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Coexpression cluster:C910: Difference between revisions

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|tfbs_overrepresentation_for_novel_motifs=0.312007,0.279194,0.305225,0.440628,0.267236,0.439064,0.511871,0.492582,0.487494,0.119197,0.410439,0.553754,0.127813,0.500805,0.266007,0.287179,0.728104,0.624077,0.137566,0.473089,0.823689,0.0355541,0.431698,0.262652,1.64256,1.41015,0.112018,0.429643,0.270022,0.10044,0.389837,0.764231,0.190489,0.129565,0.23642,0.045176,0.233607,0.440165,0.611187,0.451713,0.663028,0.374544,0.0412835,0.731232,0.0550925,0.333541,1.277,0.4002,0.147122,0.270138,0.589559,0.524278,0.0739421,0.839846,0.99088,0.503626,1.3789,0.472204,0.67562,0.47124,0.804523,0.5152,0.162346,0.700946,0.532513,1.6019,1.07848,1.44489,0.754027,1.28328,0.362234,0.504216,0.0724994,0.988898,0.124338,0.114787,0.69735,0.684401,0.750836,1.62246,0.858505,0.699894,0.532172,0.166331,0.937974,0.0150019,0.214403,0.096982,0.614883,1.54397,1.17124,0.911274,0.78075,0.571859,0.267904,0.207949,0.136404,0.82268,0.619373,1.0179,0.613956,0.775192,0.817185,0.731699,0.656016,0.406162,0.716172,0.49749,0.347247,0.252953,0.846745,0.814459,0.300169,0.41935,1.12352,0.232218,0.0194997,1.00897,0.664981,0.577715,0.980696,0.612519,0.436445,0.543065,1.23356,0.685145,0.50576,0.785662,1.02292,0.600821,0.911957,0.39253,3.85875,0.539846,1.18405,0.0922077,0.999117,0.430179,1.14186,1.99816,1.59626,1.10478,0.507423,0.819206,1.58202,1.17257,0.641461,1.83907,0.971016,0.193834,0.0656964,0.0382049,0.912334,0.155464,0.514733,1.31376,2.48498,0.254737,0.347536,0.320853,1.10357,0.894035,0.750062,0.323817,0.673453,0.531409,0.183544,0.510589,0.0121205
|tfbs_overrepresentation_for_novel_motifs=0.312007,0.279194,0.305225,0.440628,0.267236,0.439064,0.511871,0.492582,0.487494,0.119197,0.410439,0.553754,0.127813,0.500805,0.266007,0.287179,0.728104,0.624077,0.137566,0.473089,0.823689,0.0355541,0.431698,0.262652,1.64256,1.41015,0.112018,0.429643,0.270022,0.10044,0.389837,0.764231,0.190489,0.129565,0.23642,0.045176,0.233607,0.440165,0.611187,0.451713,0.663028,0.374544,0.0412835,0.731232,0.0550925,0.333541,1.277,0.4002,0.147122,0.270138,0.589559,0.524278,0.0739421,0.839846,0.99088,0.503626,1.3789,0.472204,0.67562,0.47124,0.804523,0.5152,0.162346,0.700946,0.532513,1.6019,1.07848,1.44489,0.754027,1.28328,0.362234,0.504216,0.0724994,0.988898,0.124338,0.114787,0.69735,0.684401,0.750836,1.62246,0.858505,0.699894,0.532172,0.166331,0.937974,0.0150019,0.214403,0.096982,0.614883,1.54397,1.17124,0.911274,0.78075,0.571859,0.267904,0.207949,0.136404,0.82268,0.619373,1.0179,0.613956,0.775192,0.817185,0.731699,0.656016,0.406162,0.716172,0.49749,0.347247,0.252953,0.846745,0.814459,0.300169,0.41935,1.12352,0.232218,0.0194997,1.00897,0.664981,0.577715,0.980696,0.612519,0.436445,0.543065,1.23356,0.685145,0.50576,0.785662,1.02292,0.600821,0.911957,0.39253,3.85875,0.539846,1.18405,0.0922077,0.999117,0.430179,1.14186,1.99816,1.59626,1.10478,0.507423,0.819206,1.58202,1.17257,0.641461,1.83907,0.971016,0.193834,0.0656964,0.0382049,0.912334,0.155464,0.514733,1.31376,2.48498,0.254737,0.347536,0.320853,1.10357,0.894035,0.750062,0.323817,0.673453,0.531409,0.183544,0.510589,0.0121205
|tfbs_overrepresentation_jaspar=MA0003.1;0.00371372,MA0004.1;0.415381,MA0006.1;0.265592,MA0007.1;0.397529,MA0009.1;0.870971,MA0014.1;0.205864,MA0017.1;0.301634,MA0019.1;0.558663,MA0024.1;0.766783,MA0025.1;1.00397,MA0027.1;2.48103,MA0028.1;0.280275,MA0029.1;0.785955,MA0030.1;0.774581,MA0031.1;0.710608,MA0038.1;0.514558,MA0040.1;0.791764,MA0041.1;0.433167,MA0042.1;0.402577,MA0043.1;0.871285,MA0046.1;0.860127,MA0048.1;0.0764047,MA0050.1;0.403421,MA0051.1;0.510444,MA0052.1;0.795605,MA0055.1;1.02363,MA0056.1;0,MA0057.1;0.0725989,MA0058.1;0.325084,MA0059.1;0.323879,MA0060.1;0.488252,MA0061.1;0.139804,MA0063.1;0,MA0066.1;0.514973,MA0067.1;1.18766,MA0068.1;0.354973,MA0069.1;0.856287,MA0070.1;0.845142,MA0071.1;0.47692,MA0072.1;0.840664,MA0073.1;0.00178726,MA0074.1;0.509711,MA0076.1;0.339975,MA0077.1;0.832987,MA0078.1;0.607575,MA0081.1;0.324031,MA0083.1;0.878452,MA0084.1;1.37471,MA0087.1;0.838229,MA0088.1;0.158781,MA0089.1;0,MA0090.1;0.353576,MA0091.1;2.81626,MA0092.1;0.993944,MA0093.1;0.26836,MA0095.1;0,MA0098.1;0,MA0100.1;0.528088,MA0101.1;0.271368,MA0103.1;0.257174,MA0105.1;0.0643619,MA0106.1;0.554855,MA0107.1;0.205358,MA0108.2;0.707575,MA0109.1;0,MA0111.1;0.366362,MA0113.1;0.57094,MA0114.1;0.200901,MA0115.1;1.11137,MA0116.1;0.208403,MA0117.1;0.908433,MA0119.1;0.308914,MA0122.1;0.934245,MA0124.1;1.06995,MA0125.1;0.986127,MA0130.1;0,MA0131.1;0.625452,MA0132.1;0,MA0133.1;0,MA0135.1;0.90122,MA0136.1;0.521435,MA0139.1;0.406919,MA0140.1;0.474342,MA0141.1;0.322254,MA0142.1;0.679161,MA0143.1;0.571113,MA0144.1;0.1885,MA0145.1;0.177438,MA0146.1;0.0045741,MA0147.1;0.211483,MA0148.1;0.439278,MA0149.1;0.464973,MA0062.2;0.135498,MA0035.2;0.473658,MA0039.2;0.0006485,MA0138.2;0.608783,MA0002.2;0.46405,MA0137.2;0.28622,MA0104.2;0.161609,MA0047.2;0.542971,MA0112.2;0.0433683,MA0065.2;0.0483532,MA0150.1;0.34802,MA0151.1;0,MA0152.1;0.480711,MA0153.1;0.969315,MA0154.1;0.062786,MA0155.1;0.359913,MA0156.1;0.288314,MA0157.1;0.652111,MA0158.1;0,MA0159.1;0.60858,MA0160.1;1.15068,MA0161.1;0,MA0162.1;0.0107891,MA0163.1;0.00648562,MA0164.1;0.583138,MA0080.2;0.739941,MA0018.2;0.556211,MA0099.2;0.481058,MA0079.2;3.89582e-07,MA0102.2;1.41188,MA0258.1;0.180288,MA0259.1;0.218904,MA0442.1;0
}}
}}

Revision as of 19:33, 22 January 2013


Full id: C910_hepatic_smooth_Ewing_Adipocyte_left_Olfactory_umbilical



Phase1 CAGE Peaks

Hg19::chr15:63349229..63349248,-p@chr15:63349229..63349248
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Hg19::chr15:63349302..63349328,-p@chr15:63349302..63349328
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Hg19::chr15:63351782..63351815,-p@chr15:63351782..63351815
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Hg19::chr15:63351824..63351851,-p@chr15:63351824..63351851
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Hg19::chr15:63351866..63351889,-p@chr15:63351866..63351889
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Hg19::chr15:63353101..63353147,-p@chr15:63353101..63353147
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Hg19::chr15:63354440..63354463,-p@chr15:63354440..63354463
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Hg19::chr15:63354769..63354809,+p8@TPM1
Hg19::chr15:63363279..63363308,+p2@AL358752


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

GO IDGO nameFDR corrected p-value
GO:0005862muscle thin filament tropomyosin0.00470976097963028
GO:0005865striated muscle thin filament0.00647592134699164
GO:0006937regulation of muscle contraction0.00685056142491677
GO:0008016regulation of heart contraction0.00685056142491677
GO:0008307structural constituent of muscle0.00685056142491677
GO:0003015heart process0.00685056142491677
GO:0060047heart contraction0.00685056142491677
GO:0030017sarcomere0.00685056142491677
GO:0030016myofibril0.00685056142491677
GO:0044449contractile fiber part0.00685056142491677
GO:0043292contractile fiber0.00685056142491677
GO:0008015blood circulation0.0129518426939833
GO:0003013circulatory system process0.0129518426939833
GO:0003012muscle system process0.0129518426939833
GO:0006936muscle contraction0.0129518426939833
GO:0051239regulation of multicellular organismal process0.0203844342399623
GO:0015629actin cytoskeleton0.0205013124995671
GO:0051674localization of cell0.0237347165157684
GO:0006928cell motility0.0237347165157684
GO:0003779actin binding0.0257859413634758
GO:0008092cytoskeletal protein binding0.0338093556037745
GO:0044430cytoskeletal part0.049131370219325



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
multi-cellular organism5.29e-14656
mesenchyme2.05e-13160
entire embryonic mesenchyme2.05e-13160
organism subdivision1.79e-12264
muscle tissue2.21e-1264
musculature2.21e-1264
musculature of body2.21e-1264
multi-tissue structure7.15e-12342
trunk mesenchyme1.11e-11122
skeletal muscle tissue1.32e-1162
striated muscle tissue1.32e-1162
myotome1.32e-1162
trunk1.73e-11199
dense mesenchyme tissue2.10e-1173
splanchnic layer of lateral plate mesoderm2.88e-1183
somite5.37e-1171
presomitic mesoderm5.37e-1171
presumptive segmental plate5.37e-1171
dermomyotome5.37e-1171
trunk paraxial mesoderm5.37e-1171
paraxial mesoderm5.85e-1172
presumptive paraxial mesoderm5.85e-1172
epithelial tube6.20e-11117
multilaminar epithelium1.07e-1083
anatomical cluster1.08e-10373
epithelial vesicle1.20e-1078
artery1.76e-1042
arterial blood vessel1.76e-1042
arterial system1.76e-1042
vasculature5.93e-1078
vascular system5.93e-1078
anatomical system5.94e-10624
anatomical group8.72e-10625
circulatory system1.32e-09112
systemic artery2.29e-0933
systemic arterial system2.29e-0933
unilaminar epithelium6.40e-09148
epithelial tube open at both ends6.73e-0959
blood vessel6.73e-0959
blood vasculature6.73e-0959
vascular cord6.73e-0959
cardiovascular system1.53e-08109
vessel6.79e-0868
epithelium9.66e-08306
cell layer1.44e-07309
primary circulatory organ1.45e-0727
reproductive structure8.20e-0759
reproductive system8.20e-0759


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)
MA0003.10.00371372
MA0004.10.415381
MA0006.10.265592
MA0007.10.397529
MA0009.10.870971
MA0014.10.205864
MA0017.10.301634
MA0019.10.558663
MA0024.10.766783
MA0025.11.00397
MA0027.12.48103
MA0028.10.280275
MA0029.10.785955
MA0030.10.774581
MA0031.10.710608
MA0038.10.514558
MA0040.10.791764
MA0041.10.433167
MA0042.10.402577
MA0043.10.871285
MA0046.10.860127
MA0048.10.0764047
MA0050.10.403421
MA0051.10.510444
MA0052.10.795605
MA0055.11.02363
MA0056.10
MA0057.10.0725989
MA0058.10.325084
MA0059.10.323879
MA0060.10.488252
MA0061.10.139804
MA0063.10
MA0066.10.514973
MA0067.11.18766
MA0068.10.354973
MA0069.10.856287
MA0070.10.845142
MA0071.10.47692
MA0072.10.840664
MA0073.10.00178726
MA0074.10.509711
MA0076.10.339975
MA0077.10.832987
MA0078.10.607575
MA0081.10.324031
MA0083.10.878452
MA0084.11.37471
MA0087.10.838229
MA0088.10.158781
MA0089.10
MA0090.10.353576
MA0091.12.81626
MA0092.10.993944
MA0093.10.26836
MA0095.10
MA0098.10
MA0100.10.528088
MA0101.10.271368
MA0103.10.257174
MA0105.10.0643619
MA0106.10.554855
MA0107.10.205358
MA0108.20.707575
MA0109.10
MA0111.10.366362
MA0113.10.57094
MA0114.10.200901
MA0115.11.11137
MA0116.10.208403
MA0117.10.908433
MA0119.10.308914
MA0122.10.934245
MA0124.11.06995
MA0125.10.986127
MA0130.10
MA0131.10.625452
MA0132.10
MA0133.10
MA0135.10.90122
MA0136.10.521435
MA0139.10.406919
MA0140.10.474342
MA0141.10.322254
MA0142.10.679161
MA0143.10.571113
MA0144.10.1885
MA0145.10.177438
MA0146.10.0045741
MA0147.10.211483
MA0148.10.439278
MA0149.10.464973
MA0062.20.135498
MA0035.20.473658
MA0039.20.0006485
MA0138.20.608783
MA0002.20.46405
MA0137.20.28622
MA0104.20.161609
MA0047.20.542971
MA0112.20.0433683
MA0065.20.0483532
MA0150.10.34802
MA0151.10
MA0152.10.480711
MA0153.10.969315
MA0154.10.062786
MA0155.10.359913
MA0156.10.288314
MA0157.10.652111
MA0158.10
MA0159.10.60858
MA0160.11.15068
MA0161.10
MA0162.10.0107891
MA0163.10.00648562
MA0164.10.583138
MA0080.20.739941
MA0018.20.556211
MA0099.20.481058
MA0079.23.89582e-07
MA0102.21.41188
MA0258.10.180288
MA0259.10.218904
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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