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Coexpression cluster:C287: Difference between revisions

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|tfbs_overrepresentation_for_novel_motifs=0.187734,3.31968e-06,0.0144752,0.0482979,0.00899263,2.63091,0.0752173,0.00133868,0.00876032,0.000253305,0.152126,0.644697,0.000468032,0.0706385,0.126364,0.0568648,0.190529,1.68783,0.000641058,4.58147,2.06796,0.296341,0.0453603,0.122315,0.0978632,0.104369,19.3009,0.0446983,0.00933964,0.0487764,0.0329202,0.213928,0.0024581,16.7663,0.00569934,0.0578036,0.811049,0.048143,2.02219,0.0235281,2.72976,0.0289255,0.00330862,1.71766,0.0112735,0.0873902,0.0756589,0.0357945,0.000148468,0.131432,0.111246,0.0805202,4.08422e-05,0.265995,0.380448,0.0717921,0.00984513,0.0594741,11.9344,0.0591149,0.241178,0.076623,0.0316228,0.173629,0.0841366,0.153548,0.451923,0.777092,0.207217,0.629532,0.0259242,0.468057,0.00202639,0.37887,0.000415579,0.000293649,60.6715,0.16364,10.319,0.0213533,0.338761,0.172987,0.0839853,0.900429,0.338961,0.000311961,1.45001e-05,0.0182453,0.124382,0.869816,0.530781,0.318564,0.224958,1.1458,0.00907508,0.00347709,0.00469346,0.253831,0.126778,11.5608,0.0710169,0.630274,0.249978,3.16914,19.4563,0.148095,0.183029,0.0692946,0.0225263,0.00734439,0.192854,0.248074,0.0136499,1.9391,5.44847,6.65294,1.17839e-06,4.6927,0.904638,27.7023,0.372357,9.46466,0.0469096,0.0888831,0.585292,0.164084,0.0726712,0.228277,0.406216,0.453693,0.319081,0.0336539,0.417824,0.0874218,2.29884,0.0386705,0.0314174,0.0448706,0.505486,1.30792,0.919291,0.473972,0.255516,0.251393,0.148046,0.206635,0.138853,1.15268,0.281502,0.00263474,2.36816e-05,1.83927e-06,2.34572,0.0709782,0.076425,0.656947,2.42178,0.00753851,0.740536,0.0172189,0.472954,0.824418,0.20463,0.0177723,0.157161,0.0836473,0.0456429,0.0746798,0.01761
|tfbs_overrepresentation_for_novel_motifs=0.187734,3.31968e-06,0.0144752,0.0482979,0.00899263,2.63091,0.0752173,0.00133868,0.00876032,0.000253305,0.152126,0.644697,0.000468032,0.0706385,0.126364,0.0568648,0.190529,1.68783,0.000641058,4.58147,2.06796,0.296341,0.0453603,0.122315,0.0978632,0.104369,19.3009,0.0446983,0.00933964,0.0487764,0.0329202,0.213928,0.0024581,16.7663,0.00569934,0.0578036,0.811049,0.048143,2.02219,0.0235281,2.72976,0.0289255,0.00330862,1.71766,0.0112735,0.0873902,0.0756589,0.0357945,0.000148468,0.131432,0.111246,0.0805202,4.08422e-05,0.265995,0.380448,0.0717921,0.00984513,0.0594741,11.9344,0.0591149,0.241178,0.076623,0.0316228,0.173629,0.0841366,0.153548,0.451923,0.777092,0.207217,0.629532,0.0259242,0.468057,0.00202639,0.37887,0.000415579,0.000293649,60.6715,0.16364,10.319,0.0213533,0.338761,0.172987,0.0839853,0.900429,0.338961,0.000311961,1.45001e-05,0.0182453,0.124382,0.869816,0.530781,0.318564,0.224958,1.1458,0.00907508,0.00347709,0.00469346,0.253831,0.126778,11.5608,0.0710169,0.630274,0.249978,3.16914,19.4563,0.148095,0.183029,0.0692946,0.0225263,0.00734439,0.192854,0.248074,0.0136499,1.9391,5.44847,6.65294,1.17839e-06,4.6927,0.904638,27.7023,0.372357,9.46466,0.0469096,0.0888831,0.585292,0.164084,0.0726712,0.228277,0.406216,0.453693,0.319081,0.0336539,0.417824,0.0874218,2.29884,0.0386705,0.0314174,0.0448706,0.505486,1.30792,0.919291,0.473972,0.255516,0.251393,0.148046,0.206635,0.138853,1.15268,0.281502,0.00263474,2.36816e-05,1.83927e-06,2.34572,0.0709782,0.076425,0.656947,2.42178,0.00753851,0.740536,0.0172189,0.472954,0.824418,0.20463,0.0177723,0.157161,0.0836473,0.0456429,0.0746798,0.01761
|tfbs_overrepresentation_jaspar=MA0003.1;6.75029e-16,MA0004.1;0.0402493,MA0006.1;0.00879181,MA0007.1;1.33764,MA0009.1;0.288527,MA0014.1;2.0169e-10,MA0017.1;0.0138859,MA0019.1;0.0961252,MA0024.1;0.215619,MA0025.1;0.390923,MA0027.1;1.78493,MA0028.1;0.0106901,MA0029.1;3.47975,MA0030.1;0.62931,MA0031.1;0.179572,MA0038.1;0.558961,MA0040.1;0.232423,MA0041.1;3.1915,MA0042.1;1.36359,MA0043.1;0.288758,MA0046.1;0.280609,MA0048.1;0.000480561,MA0050.1;0.0367154,MA0051.1;0.0746188,MA0052.1;0.235047,MA0055.1;0.000846078,MA0056.1;0,MA0057.1;0.145017,MA0058.1;0.0180122,MA0059.1;0.0177841,MA0060.1;0.00128055,MA0061.1;0.000686528,MA0063.1;0,MA0066.1;0.0765267,MA0067.1;0.54503,MA0068.1;0.0618261,MA0069.1;0.277823,MA0070.1;0.269786,MA0071.1;2.92148,MA0072.1;0.266579,MA0073.1;23.9969,MA0074.1;1.39669,MA0076.1;0.0921513,MA0077.1;2.05228,MA0078.1;2.46877,MA0081.1;0.205469,MA0083.1;0.294032,MA0084.1;0.71238,MA0087.1;0.26484,MA0088.1;3.30929e-05,MA0089.1;0,MA0090.1;0.023927,MA0091.1;0.65232,MA0092.1;0.871765,MA0093.1;0.00913161,MA0095.1;0,MA0098.1;0,MA0100.1;0.28024,MA0101.1;0.00951035,MA0103.1;0.242703,MA0105.1;2.15328e-05,MA0106.1;0.0943326,MA0107.1;0.00331032,MA0108.2;0.177698,MA0109.1;0,MA0111.1;0.0269095,MA0113.1;0.102012,MA0114.1;0.00303647,MA0115.1;0.479539,MA0116.1;22.6193,MA0117.1;0.316417,MA0119.1;0.0150966,MA0122.1;0.336089,MA0124.1;0.444822,MA0125.1;0.376666,MA0130.1;0,MA0131.1;0.809748,MA0132.1;0,MA0133.1;0,MA0135.1;0.836539,MA0136.1;0.0792895,MA0139.1;0.0432966,MA0140.1;0.0602746,MA0141.1;2.21557,MA0142.1;0.160525,MA0143.1;0.102096,MA0144.1;0.0493315,MA0145.1;6.01821e-05,MA0146.1;1.3044e-09,MA0147.1;0.00371364,MA0148.1;0.0478476,MA0149.1;0.0568069,MA0062.2;0.0487734,MA0035.2;0.060018,MA0039.2;0.308967,MA0138.2;0.121158,MA0002.2;0.00706183,MA0137.2;0.152017,MA0104.2;0.00125982,MA0047.2;0.08884,MA0112.2;3.36671e-06,MA0065.2;5.63939e-06,MA0150.1;0.0226948,MA0151.1;0,MA0152.1;0.487902,MA0153.1;0.363372,MA0154.1;0.012667,MA0155.1;0.358648,MA0156.1;0.0118315,MA0157.1;0.444889,MA0158.1;0,MA0159.1;0.00375213,MA0160.1;2.7449,MA0161.1;0,MA0162.1;3.86257e-09,MA0163.1;6.85474e-09,MA0164.1;0.10802,MA0080.2;0.00914139,MA0018.2;0.094969,MA0099.2;0.0628256,MA0079.2;0,MA0102.2;0.74655,MA0258.1;0.00197029,MA0259.1;0.00424549,MA0442.1;0
}}
}}

Revision as of 18:59, 22 January 2013


Full id: C287_Hepatocyte_Chondrocyte_Adipocyte_Synoviocyte_liver_tenocyte_mesenchymal



Phase1 CAGE Peaks

Hg19::chr1:186266030..186266037,+p6@PRG4
Hg19::chr1:186269246..186269262,+p4@PRG4
Hg19::chr1:186269287..186269295,+p7@PRG4
Hg19::chr1:186270719..186270731,+p@chr1:186270719..186270731
+
Hg19::chr1:186270762..186270780,+p@chr1:186270762..186270780
+
Hg19::chr1:186270789..186270810,+p@chr1:186270789..186270810
+
Hg19::chr1:186273229..186273260,+p@chr1:186273229..186273260
+
Hg19::chr1:186273262..186273282,+p@chr1:186273262..186273282
+
Hg19::chr1:186274023..186274031,+p@chr1:186274023..186274031
+
Hg19::chr1:186275455..186275462,+p@chr1:186275455..186275462
+
Hg19::chr1:186275473..186275478,+p@chr1:186275473..186275478
+
Hg19::chr1:186275518..186275574,+p@chr1:186275518..186275574
+
Hg19::chr1:186275576..186275594,+p@chr1:186275576..186275594
+
Hg19::chr1:186275628..186275643,+p@chr1:186275628..186275643
+
Hg19::chr1:186275717..186275734,+p@chr1:186275717..186275734
+
Hg19::chr1:186275747..186275756,+p@chr1:186275747..186275756
+
Hg19::chr1:186275777..186275807,+p@chr1:186275777..186275807
+
Hg19::chr1:186275818..186275880,+p@chr1:186275818..186275880
+
Hg19::chr1:186275893..186275905,+p@chr1:186275893..186275905
+
Hg19::chr1:186275917..186275955,+p@chr1:186275917..186275955
+
Hg19::chr1:186275953..186275985,-p@chr1:186275953..186275985
-
Hg19::chr1:186276266..186276302,+p@chr1:186276266..186276302
+
Hg19::chr1:186276386..186276397,+p@chr1:186276386..186276397
+
Hg19::chr1:186276427..186276448,+p@chr1:186276427..186276448
+
Hg19::chr1:186276468..186276475,+p@chr1:186276468..186276475
+
Hg19::chr1:186276499..186276506,+p@chr1:186276499..186276506
+
Hg19::chr1:186276832..186276846,+p@chr1:186276832..186276846
+
Hg19::chr1:186276857..186276868,+p@chr1:186276857..186276868
+
Hg19::chr1:186276951..186276966,+p@chr1:186276951..186276966
+
Hg19::chr1:186277273..186277285,+p@chr1:186277273..186277285
+
Hg19::chr1:186277319..186277330,+p@chr1:186277319..186277330
+
Hg19::chr1:186277344..186277358,+p@chr1:186277344..186277358
+
Hg19::chr1:186277359..186277362,+p@chr1:186277359..186277362
+
Hg19::chr1:186277364..186277378,+p@chr1:186277364..186277378
+
Hg19::chr1:186277407..186277429,+p@chr1:186277407..186277429
+
Hg19::chr1:186277441..186277473,+p@chr1:186277441..186277473
+
Hg19::chr1:186277483..186277503,+p@chr1:186277483..186277503
+
Hg19::chr1:186277531..186277560,+p@chr1:186277531..186277560
+
Hg19::chr1:186277564..186277670,+p@chr1:186277564..186277670
+
Hg19::chr1:186277676..186277745,+p@chr1:186277676..186277745
+
Hg19::chr1:186277761..186277793,+p@chr1:186277761..186277793
+
Hg19::chr1:186277804..186277817,+p@chr1:186277804..186277817
+
Hg19::chr1:186277819..186277921,+p@chr1:186277819..186277921
+
Hg19::chr1:186277933..186277938,+p@chr1:186277933..186277938
+
Hg19::chr1:186282892..186282902,+p@chr1:186282892..186282902
+


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

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

No GOStat results

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>disease_data<br>

Disease
Ontology termp-valuen
heart disease8.35e-082


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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)
MA0003.16.75029e-16
MA0004.10.0402493
MA0006.10.00879181
MA0007.11.33764
MA0009.10.288527
MA0014.12.0169e-10
MA0017.10.0138859
MA0019.10.0961252
MA0024.10.215619
MA0025.10.390923
MA0027.11.78493
MA0028.10.0106901
MA0029.13.47975
MA0030.10.62931
MA0031.10.179572
MA0038.10.558961
MA0040.10.232423
MA0041.13.1915
MA0042.11.36359
MA0043.10.288758
MA0046.10.280609
MA0048.10.000480561
MA0050.10.0367154
MA0051.10.0746188
MA0052.10.235047
MA0055.10.000846078
MA0056.10
MA0057.10.145017
MA0058.10.0180122
MA0059.10.0177841
MA0060.10.00128055
MA0061.10.000686528
MA0063.10
MA0066.10.0765267
MA0067.10.54503
MA0068.10.0618261
MA0069.10.277823
MA0070.10.269786
MA0071.12.92148
MA0072.10.266579
MA0073.123.9969
MA0074.11.39669
MA0076.10.0921513
MA0077.12.05228
MA0078.12.46877
MA0081.10.205469
MA0083.10.294032
MA0084.10.71238
MA0087.10.26484
MA0088.13.30929e-05
MA0089.10
MA0090.10.023927
MA0091.10.65232
MA0092.10.871765
MA0093.10.00913161
MA0095.10
MA0098.10
MA0100.10.28024
MA0101.10.00951035
MA0103.10.242703
MA0105.12.15328e-05
MA0106.10.0943326
MA0107.10.00331032
MA0108.20.177698
MA0109.10
MA0111.10.0269095
MA0113.10.102012
MA0114.10.00303647
MA0115.10.479539
MA0116.122.6193
MA0117.10.316417
MA0119.10.0150966
MA0122.10.336089
MA0124.10.444822
MA0125.10.376666
MA0130.10
MA0131.10.809748
MA0132.10
MA0133.10
MA0135.10.836539
MA0136.10.0792895
MA0139.10.0432966
MA0140.10.0602746
MA0141.12.21557
MA0142.10.160525
MA0143.10.102096
MA0144.10.0493315
MA0145.16.01821e-05
MA0146.11.3044e-09
MA0147.10.00371364
MA0148.10.0478476
MA0149.10.0568069
MA0062.20.0487734
MA0035.20.060018
MA0039.20.308967
MA0138.20.121158
MA0002.20.00706183
MA0137.20.152017
MA0104.20.00125982
MA0047.20.08884
MA0112.23.36671e-06
MA0065.25.63939e-06
MA0150.10.0226948
MA0151.10
MA0152.10.487902
MA0153.10.363372
MA0154.10.012667
MA0155.10.358648
MA0156.10.0118315
MA0157.10.444889
MA0158.10
MA0159.10.00375213
MA0160.12.7449
MA0161.10
MA0162.13.86257e-09
MA0163.16.85474e-09
MA0164.10.10802
MA0080.20.00914139
MA0018.20.094969
MA0099.20.0628256
MA0079.20
MA0102.20.74655
MA0258.10.00197029
MA0259.10.00424549
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C287&oldid=2568798"