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Coexpression cluster:C313: Difference between revisions

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{{Coexpression_clusters
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942687,0.760634,0.502359,0.50348,0.874496,0.642593,0.409406,0.503226,0.99243,0.978583,0.950569,0.928188,0.965625,0.930208,0.658334,0.729656,0.568174,0.807331,0.566563,0.753283,0.580749,0.633836,0.825459,0.768761,0.43528,0.584297,0.695523,0.377623,0.840635,0.944769,0.935911,0.92687,0.995479,0.855708,0.979104,0.976364,0.940878,0.961971,0.988762,0.97536,0.916062,0.985381,0.97955,0.832982,0.891218,0.789469,0.940063,0.986197,0.967203,0.993135,0.789685,0.955648,0.959625,0.788062,0.935898,0.931757,0.984876,0.985269,0.973832,0.897574,0.959905,0.711915,0.993447,0.960873,0.947684,0.72103,0.314873,0.991988,0.907993,0.643256,0.981839,0.607167,0.981626,0.740487,0.958771,0.913798,0.885529,0.953931,0.97506,0.946127,0.922209|tfbs_overrepresentation_for_novel_motifs=0.504346,0.00058897,0.0249296,0.246729,0.0760779,1.34787,0.103298,0.268486,0.0190547,0.000316981,0.0580994,0.395252,0.00135634,0.0977893,0.377787,0.0912712,0.23447,0.259574,0.00176959,0.030593,0.259066,0.0078897,0.508402,0.612641,0.0364791,0.137628,0.12637,0.06571,0.0781213,0.00427978,0.420205,0.260032,0.0305078,0.0850636,0.0112665,2.70243e-05,0.0108402,0.0700736,0.246928,0.00227393,1.87594,0.0451356,0.056432,0.620271,0.00243274,0.310056,0.103828,0.0542323,0.13903,0.200366,0.145574,0.109634,0.100922,0.316185,0.437184,0.0991809,1.3462,0.0841843,0.0462682,0.083742,0.289532,0.342054,0.263424,0.21585,0.113929,0.193524,0.511615,0.84452,0.252724,0.694297,0.0410774,0.152707,0.000160093,0.435532,0.00122669,0.000914672,0.051725,0.204773,0.250452,0.0347756,1.00867,0.21514,1.76695,0.148102,0.393629,2.72174e-07,0.116389,0.0153057,0.16062,0.938457,0.593054,0.3721,2.10826,0.589048,0.0167375,0.111607,0.188435,0.303144,0.163349,0.136244,0.249622,0.738838,0.299005,0.667188,0.546898,0.0564678,0.226224,0.318462,0.0364082,0.0139781,0.0275221,0.804892,1.11066,0.0615732,0.550855,0.498911,1.14409e-05,0.0500523,0.19204,0.382081,0.428712,0.480692,1.85416,0.119537,0.649027,0.205267,0.10024,0.275599,0.464097,0.236949,0.372647,0.425728,0.47619,0.375782,0.604481,0.0374582,0.0484641,0.23427,0.566997,1.37965,0.988471,2.27445,0.678941,0.300525,0.187364,0.0805064,1.00681,1.22368,0.168916,0.0320477,0.000109055,1.2603e-05,0.372949,0.242736,0.341425,0.722291,0.151194,0.176464,0.144827,0.0289196,0.533396,0.358374,0.697233,0.0297136,0.574071,1.20729,0.0829575,0.102654,1.23354e-08|tfbs_overrepresentation_jaspar=MA0003.1;1.338e-13,MA0004.1;0.217037,MA0006.1;0.0162914,MA0007.1;0.0532455,MA0009.1;0.340234,MA0014.1;1.09297e-07,MA0017.1;0.474929,MA0019.1;0.402197,MA0024.1;0.261871,MA0025.1;1.13815,MA0027.1;1.8578,MA0028.1;0.0192452,MA0029.1;0.75682,MA0030.1;0.267514,MA0031.1;0.222414,MA0038.1;0.104656,MA0040.1;1.40133,MA0041.1;0.237808,MA0042.1;0.202534,MA0043.1;0.34048,MA0046.1;0.883171,MA0048.1;0.00019615,MA0050.1;0.781277,MA0051.1;0.685997,MA0052.1;0.773024,MA0055.1;1.2484e-05,MA0056.1;0,MA0057.1;0.00650289,MA0058.1;0.0300567,MA0059.1;0.12254,MA0060.1;3.22155,MA0061.1;0.101141,MA0063.1;0,MA0066.1;0.104867,MA0067.1;0.607707,MA0068.1;0.000777676,MA0069.1;0.328825,MA0070.1;0.857324,MA0071.1;0.29178,MA0072.1;0.31681,MA0073.1;1.05139e-11,MA0074.1;0.102213,MA0076.1;0.0342513,MA0077.1;0.836472,MA0078.1;0.921365,MA0081.1;0.292548,MA0083.1;0.914984,MA0084.1;0.778769,MA0087.1;0.845451,MA0088.1;0.0114794,MA0089.1;0,MA0090.1;0.150771,MA0091.1;0.478767,MA0092.1;0.1799,MA0093.1;0.0768991,MA0095.1;0,MA0098.1;0,MA0100.1;0.111612,MA0101.1;0.202326,MA0103.1;0.0689167,MA0105.1;0.00449083,MA0106.1;0.125937,MA0107.1;0.22925,MA0108.2;0.220346,MA0109.1;0,MA0111.1;0.372993,MA0113.1;0.134893,MA0114.1;0.0354381,MA0115.1;0.540206,MA0116.1;0.00745978,MA0117.1;0.369828,MA0119.1;0.265445,MA0122.1;0.390603,MA0124.1;0.504249,MA0125.1;0.433225,MA0130.1;0,MA0131.1;0.16707,MA0132.1;0,MA0133.1;0,MA0135.1;2.56258,MA0136.1;0.108168,MA0139.1;0.00143757,MA0140.1;0.0851687,MA0141.1;0.121069,MA0142.1;0.58304,MA0143.1;0.419973,MA0144.1;0.0884648,MA0145.1;0.000303983,MA0146.1;3.84723e-08,MA0147.1;0.0408593,MA0148.1;0.524875,MA0149.1;0.0808931,MA0062.2;0.00167567,MA0035.2;0.0848533,MA0039.2;1.57224e-06,MA0138.2;0.156943,MA0002.2;0.0523,MA0137.2;0.0205235,MA0104.2;0.00313372,MA0047.2;0.76306,MA0112.2;0.000229719,MA0065.2;0.017831,MA0150.1;0.0366419,MA0151.1;0,MA0152.1;1.03439,MA0153.1;0.419293,MA0154.1;0.130583,MA0155.1;0.00099225,MA0156.1;0.0209851,MA0157.1;0.540861,MA0158.1;0,MA0159.1;0.0411579,MA0160.1;0.262948,MA0161.1;0,MA0162.1;1.15018e-06,MA0163.1;4.34221e-05,MA0164.1;2.00176,MA0080.2;0.38421,MA0018.2;0.126682,MA0099.2;0.297083,MA0079.2;0,MA0102.2;0.813509,MA0258.1;0.0794293,MA0259.1;0.0449064,MA0442.1;0}}
|full_id=C313_blood_CD19_Adipocyte_acute_Osteoblast_Cardiac_Neurons
|id=C313
}}

Latest revision as of 11:20, 17 September 2013


Full id: C313_blood_CD19_Adipocyte_acute_Osteoblast_Cardiac_Neurons



Phase1 CAGE Peaks

Hg19::chr10:111629613..111629617,+p1@RNU4-5P
Hg19::chr11:105695356..105695358,+p1@ENST00000410731
Hg19::chr11:62620503..62620506,-p1@SNORD22
Hg19::chr12:28472393..28472394,-p1@ENST00000516428
Hg19::chr12:98811813..98811817,-p1@ENST00000364426
Hg19::chr13:73765663..73765666,+p1@RNU4-10P
Hg19::chr14:62489552..62489557,-p@chr14:62489552..62489557
-
Hg19::chr16:19509930..19509934,+p1@ENST00000410818
Hg19::chr16:68363429..68363434,-p1@ENST00000410245
Hg19::chr16:68569416..68569420,+p1@ENST00000364294
Hg19::chr17:26929424..26929428,-p@chr17:26929424..26929428
-
Hg19::chr17:43291811..43291815,-p@chr17:43291811..43291815
-
Hg19::chr1:233584524..233584527,-p1@ENST00000516692
Hg19::chr1:48913605..48913611,+p1@ENST00000411243
Hg19::chr20:34475579..34475584,+p1@ENST00000364351
Hg19::chr22:38275807..38275811,-p@chr22:38275807..38275811
-
Hg19::chr2:128229807..128229811,+p1@ENST00000365559
Hg19::chr2:232576231..232576237,+p1@BC005228
Hg19::chr2:236577684..236577686,+p@chr2:236577684..236577686
+
Hg19::chr2:48567962..48567967,-p1@ENST00000516080
Hg19::chr3:172514350..172514351,-p1@RNU4-4P
Hg19::chr3:196474187..196474199,-p1@ENST00000365311
Hg19::chr4:138414465..138414468,-p@chr4:138414465..138414468
-
Hg19::chr5:90566542..90566546,+p1@ENST00000362773
Hg19::chr6:131049770..131049773,-p@chr6:131049770..131049773
-
Hg19::chr6:131964103..131964108,-p1@ENST00000516751
Hg19::chr6:148207840..148207848,+p@chr6:148207840..148207848
+
Hg19::chr6:150647895..150647900,-p1@RNU4-7P
Hg19::chr6:86461298..86461301,+p1@ENST00000410754
Hg19::chr7:140752047..140752051,+p1@ENST00000411280
Hg19::chr7:146799323..146799326,-p@chr7:146799323..146799326
-
Hg19::chr7:156664772..156664773,+p1@ENST00000384211
Hg19::chr7:94727537..94727541,+p1@ENST00000364737
Hg19::chr8:124467344..124467350,-p@chr8:124467344..124467350
-
Hg19::chr8:129022857..129022859,-p1@ENST00000410569
Hg19::chr8:23457648..23457650,-p1@ENST00000516258
Hg19::chr8:59727111..59727114,-p1@ENST00000364361
Hg19::chr9:127649825..127649830,-p1@ENST00000362443


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><br><br><br>


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)
MA0003.11.338e-13
MA0004.10.217037
MA0006.10.0162914
MA0007.10.0532455
MA0009.10.340234
MA0014.11.09297e-07
MA0017.10.474929
MA0019.10.402197
MA0024.10.261871
MA0025.11.13815
MA0027.11.8578
MA0028.10.0192452
MA0029.10.75682
MA0030.10.267514
MA0031.10.222414
MA0038.10.104656
MA0040.11.40133
MA0041.10.237808
MA0042.10.202534
MA0043.10.34048
MA0046.10.883171
MA0048.10.00019615
MA0050.10.781277
MA0051.10.685997
MA0052.10.773024
MA0055.11.2484e-05
MA0056.10
MA0057.10.00650289
MA0058.10.0300567
MA0059.10.12254
MA0060.13.22155
MA0061.10.101141
MA0063.10
MA0066.10.104867
MA0067.10.607707
MA0068.10.000777676
MA0069.10.328825
MA0070.10.857324
MA0071.10.29178
MA0072.10.31681
MA0073.11.05139e-11
MA0074.10.102213
MA0076.10.0342513
MA0077.10.836472
MA0078.10.921365
MA0081.10.292548
MA0083.10.914984
MA0084.10.778769
MA0087.10.845451
MA0088.10.0114794
MA0089.10
MA0090.10.150771
MA0091.10.478767
MA0092.10.1799
MA0093.10.0768991
MA0095.10
MA0098.10
MA0100.10.111612
MA0101.10.202326
MA0103.10.0689167
MA0105.10.00449083
MA0106.10.125937
MA0107.10.22925
MA0108.20.220346
MA0109.10
MA0111.10.372993
MA0113.10.134893
MA0114.10.0354381
MA0115.10.540206
MA0116.10.00745978
MA0117.10.369828
MA0119.10.265445
MA0122.10.390603
MA0124.10.504249
MA0125.10.433225
MA0130.10
MA0131.10.16707
MA0132.10
MA0133.10
MA0135.12.56258
MA0136.10.108168
MA0139.10.00143757
MA0140.10.0851687
MA0141.10.121069
MA0142.10.58304
MA0143.10.419973
MA0144.10.0884648
MA0145.10.000303983
MA0146.13.84723e-08
MA0147.10.0408593
MA0148.10.524875
MA0149.10.0808931
MA0062.20.00167567
MA0035.20.0848533
MA0039.21.57224e-06
MA0138.20.156943
MA0002.20.0523
MA0137.20.0205235
MA0104.20.00313372
MA0047.20.76306
MA0112.20.000229719
MA0065.20.017831
MA0150.10.0366419
MA0151.10
MA0152.11.03439
MA0153.10.419293
MA0154.10.130583
MA0155.10.00099225
MA0156.10.0209851
MA0157.10.540861
MA0158.10
MA0159.10.0411579
MA0160.10.262948
MA0161.10
MA0162.11.15018e-06
MA0163.14.34221e-05
MA0164.12.00176
MA0080.20.38421
MA0018.20.126682
MA0099.20.297083
MA0079.20
MA0102.20.813509
MA0258.10.0794293
MA0259.10.0449064
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

This analysis result is provided for C0 - C305 clusters.

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