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Coexpression cluster:C659: Difference between revisions

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{{Coexpression_clusters
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carboxylase activity!0.00782859475616166!32$GO:0004075!biotin carboxylase activity!0.00782859475616166!32$GO:0048038!quinone binding!0.00782859475616166!8639$GO:0016421!CoA carboxylase activity!0.00782859475616166!32$GO:0008131!amine oxidase activity!0.00782859475616166!8639$GO:0016885!ligase activity, forming carbon-carbon bonds!0.00782859475616166!32$GO:0005811!lipid particle!0.00958518781345813!57104$GO:0004806!triacylglycerol lipase activity!0.0134161027078255!57104$GO:0009374!biotin binding!0.0134161027078255!32$GO:0016641!oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor!0.0154262469877776!8639$GO:0006629!lipid metabolic process!0.0156475119697776!32;57104$GO:0016638!oxidoreductase activity, acting on the CH-NH2 group of donors!0.0156475119697776!8639$GO:0006633!fatty acid biosynthetic process!0.0370468956978877!32$GO:0016053!organic acid biosynthetic process!0.0370468956978877!32$GO:0046394!carboxylic acid biosynthetic 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,0.527439,0.398227,0.273599,0.396837,0.369652,0.664067,0.567651,0.523596,0.651065,0.717141,0.263994,0.856818|tfbs_overrepresentation_for_novel_motifs=0.208137,0.724668,0.202418,0.857723,0.509452,0.319017,0.385011,0.628761,0.298989,0.251333,0.293498,0.423573,1.29802,0.37489,0.977694,0.549464,0.587543,0.131867,0.534957,0.74987,0.585797,0.300734,0.312425,0.500259,0.238419,0.443987,0.20034,0.310589,0.515041,0.399779,0.755662,0.622056,0.110199,0.868889,0.447686,0.0895248,0.143715,0.856792,0.401103,0.0786667,0.144976,0.261903,0.859837,0.504255,0.111026,0.226447,0.385972,0.284438,1.1298,0.515273,0.456831,0.396393,0.873179,0.694739,0.841347,0.377467,0.176395,0.348876,0.399478,0.348003,0.660716,0.388062,0.299793,0.561703,1.04233,0.529794,0.927044,1.28869,0.612294,1.12869,0.700198,0.312497,0.123677,0.839414,0.224555,0.205774,0.733065,0.546008,0.609242,0.659074,0.258113,0.560705,0.403653,0.307716,0.789807,0.914491,0.0226931,0.170958,1.20774,1.38705,1.01818,0.763867,0.637885,0.742351,0.984035,0.123575,0.905787,0.67819,0.484706,1.86339,0.403442,0.632556,0.672898,0.590971,0.519171,0.289709,0.576179,0.371864,0.670087,0.933941,0.211112,0.670274,0.198172,0.301413,0.971251,0.142611,0.523438,0.274314,0.527634,0.373,0.831412,0.478284,0.316671,1.06352,1.0796,0.546713,0.379419,0.642598,0.872646,0.784076,0.76453,0.761072,0.886589,0.410725,1.03079,0.369137,0.270369,0.836727,0.989273,1.83943,1.43902,0.95284,0.38094,0.674844,0.52079,0.904915,0.505455,1.68078,0.259186,0.362523,0.500211,0.159485,0.764896,0.286124,0.387634,1.15881,0.465765,0.48439,0.238466,0.21563,0.951654,0.747146,0.608503,0.21815,0.535644,0.402951,0.10496,0.998288,0.984117|tfbs_overrepresentation_jaspar=MA0003.1;0.902292,MA0004.1;0.297884,MA0006.1;0.169524,MA0007.1;0.282081,MA0009.1;0.724811,MA0014.1;0.231235,MA0017.1;0.57848,MA0019.1;0.428118,MA0024.1;0.6245,MA0025.1;0.854131,MA0027.1;2.32165,MA0028.1;1.02527,MA0029.1;0.642879,MA0030.1;0.63197,MA0031.1;0.570886,MA0038.1;1.00626,MA0040.1;0.648455,MA0041.1;0.313738,MA0042.1;0.286538,MA0043.1;0.725115,MA0046.1;0.714324,MA0048.1;0.30948,MA0050.1;0.287284,MA0051.1;0.383704,MA0052.1;0.652145,MA0055.1;0.083823,MA0056.1;0,MA0057.1;0.294933,MA0058.1;0.219229,MA0059.1;0.218203,MA0060.1;0.2996,MA0061.1;0.255087,MA0063.1;0,MA0066.1;0.387854,MA0067.1;1.03434,MA0068.1;0.434546,MA0069.1;0.710614,MA0070.1;0.69985,MA0071.1;0.930644,MA0072.1;0.695528,MA0073.1;0.0316086,MA0074.1;0.383033,MA0076.1;0.655479,MA0077.1;0.688123,MA0078.1;0.473657,MA0081.1;0.218332,MA0083.1;1.73647,MA0084.1;1.21913,MA0087.1;0.693179,MA0088.1;0.0644248,MA0089.1;0,MA0090.1;0.682802,MA0091.1;0.812021,MA0092.1;0.739628,MA0093.1;0.171791,MA0095.1;0,MA0098.1;0,MA0100.1;0.399896,MA0101.1;0.17426,MA0103.1;0.162663,MA0105.1;0.26318,MA0106.1;0.424592,MA0107.1;0.385539,MA0108.2;0.568002,MA0109.1;0,MA0111.1;0.254772,MA0113.1;0.439505,MA0114.1;0.376635,MA0115.1;0.959312,MA0116.1;0.123927,MA0117.1;0.76111,MA0119.1;1.12008,MA0122.1;0.786181,MA0124.1;0.918678,MA0125.1;0.83671,MA0130.1;0,MA0131.1;0.490408,MA0132.1;0,MA0133.1;0,MA0135.1;0.754112,MA0136.1;0.393782,MA0139.1;0.235473,MA0140.1;0.350813,MA0141.1;0.216821,MA0142.1;0.541045,MA0143.1;0.439666,MA0144.1;0.108694,MA0145.1;1.29615,MA0146.1;0.660397,MA0147.1;0.126316,MA0148.1;0.319209,MA0149.1;0.342334,MA0062.2;0.527542,MA0035.2;0.350194,MA0039.2;0.6245,MA0138.2;0.474787,MA0002.2;0.280231,MA0137.2;0.186529,MA0104.2;0.088751,MA0047.2;0.413608,MA0112.2;0.592222,MA0065.2;0.641236,MA0150.1;0.238884,MA0151.1;0,MA0152.1;0.356591,MA0153.1;0.820317,MA0154.1;0.7755,MA0155.1;0.560882,MA0156.1;0.18827,MA0157.1;0.515488,MA0158.1;0,MA0159.1;1.29394,MA0160.1;0.884483,MA0161.1;0,MA0162.1;1.33143,MA0163.1;0.24594,MA0164.1;0.450848,MA0080.2;0.171855,MA0018.2;0.425847,MA0099.2;0.356906,MA0079.2;0.329712,MA0102.2;1.25596,MA0258.1;0.335505,MA0259.1;0.132107,MA0442.1;0}}
|full_id=C659_Adipocyte_mature_Mesenchymal_breast_heart_adipose_left
|id=C659
}}

Latest revision as of 11:28, 17 September 2013


Full id: C659_Adipocyte_mature_Mesenchymal_breast_heart_adipose_left



Phase1 CAGE Peaks

Hg19::chr11:819562..819579,+p1@PNPLA2
Hg19::chr11:819601..819612,+p3@PNPLA2
Hg19::chr11:821664..821701,+p7@PNPLA2
Hg19::chr11:822561..822594,-p@chr11:822561..822594
-
Hg19::chr11:825056..825073,-p1@ENST00000528982
Hg19::chr12:109704726..109704729,+p19@ACACB
Hg19::chr15:90208696..90208713,-p@chr15:90208696..90208713
-
Hg19::chr17:41003273..41003300,+p2@AOC3
Hg19::chr17:41005249..41005263,+p@chr17:41005249..41005263
+
Hg19::chr17:80382262..80382282,+p@chr17:80382262..80382282
+
Hg19::chr1:171238128..171238142,+p@chr1:171238128..171238142
+
Hg19::chr1:219632507..219632553,-p@chr1:219632507..219632553
-
Hg19::chr3:186574030..186574040,+p@chr3:186574030..186574040
+


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:0003989acetyl-CoA carboxylase activity0.00782859475616166
GO:0004075biotin carboxylase activity0.00782859475616166
GO:0048038quinone binding0.00782859475616166
GO:0016421CoA carboxylase activity0.00782859475616166
GO:0008131amine oxidase activity0.00782859475616166
GO:0016885ligase activity, forming carbon-carbon bonds0.00782859475616166
GO:0005811lipid particle0.00958518781345813
GO:0004806triacylglycerol lipase activity0.0134161027078255
GO:0009374biotin binding0.0134161027078255
GO:0016641oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor0.0154262469877776
GO:0006629lipid metabolic process0.0156475119697776
GO:0016638oxidoreductase activity, acting on the CH-NH2 group of donors0.0156475119697776
GO:0006633fatty acid biosynthetic process0.0370468956978877
GO:0016053organic acid biosynthetic process0.0370468956978877
GO:0046394carboxylic acid biosynthetic process0.0370468956978877
GO:0005507copper ion binding0.0489097875833071
GO:0016298lipase activity0.0494498284901388
GO:0016042lipid catabolic process0.0494498284901388
GO:0030145manganese ion binding0.0494498284901388
GO:0009986cell surface0.0494498284901388



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>

Cell Type
Ontology termp-valuen
fat cell2.96e-3215
subcutaneous fat cell9.40e-123
adipocyte of omentum tissue1.88e-113
adipocyte of breast7.44e-082
Uber Anatomy
Ontology termp-valuen
adult organism7.90e-18114
subcutaneous adipose tissue9.40e-123
open tracheal system trachea2.23e-072
male reproductive organ2.71e-0711
throat3.30e-072
hypodermis3.49e-075
Disease
Ontology termp-valuen
heart disease1.01e-072


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)
MA0003.10.902292
MA0004.10.297884
MA0006.10.169524
MA0007.10.282081
MA0009.10.724811
MA0014.10.231235
MA0017.10.57848
MA0019.10.428118
MA0024.10.6245
MA0025.10.854131
MA0027.12.32165
MA0028.11.02527
MA0029.10.642879
MA0030.10.63197
MA0031.10.570886
MA0038.11.00626
MA0040.10.648455
MA0041.10.313738
MA0042.10.286538
MA0043.10.725115
MA0046.10.714324
MA0048.10.30948
MA0050.10.287284
MA0051.10.383704
MA0052.10.652145
MA0055.10.083823
MA0056.10
MA0057.10.294933
MA0058.10.219229
MA0059.10.218203
MA0060.10.2996
MA0061.10.255087
MA0063.10
MA0066.10.387854
MA0067.11.03434
MA0068.10.434546
MA0069.10.710614
MA0070.10.69985
MA0071.10.930644
MA0072.10.695528
MA0073.10.0316086
MA0074.10.383033
MA0076.10.655479
MA0077.10.688123
MA0078.10.473657
MA0081.10.218332
MA0083.11.73647
MA0084.11.21913
MA0087.10.693179
MA0088.10.0644248
MA0089.10
MA0090.10.682802
MA0091.10.812021
MA0092.10.739628
MA0093.10.171791
MA0095.10
MA0098.10
MA0100.10.399896
MA0101.10.17426
MA0103.10.162663
MA0105.10.26318
MA0106.10.424592
MA0107.10.385539
MA0108.20.568002
MA0109.10
MA0111.10.254772
MA0113.10.439505
MA0114.10.376635
MA0115.10.959312
MA0116.10.123927
MA0117.10.76111
MA0119.11.12008
MA0122.10.786181
MA0124.10.918678
MA0125.10.83671
MA0130.10
MA0131.10.490408
MA0132.10
MA0133.10
MA0135.10.754112
MA0136.10.393782
MA0139.10.235473
MA0140.10.350813
MA0141.10.216821
MA0142.10.541045
MA0143.10.439666
MA0144.10.108694
MA0145.11.29615
MA0146.10.660397
MA0147.10.126316
MA0148.10.319209
MA0149.10.342334
MA0062.20.527542
MA0035.20.350194
MA0039.20.6245
MA0138.20.474787
MA0002.20.280231
MA0137.20.186529
MA0104.20.088751
MA0047.20.413608
MA0112.20.592222
MA0065.20.641236
MA0150.10.238884
MA0151.10
MA0152.10.356591
MA0153.10.820317
MA0154.10.7755
MA0155.10.560882
MA0156.10.18827
MA0157.10.515488
MA0158.10
MA0159.11.29394
MA0160.10.884483
MA0161.10
MA0162.11.33143
MA0163.10.24594
MA0164.10.450848
MA0080.20.171855
MA0018.20.425847
MA0099.20.356906
MA0079.20.329712
MA0102.21.25596
MA0258.10.335505
MA0259.10.132107
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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