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MCL coexpression mm9:357: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000991!2.52e-57!18;UBERON:0005564!2.52e-57!18;UBERON:0004176!7.61e-53!17;UBERON:0009196!7.61e-53!17;UBERON:0009117!7.61e-53!17;UBERON:0005156!3.93e-50!26;UBERON:0000990!3.93e-50!26;UBERON:0003133!3.15e-48!24;UBERON:0000473!9.84e-40!14;UBERON:0003135!5.53e-37!15;UBERON:0003101!1.41e-34!16;UBERON:0000079!1.41e-34!16;UBERON:0002323!8.46e-27!37;UBERON:0004458!8.46e-27!37;UBERON:0003886!4.90e-26!38;UBERON:0002553!2.60e-25!39;UBERON:0000464!1.32e-16!57;UBERON:0000992!8.81e-15!3;UBERON:0000474!1.02e-12!9;UBERON:0000466!2.50e-11!79;UBERON:0003100!2.21e-10!11;UBERON:0000926!2.93e-10!120;UBERON:0004120!2.93e-10!120;UBERON:0006603!2.93e-10!120;UBERON:0003134!1.73e-09!8
|tfbs_overrepresentation_for_novel_motifs=0.119369,0.649613,0.341317,0.444236,0.425918,0.15366,0.615468,1.04656,0.100319,0.11695,0.542448,0.595264,0.437632,0.636202,0.211839,0,0.374352,0.0483719,0.962407,0.726362,0.604268,0.321305,0.223092,0.189689,0.108863,0.243873,0.369214,0.167184,0.070875,0.978418,0.15805,0.460285,0.179513,0.315369,0.0584536,0.654385,0.382826,1.11373,0.336224,0.027628,0.416906,0.486105,0.0318671,0.468447,0.418566,0.137727,0.309657,0.52593,0.211272,0.252327,0.359925,0.264025,0.113338,0.586014,0.601849,1.21039,0.264175,0.197526,0.343945,0.644883,0.442975,0.271204,0.269556,0.350689,0.667373,0.384144,0.727642,1.06142,0.438956,0.919268,0.314287,0.0971174,0.106527,0.632466,0.0612875,0.145958,0.0585198,0.300684,0.428247,0.614637,0.741934,0.388829,0.270104,0.683588,0.5282,0.00146799,0.000252775,0.122924,0.313544,1.21975,0.793151,0.532634,0.471416,0.767517,0.32782,2.70031,0.429553,0.473864,0.309859,0.57641,0.382998,0.460042,0.570262,0.360414,0.359547,0.161095,0.409409,0.174935,1.55184,0.0863521,0.115332,0.57187,0.296684,0.187937,0.799811,1.57556,0.158238,0.450125,0.375433,1.03669,0.637418,0.333667,0.245224,0.299972,3.28328,0.43141,0.220786,0.465518,0.726225,0.202267,0.554981,2.67067,0.698665,0.238902,0.820264,0.0378838,0.392468,0.162291,0.773792,1.58317,1.18855,0.732048,0.254204,0.469382,0.35423,0.486829,0.31213,1.54387,0.125637,0.193635,0.00883403,0.0788443,0.587436,0.128379,1.93268,0.662158,0.264789,0.0633954,0.117954,0.124089,0.782756,0.527439,0.431791,0.365959,0.351524,0.232792,0.677032,0.205322,0.202754
}}

Latest revision as of 15:09, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:69246607..69246616,-p@chr11:69246607..69246616
-
Mm9::chr11:99003011..99003031,-p@chr11:99003011..99003031
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Mm9::chr15:76407237..76407244,-p@chr15:76407237..76407244
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Mm9::chr17:28644343..28644394,-p3@Fkbp5
Mm9::chr17:71036837..71036839,-p@chr17:71036837..71036839
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Mm9::chr17:89191318..89191336,-p1@Lhcgr
Mm9::chr17:89191347..89191362,-p2@Lhcgr
Mm9::chr2:153769655..153769670,+p1@Bpifb4
Mm9::chr2:153769681..153769688,+p@chr2:153769681..153769688
+
Mm9::chr2:52835974..52835982,+p@chr2:52835974..52835982
+
Mm9::chr3:68672727..68672735,+p@chr3:68672727..68672735
+
Mm9::chr4:63640895..63640904,+p2@ENSMUST00000141428
p2@uc008thh.1
p2@uc008thi.1
p2@uc008thj.1
Mm9::chr4:63640914..63640917,+p3@ENSMUST00000141428
p3@uc008thh.1
p3@uc008thi.1
p3@uc008thj.1
Mm9::chr4:63640925..63640938,+p1@ENSMUST00000141428
p1@uc008thh.1
p1@uc008thi.1
p1@uc008thj.1
Mm9::chr4:63640943..63640950,+p2@ENSMUST00000135042
Mm9::chr4:63640969..63640980,+p1@ENSMUST00000135042
Mm9::chr4:63640991..63641000,+p1@ENSMUST00000138411
Mm9::chr4:63659368..63659371,+p@chr4:63659368..63659371
+
Mm9::chr5:26333781..26333807,+p1@ENSMUST00000170449
Mm9::chr5:26333995..26334007,+p3@ENSMUST00000170449
Mm9::chr5:26334211..26334241,+p@chr5:26334211..26334241
+
Mm9::chr7:82925657..82925680,-p@chr7:82925657..82925680
-


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:0004964lutropin-choriogonadotropic hormone receptor activity0.00471155426505232
GO:0016500protein-hormone receptor activity0.0235519631962366
GO:0003755peptidyl-prolyl cis-trans isomerase activity0.041187701632876
GO:0016859cis-trans isomerase activity0.041187701632876



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>


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)
MA0003.10.0850171
MA0004.10.144883
MA0006.10.789557
MA0007.10.421767
MA0009.10.483331
MA0014.10.292572
MA0017.11.32958
MA0019.10.329708
MA0024.10.445298
MA0025.10.694475
MA0027.12.07936
MA0028.10.21932
MA0029.10.426655
MA0030.10.43227
MA0031.10.402033
MA0038.10.683113
MA0040.10.494317
MA0041.10.331283
MA0042.10.312557
MA0043.10.569356
MA0046.10.514989
MA0048.13.28233
MA0050.10.169675
MA0051.10.250459
MA0052.10.501416
MA0055.11.0714
MA0056.10
MA0057.10.180412
MA0058.10.0904678
MA0059.10.659185
MA0060.10.521938
MA0061.10.148219
MA0063.10
MA0066.11.91947
MA0067.10.798606
MA0068.10.189439
MA0069.10.501715
MA0070.10.493176
MA0071.14.61023
MA0072.10.485733
MA0073.11.05937
MA0074.10.603526
MA0076.10.265041
MA0077.10.466808
MA0078.10.275441
MA0081.11.18104
MA0083.10.568641
MA0084.11.11388
MA0087.10.530004
MA0088.10.0414871
MA0089.10
MA0090.10.392445
MA0091.10.908402
MA0092.11.27914
MA0093.10.0643828
MA0095.10
MA0098.10
MA0100.10.201797
MA0101.10.101635
MA0103.10.253989
MA0105.11.10582
MA0106.10.281418
MA0107.10.245917
MA0108.20.348212
MA0109.10
MA0111.11.33098
MA0113.10.259904
MA0114.11.36887
MA0115.14.72115
MA0116.10.788841
MA0117.10.542889
MA0119.10.101951
MA0122.10.560692
MA0124.10.748494
MA0125.10.67944
MA0130.10
MA0131.10.326061
MA0132.10
MA0133.10
MA0135.10.602346
MA0136.10.224107
MA0139.10.425271
MA0140.10.201717
MA0141.112.1206
MA0142.10.389844
MA0143.10.27232
MA0144.10.149023
MA0145.10.0147023
MA0146.10.00945061
MA0147.10.0420513
MA0148.10.470482
MA0149.10.104621
MA0062.20.0591193
MA0035.20.205003
MA0039.20.00122746
MA0138.20.319705
MA0002.20.0910543
MA0137.20.080825
MA0104.20.0242964
MA0047.21.26469
MA0112.24.45983
MA0065.21.391
MA0150.10.421594
MA0151.10
MA0152.10.243327
MA0153.10.617506
MA0154.10.360977
MA0155.10.0197121
MA0156.10.0763253
MA0157.10.363212
MA0158.10
MA0159.10.696166
MA0160.16.26271
MA0161.10
MA0162.10.036061
MA0163.10.768601
MA0164.11.19299
MA0080.20.247073
MA0018.20.231394
MA0099.20.314682
MA0079.20.272465
MA0102.21.16504
MA0258.13.38457
MA0259.10.0383313
MA0442.10
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