr1:19227682..19227693,+p@chr1:19227682..19227693
+
Mm9::chr3:55584794..55584817,-p@chr3:55584794..55584817
-
Mm9::chr3:55586422..55586443,+p1@Mab21l1


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
eye7.50e-109
camera-type eye7.50e-109
simple eye7.50e-109
immature eye7.50e-109
ocular region7.50e-109
visual system7.50e-109
face7.50e-109
optic cup7.50e-109
optic vesicle7.50e-109
eye primordium7.50e-109
subdivision of head4.23e-0911
forelimb4.59e-087
pectoral appendage4.59e-087
pectoral appendage bud4.59e-087
forelimb bud4.59e-087
forelimb/pectoral fin field4.59e-087
head3.60e-0713
ectoderm-derived structure5.28e-0795
ectoderm5.28e-0795
presumptive ectoderm5.28e-0795
ectodermal placode6.27e-0713
pectoral complex8.82e-078


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)
MA0003.13.17424e-05
MA0004.10.239244
MA0006.13.89916
MA0007.10.227553
MA0009.10.623671
MA0014.10.00434123
MA0017.10.135289
MA0019.10.456268
MA0024.10.582844
MA0025.16.19832
MA0027.12.24512
MA0028.10.12472
MA0029.11.38259
MA0030.10.568779
MA0031.10.535959
MA0038.10.358622
MA0040.10.635404
MA0041.10.18185
MA0042.12.23894
MA0043.10.71494
MA0046.10.657417
MA0048.10.0239691
MA0050.10.270164
MA0051.10.366328
MA0052.11.5512
MA0055.10.229093
MA0056.10
MA0057.10.0903541
MA0058.10.167504
MA0059.10.176308
MA0060.10.071412
MA0061.10.0877629
MA0063.10
MA0066.10.349199
MA0067.10.953264
MA0068.10.235061
MA0069.10.643292
MA0070.10.634186
MA0071.10.269487
MA0072.10.626238
MA0073.117.7604
MA0074.12.34289
MA0076.10.148159
MA0077.13.66113
MA0078.10.395048
MA0081.10.193203
MA0083.10.714187
MA0084.11.27474
MA0087.10.673355
MA0088.10.0527415
MA0089.10
MA0090.10.212772
MA0091.10.24961
MA0092.10.610874
MA0093.10.130107
MA0095.10
MA0098.10
MA0100.10.309116
MA0101.10.182791
MA0103.10.14251
MA0105.10.341877
MA0106.10.401864
MA0107.10.138378
MA0108.20.476838
MA0109.10
MA0111.10.223614
MA0113.10.377232
MA0114.10.0864402
MA0115.10.717599
MA0116.10.117928
MA0117.10.686999
MA0119.10.183219
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
MA0140.10.832119
MA0141.10.155997
MA0142.10.522654
MA0143.10.391481
MA0144.10.0881858
MA0145.10.0124347
MA0146.10.000953111
MA0147.10.0952713
MA0148.10.252062
MA0149.10.18682
MA0062.20.0394542
MA0035.20.312946
MA0039.20.00549298
MA0138.20.445088
MA0002.20.0572064
MA0137.20.153989
MA0104.20.0641853
MA0047.20.357963
MA0112.20.0124337
MA0065.20.060272
MA0150.10.227466
MA0151.10
MA0152.10.358055
MA0153.10.765498
MA0154.10.0232776
MA0155.10.0729675
MA0156.10.147567
MA0157.10.493416
MA0158.10
MA0159.10.101261
MA0160.10.254455
MA0161.10
MA0162.10.903541
MA0163.10.0738452
MA0164.10.335886
MA0080.20.13897
MA0018.20.344133
MA0099.20.439458
MA0079.20.000153054
MA0102.21.32652
MA0258.10.572032
MA0259.10.0890842
MA0442.10
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