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MCL coexpression mm9:253: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000970!6.35e-57!9;UBERON:0000019!6.35e-57!9;UBERON:0000047!6.35e-57!9;UBERON:0010312!6.35e-57!9;UBERON:0004088!6.35e-57!9;UBERON:0002104!6.35e-57!9;UBERON:0001456!6.35e-57!9;UBERON:0003072!6.35e-57!9;UBERON:0004128!6.35e-57!9;UBERON:0003071!6.35e-57!9;UBERON:0001444!1.54e-46!11;UBERON:0000020!1.21e-42!12;UBERON:0001032!1.21e-42!12;UBERON:0004456!1.21e-42!12;UBERON:0000033!2.41e-39!13;UBERON:0005085!2.41e-39!13;UBERON:0007811!5.81e-14!36;UBERON:0003056!8.99e-13!49;UBERON:0000153!1.32e-11!43;UBERON:0002346!1.27e-09!64;UBERON:0003075!1.27e-09!64;UBERON:0007284!1.27e-09!64;UBERON:0010371!2.38e-08!73
|tfbs_overrepresentation_for_novel_motifs=0.44273,0.0591844,0.0453506,0.0709309,0.0757881,0.562772,0.121436,0.505999,0.795736,0.000315589,0.668437,0.368534,0.173017,0.402403,0.0197558,0,1.2941,0.360352,0.00342212,0.77986,0.919764,0.347029,0.799075,0.376135,0.18065,0.14366,0.874153,0.292184,2.05548,0.0750073,0.0801314,0.32631,0.180246,0.20375,0.423705,0.00262821,0.0132106,0.36358,0.282212,0.00669677,0.189193,0.0824439,0.767179,0.089223,0.118864,0.0663465,0.571694,1.58832,0.96978,0.507079,0.671323,0.159548,0.138786,0.440493,0.45514,0.132079,0.846158,0.108414,0.0508292,0.130943,0.31094,0.165281,1.17368,0.230901,0.428515,0.259509,0.573087,0.894999,0.307386,0.756737,0.0393482,0.183351,0.005797,0.483599,0.110129,0.0947976,0.012801,0.189183,0.297944,0.936782,0.33554,0.263556,0.1644,0.0719373,0.387484,0.0797357,0.00187617,0.0751728,0.19978,1.05033,0.635424,0.391521,0.893086,0.965855,0.00951536,0.413592,0.307985,0.897964,0.196734,0.112045,0.332674,0.326093,1.0902,0.239164,0.670573,0.0822456,0.281434,0.0920046,0.145499,0.0345946,0.428415,0.427455,0.33084,0.10138,0.64179,1.26415,0.023189,0.918673,0.252011,1.54067,0.488218,0.216549,2.02471,0.1886,0.691048,0.300729,0.12586,0.330975,0.571744,0.208592,0.411944,0.0679138,0.545694,1.37547,0.661372,0.000943497,0.799079,0.0830799,0.616948,1.40994,1.01963,0.577263,0.151767,0.334426,0.233904,0.0826482,0.19861,1.3709,0.0584414,0.384385,0.0308721,0.000665102,0.441807,0.0420378,1.37221,0.511361,0.160157,0.239872,0.19782,0.0574466,0.625497,0.386791,0.301065,0.190434,0.231608,0.13506,0.0623173,1.21291,0.000139781
|tfbs_overrepresentation_jaspar=MA0003.1;1.50067e-05,MA0004.1;1.88903,MA0006.1;0.0844843,MA0007.1;0.859893,MA0009.1;0.34692,MA0014.1;0.0098354,MA0017.1;0.0245877,MA0019.1;0.213233,MA0024.1;0.312998,MA0025.1;0.541743,MA0027.1;1.90418,MA0028.1;0.438089,MA0029.1;0.803957,MA0030.1;0.301487,MA0031.1;0.275007,MA0038.1;0.143615,MA0040.1;0.938724,MA0041.1;0.165776,MA0042.1;0.152789,MA0043.1;0.425142,MA0046.1;0.375484,MA0048.1;0.334404,MA0050.1;0.0882677,MA0051.1;0.148819,MA0052.1;0.363203,MA0055.1;0.0964502,MA0056.1;0,MA0057.1;0.0431157,MA0058.1;1.84247,MA0059.1;0.649041,MA0060.1;0.00690119,MA0061.1;0.0104775,MA0063.1;0,MA0066.1;2.6429,MA0067.1;0.640638,MA0068.1;0.000561578,MA0069.1;1.69847,MA0070.1;0.355772,MA0071.1;0.616103,MA0072.1;0.921615,MA0073.1;8.48608e-15,MA0074.1;0.375328,MA0076.1;0.53364,MA0077.1;0.332127,MA0078.1;0.168681,MA0081.1;0.0482072,MA0083.1;1.08697,MA0084.1;0.946331,MA0087.1;1.00988,MA0088.1;1.1361,MA0089.1;0,MA0090.1;0.459964,MA0091.1;3.92333,MA0092.1;0.057664,MA0093.1;2.44489,MA0095.1;0,MA0098.1;0,MA0100.1;0.111578,MA0101.1;0.0435009,MA0103.1;0.816087,MA0105.1;0.011785,MA0106.1;2.99293,MA0107.1;0.0256805,MA0108.2;0.228803,MA0109.1;0,MA0111.1;0.062983,MA0113.1;0.9216,MA0114.1;0.0507297,MA0115.1;0.427465,MA0116.1;0.0843343,MA0117.1;0.400878,MA0119.1;0.380652,MA0122.1;0.417182,MA0124.1;1.44617,MA0125.1;0.527588,MA0130.1;0,MA0131.1;0.210184,MA0132.1;0,MA0133.1;0,MA0135.1;0.4556,MA0136.1;0.128392,MA0139.1;0.00416011,MA0140.1;0.111518,MA0141.1;0.309332,MA0142.1;0.264434,MA0143.1;0.49793,MA0144.1;3.30038,MA0145.1;0.577133,MA0146.1;0.0362679,MA0147.1;0.817133,MA0148.1;0.268803,MA0149.1;1.0697,MA0062.2;0.755776,MA0035.2;0.738235,MA0039.2;1.15574e-05,MA0138.2;0.20489,MA0002.2;0.0251014,MA0137.2;0.882282,MA0104.2;0.561444,MA0047.2;0.143172,MA0112.2;1.24574,MA0065.2;0.000172004,MA0150.1;0.231461,MA0151.1;0,MA0152.1;0.143234,MA0153.1;0.469672,MA0154.1;0.0049403,MA0155.1;0.0023739,MA0156.1;0.53122,MA0157.1;0.24155,MA0158.1;0,MA0159.1;0.0658805,MA0160.1;0.0794009,MA0161.1;0,MA0162.1;0.000139088,MA0163.1;0.00154218,MA0164.1;0.128592,MA0080.2;0.496102,MA0018.2;0.133983,MA0099.2;0.200722,MA0079.2;5.78982e-13,MA0102.2;0.996522,MA0258.1;0.977536,MA0259.1;0.767264,MA0442.1;0
}}

Latest revision as of 14:58, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127668799..127668810,+p5@LOC100504989
p5@Timeless
Mm9::chr10:127668811..127668826,+p6@LOC100504989
p6@Timeless
Mm9::chr11:77532161..77532168,-p@chr11:77532161..77532168
-
Mm9::chr11:77532239..77532258,-p@chr11:77532239..77532258
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Mm9::chr11:77532270..77532280,-p@chr11:77532270..77532280
-
Mm9::chr11:77532283..77532316,-p@chr11:77532283..77532316
-
Mm9::chr14:104858700..104858703,-p2@uc007uxa.1
p2@uc011zpm.1
Mm9::chr17:31818449..31818457,+p@chr17:31818449..31818457
+
Mm9::chr17:31818551..31818560,+p@chr17:31818551..31818560
+
Mm9::chr17:31818605..31818622,+p@chr17:31818605..31818622
+
Mm9::chr17:31818629..31818644,+p@chr17:31818629..31818644
+
Mm9::chr19:19142078..19142119,-p@chr19:19142078..19142119
-
Mm9::chr19:47099743..47099759,+p@chr19:47099743..47099759
+
Mm9::chr1:65095155..65095172,-p@chr1:65095155..65095172
-
Mm9::chr1:65095221..65095226,-p@chr1:65095221..65095226
-
Mm9::chr1:65108464..65108475,-p@chr1:65108464..65108475
-
Mm9::chr1:65108495..65108500,-p@chr1:65108495..65108500
-
Mm9::chr1:65118142..65118152,-p@chr1:65118142..65118152
-
Mm9::chr1:65118183..65118190,-p@chr1:65118183..65118190
-
Mm9::chr1:65126827..65126834,-p@chr1:65126827..65126834
-
Mm9::chr1:65126850..65126861,-p@chr1:65126850..65126861
-
Mm9::chr1:65146997..65147021,-p@chr1:65146997..65147021
-
Mm9::chr1:65147027..65147044,-p@chr1:65147027..65147044
-
Mm9::chr3:17226562..17226568,-p@chr3:17226562..17226568
-
Mm9::chr3:17591936..17591940,-p@chr3:17591936..17591940
-
Mm9::chr5:112675556..112675574,-p@chr5:112675556..112675574
-
Mm9::chr5:112698494..112698502,+p@chr5:112698494..112698502
+
Mm9::chr5:112698508..112698516,+p@chr5:112698508..112698516
+
Mm9::chr5:112698517..112698526,+p@chr5:112698517..112698526
+
Mm9::chr5:112698528..112698565,+p@chr5:112698528..112698565
+
Mm9::chr5:113504891..113504916,-p@chr5:113504891..113504916
-
Mm9::chr6:142727588..142727595,-p@chr6:142727588..142727595
-
Mm9::chr7:152115904..152115926,-p@chr7:152115904..152115926
-


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
eye6.35e-579
camera-type eye6.35e-579
simple eye6.35e-579
immature eye6.35e-579
ocular region6.35e-579
visual system6.35e-579
face6.35e-579
optic cup6.35e-579
optic vesicle6.35e-579
eye primordium6.35e-579
subdivision of head1.54e-4611
sense organ1.21e-4212
sensory system1.21e-4212
entire sense organ system1.21e-4212
head2.41e-3913
ectodermal placode2.41e-3913
craniocervical region5.81e-1436
pre-chordal neural plate8.99e-1349
anterior region of body1.32e-1143
neurectoderm1.27e-0964
neural plate1.27e-0964
presumptive neural plate1.27e-0964
ecto-epithelium2.38e-0873


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)
MA0003.11.50067e-05
MA0004.11.88903
MA0006.10.0844843
MA0007.10.859893
MA0009.10.34692
MA0014.10.0098354
MA0017.10.0245877
MA0019.10.213233
MA0024.10.312998
MA0025.10.541743
MA0027.11.90418
MA0028.10.438089
MA0029.10.803957
MA0030.10.301487
MA0031.10.275007
MA0038.10.143615
MA0040.10.938724
MA0041.10.165776
MA0042.10.152789
MA0043.10.425142
MA0046.10.375484
MA0048.10.334404
MA0050.10.0882677
MA0051.10.148819
MA0052.10.363203
MA0055.10.0964502
MA0056.10
MA0057.10.0431157
MA0058.11.84247
MA0059.10.649041
MA0060.10.00690119
MA0061.10.0104775
MA0063.10
MA0066.12.6429
MA0067.10.640638
MA0068.10.000561578
MA0069.11.69847
MA0070.10.355772
MA0071.10.616103
MA0072.10.921615
MA0073.18.48608e-15
MA0074.10.375328
MA0076.10.53364
MA0077.10.332127
MA0078.10.168681
MA0081.10.0482072
MA0083.11.08697
MA0084.10.946331
MA0087.11.00988
MA0088.11.1361
MA0089.10
MA0090.10.459964
MA0091.13.92333
MA0092.10.057664
MA0093.12.44489
MA0095.10
MA0098.10
MA0100.10.111578
MA0101.10.0435009
MA0103.10.816087
MA0105.10.011785
MA0106.12.99293
MA0107.10.0256805
MA0108.20.228803
MA0109.10
MA0111.10.062983
MA0113.10.9216
MA0114.10.0507297
MA0115.10.427465
MA0116.10.0843343
MA0117.10.400878
MA0119.10.380652
MA0122.10.417182
MA0124.11.44617
MA0125.10.527588
MA0130.10
MA0131.10.210184
MA0132.10
MA0133.10
MA0135.10.4556
MA0136.10.128392
MA0139.10.00416011
MA0140.10.111518
MA0141.10.309332
MA0142.10.264434
MA0143.10.49793
MA0144.13.30038
MA0145.10.577133
MA0146.10.0362679
MA0147.10.817133
MA0148.10.268803
MA0149.11.0697
MA0062.20.755776
MA0035.20.738235
MA0039.21.15574e-05
MA0138.20.20489
MA0002.20.0251014
MA0137.20.882282
MA0104.20.561444
MA0047.20.143172
MA0112.21.24574
MA0065.20.000172004
MA0150.10.231461
MA0151.10
MA0152.10.143234
MA0153.10.469672
MA0154.10.0049403
MA0155.10.0023739
MA0156.10.53122
MA0157.10.24155
MA0158.10
MA0159.10.0658805
MA0160.10.0794009
MA0161.10
MA0162.10.000139088
MA0163.10.00154218
MA0164.10.128592
MA0080.20.496102
MA0018.20.133983
MA0099.20.200722
MA0079.25.78982e-13
MA0102.20.996522
MA0258.10.977536
MA0259.10.767264
MA0442.10
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