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MCL coexpression mm9:564: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004535!7.97e-08!23;UBERON:0001009!7.97e-08!23;UBERON:0004872!8.78e-08!33;UBERON:0002048!7.22e-07!14;UBERON:0000117!7.22e-07!14;UBERON:0000171!7.22e-07!14;UBERON:0000170!7.22e-07!14;UBERON:0005597!7.22e-07!14;UBERON:0000118!7.22e-07!14
|tfbs_overrepresentation_for_novel_motifs=0.244604,1.09005,0.635766,0.279403,0.430128,0.792702,0.370193,0.566731,0.283485,1.05194,0.331725,0.35958,0.960432,0.381063,0.15081,0,0.557619,0.133477,0.524522,1.65362,1.07772,2.18391,0.990435,0.427399,0.64994,0.405649,0.0651848,0.833023,0.171781,0.169823,0.297405,0.653099,0.412165,1.18992,0.900171,0.195932,0.125578,0.356403,0.725176,0.640643,0.136186,0.301802,1.2184,0.463442,0.816299,1.36465,1.2144,0.863451,0.484795,0.517045,0.541299,0.429887,0.160439,0.788877,1.88857,0.387424,0.533349,1.64572,0.218496,0.385607,0.634076,1.95528,0.628157,0.5308,0.397364,0.568642,0.938213,1.28193,0.629645,1.13654,0.208654,0.0812872,0.0836286,0.838198,0.796075,0.427563,0.779595,1.192,0.617814,0.198007,0.279684,0.573903,0.437131,0.0742829,0.72691,2.07458,0.552224,0.684405,0.488122,1.44275,1.0064,0.731688,0.665283,0.143149,0.108477,0.661488,0.0764965,0.667958,0.483845,0.329451,0.125632,0.652833,1.81917,0.541854,0.54087,0.814997,0.596902,0.319507,0.201775,0.570648,0.671624,0.773781,0.577235,0.336214,1.01331,0.41985,1.6023,0.282562,0.558838,0.123076,0.843435,0.511336,0.407285,0.472327,1.06644,0.621313,0.377415,0.658832,0.936732,0.145259,0.755703,0.273302,0.907893,0.399614,1.03449,0.0163629,0.251471,0.303003,0.986296,1.80931,1.41113,0.942814,0.418119,0.66306,0.53483,0.302189,0.486482,1.76978,0.253405,0.853765,1.51728,0.866458,0.790393,0.101059,0.398786,0.869538,0.430798,0.159498,0.242603,0.700333,0.995609,0.726089,0.621734,0.237049,0.531751,0.392164,2.51413,0.358185,3.52612
|tfbs_overrepresentation_jaspar=MA0003.1;4.73516,MA0004.1;0.279808,MA0006.1;0.451962,MA0007.1;2.08422,MA0009.1;0.678286,MA0014.1;1.81873,MA0017.1;0.965594,MA0019.1;0.506787,MA0024.1;0.636635,MA0025.1;0.9035,MA0027.1;2.3071,MA0028.1;0.470606,MA0029.1;0.616052,MA0030.1;0.622264,MA0031.1;0.588678,MA0038.1;0.405578,MA0040.1;0.690239,MA0041.1;0.218039,MA0042.1;0.207696,MA0043.1;0.771094,MA0046.1;0.712646,MA0048.1;0.332541,MA0050.1;0.312673,MA0051.1;0.413609,MA0052.1;0.697946,MA0055.1;1.77478,MA0056.1;0,MA0057.1;0.554814,MA0058.1;0.202403,MA0059.1;0.212009,MA0060.1;0.0941959,MA0061.1;0.363764,MA0063.1;0,MA0066.1;1.81001,MA0067.1;1.01206,MA0068.1;0.571204,MA0069.1;0.698271,MA0070.1;0.688999,MA0071.1;0.311956,MA0072.1;0.680902,MA0073.1;10.9896,MA0074.1;0.363923,MA0076.1;0.181159,MA0077.1;0.660245,MA0078.1;0.443468,MA0081.1;0.230351,MA0083.1;1.8156,MA0084.1;1.33532,MA0087.1;0.728855,MA0088.1;0.394828,MA0089.1;0,MA0090.1;0.251458,MA0091.1;0.290854,MA0092.1;0.70143,MA0093.1;0.161141,MA0095.1;0,MA0098.1;0,MA0100.1;0.353762,MA0101.1;0.219061,MA0103.1;0.174916,MA0105.1;0.434904,MA0106.1;1.14333,MA0107.1;0.170338,MA0108.2;0.527977,MA0109.1;0,MA0111.1;1.33881,MA0113.1;0.424958,MA0114.1;0.359761,MA0115.1;0.773793,MA0116.1;0.451594,MA0117.1;0.742722,MA0119.1;0.219527,MA0122.1;0.761823,MA0124.1;0.959967,MA0125.1;0.887718,MA0130.1;0,MA0131.1;0.502588,MA0132.1;0,MA0133.1;0,MA0135.1;0.806261,MA0136.1;0.993181,MA0139.1;0.5556,MA0140.1;0.353662,MA0141.1;0.18979,MA0142.1;0.575041,MA0143.1;0.439766,MA0144.1;0.365041,MA0145.1;0.698105,MA0146.1;1.3531,MA0147.1;0.773525,MA0148.1;0.796977,MA0149.1;0.223436,MA0062.2;0.783196,MA0035.2;0.357786,MA0039.2;4.48813,MA0138.2;2.14525,MA0002.2;0.0773396,MA0137.2;0.187581,MA0104.2;1.01662,MA0047.2;0.404891,MA0112.2;1.02934,MA0065.2;0.429377,MA0150.1;0.267221,MA0151.1;0,MA0152.1;0.404987,MA0153.1;0.822355,MA0154.1;1.33637,MA0155.1;2.52589,MA0156.1;1.02086,MA0157.1;0.545026,MA0158.1;0,MA0159.1;0.403827,MA0160.1;0.296006,MA0161.1;0,MA0162.1;0.636185,MA0163.1;4.01514,MA0164.1;0.381832,MA0080.2;0.982311,MA0018.2;0.390455,MA0099.2;0.489441,MA0079.2;5.82502,MA0102.2;1.38728,MA0258.1;0.336791,MA0259.1;1.2164,MA0442.1;0
}}

Latest revision as of 15:31, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:8368651..8368709,-p4@Tns3
Mm9::chr14:47504662..47504704,-p@chr14:47504662..47504704
-
Mm9::chr1:184447578..184447656,-p1@Capn2
Mm9::chr2:90910337..90910406,-p1@Slc39a13
Mm9::chr3:52845439..52845501,+p1@Lhfp
Mm9::chr4:155213784..155213793,+p5@Mxra8
Mm9::chr4:155213833..155213871,+p2@Mxra8
Mm9::chr4:155213878..155213933,+p1@Mxra8
Mm9::chr4:155213936..155213949,+p3@Mxra8
Mm9::chr7:16552819..16552833,-p1@Ehd2
Mm9::chr7:29161544..29161582,+p@chr7:29161544..29161582
+
Mm9::chr8:108489938..108490020,-p1@Slc12a4
Mm9::chr9:45744132..45744189,-p2@Tagln


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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
cardiovascular system7.97e-0823
circulatory system7.97e-0823
splanchnic layer of lateral plate mesoderm8.78e-0833
lung7.22e-0714
respiratory tube7.22e-0714
respiration organ7.22e-0714
pair of lungs7.22e-0714
lung primordium7.22e-0714
lung bud7.22e-0714


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)
MA0003.14.73516
MA0004.10.279808
MA0006.10.451962
MA0007.12.08422
MA0009.10.678286
MA0014.11.81873
MA0017.10.965594
MA0019.10.506787
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.10.470606
MA0029.10.616052
MA0030.10.622264
MA0031.10.588678
MA0038.10.405578
MA0040.10.690239
MA0041.10.218039
MA0042.10.207696
MA0043.10.771094
MA0046.10.712646
MA0048.10.332541
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.11.77478
MA0056.10
MA0057.10.554814
MA0058.10.202403
MA0059.10.212009
MA0060.10.0941959
MA0061.10.363764
MA0063.10
MA0066.11.81001
MA0067.11.01206
MA0068.10.571204
MA0069.10.698271
MA0070.10.688999
MA0071.10.311956
MA0072.10.680902
MA0073.110.9896
MA0074.10.363923
MA0076.10.181159
MA0077.10.660245
MA0078.10.443468
MA0081.10.230351
MA0083.11.8156
MA0084.11.33532
MA0087.10.728855
MA0088.10.394828
MA0089.10
MA0090.10.251458
MA0091.10.290854
MA0092.10.70143
MA0093.10.161141
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.219061
MA0103.10.174916
MA0105.10.434904
MA0106.11.14333
MA0107.10.170338
MA0108.20.527977
MA0109.10
MA0111.11.33881
MA0113.10.424958
MA0114.10.359761
MA0115.10.773793
MA0116.10.451594
MA0117.10.742722
MA0119.10.219527
MA0122.10.761823
MA0124.10.959967
MA0125.10.887718
MA0130.10
MA0131.10.502588
MA0132.10
MA0133.10
MA0135.10.806261
MA0136.10.993181
MA0139.10.5556
MA0140.10.353662
MA0141.10.18979
MA0142.10.575041
MA0143.10.439766
MA0144.10.365041
MA0145.10.698105
MA0146.11.3531
MA0147.10.773525
MA0148.10.796977
MA0149.10.223436
MA0062.20.783196
MA0035.20.357786
MA0039.24.48813
MA0138.22.14525
MA0002.20.0773396
MA0137.20.187581
MA0104.21.01662
MA0047.20.404891
MA0112.21.02934
MA0065.20.429377
MA0150.10.267221
MA0151.10
MA0152.10.404987
MA0153.10.822355
MA0154.11.33637
MA0155.12.52589
MA0156.11.02086
MA0157.10.545026
MA0158.10
MA0159.10.403827
MA0160.10.296006
MA0161.10
MA0162.10.636185
MA0163.14.01514
MA0164.10.381832
MA0080.20.982311
MA0018.20.390455
MA0099.20.489441
MA0079.25.82502
MA0102.21.38728
MA0258.10.336791
MA0259.11.2164
MA0442.10
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