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Coexpression cluster:C1323: Difference between revisions

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|tfbs_overrepresentation_for_novel_motifs=0.44418,0.603698,0.436508,0.58616,1.01854,0.584466,0.662701,0.269608,0.267027,0.075749,0.553339,0.707204,1.18908,0.650887,0.391663,0.415981,0.889639,0.336106,0.664996,0.127969,0.436569,0.0880431,0.576478,0.387783,0.483957,0.730467,0.202389,0.574247,0.396295,0.186644,0.530785,2.13721,0.302275,1.19786,0.35719,0.134746,0.35388,0.585658,0.329602,0.248856,0.355745,0.513952,0.664116,1.79057,0.154075,0.468392,0.66382,0.542147,0.630853,1.02586,0.745008,0.675919,0.891214,1.00488,1.15929,0.653901,0.400834,0.62023,1.04504,0.619193,0.968558,0.666252,0.737866,0.861462,0.684675,0.826413,1.24834,1.61834,0.916468,1.45553,0.500342,0.275507,0.146905,1.15727,0.218784,0.594475,0.562953,0.84426,0.913168,1.20149,0.240887,0.86037,0.684313,0.272514,1.10535,0.0481066,0.398737,0.536262,0.771626,1.71797,1.34233,1.07807,0.94406,0.30974,0.393853,0.32338,1.23175,0.987239,0.776336,0.166235,0.881389,0.938327,0.981588,0.893363,0.814675,0.548668,0.877269,0.647343,0.483695,0.376529,0.44815,0.978783,1.10061,0.563054,1.29401,1.65925,0.0577227,0.529546,0.824029,0.312699,1.14892,0.769145,0.581628,0.695878,1.40534,0.845034,0.656181,0.949126,1.1919,0.324369,1.07876,0.53374,2.70463,0.692462,1.35529,0.999497,0.524606,0.57483,1.31259,2.17352,1.7705,1.27501,0.657956,0.983666,0.816466,0.611524,0.799467,2.01411,0.510514,0.306342,0.424432,0.0926553,2.44691,1.32317,0.665754,1.48627,0.755083,0.378604,0.484017,0.454152,1.27379,1.06043,0.912368,0.457485,0.83286,0.683502,0.79772,0.661335,0.0115686
|tfbs_overrepresentation_jaspar=MA0003.1;0.00461978,MA0004.1;0.558729,MA0006.1;0.391183,MA0007.1;0.539222,MA0009.1;1.03681,MA0014.1;0.0254709,MA0017.1;0.432438,MA0019.1;0.7124,MA0024.1;0.929647,MA0025.1;1.17262,MA0027.1;2.65688,MA0028.1;0.408079,MA0029.1;0.949428,MA0030.1;0.937696,MA0031.1;0.871496,MA0038.1;0.665566,MA0040.1;0.955415,MA0041.1;0.578072,MA0042.1;0.544748,MA0043.1;1.03713,MA0046.1;1.02569,MA0048.1;0.152639,MA0050.1;0.545671,MA0051.1;0.661179,MA0052.1;0.959373,MA0055.1;0.213007,MA0056.1;0,MA0057.1;2.04333,MA0058.1;0.458909,MA0059.1;0.457555,MA0060.1;0.267412,MA0061.1;2.71441,MA0063.1;0,MA0066.1;0.66601,MA0067.1;1.35893,MA0068.1;0.578694,MA0069.1;1.02175,MA0070.1;1.01032,MA0071.1;0.625297,MA0072.1;1.00572,MA0073.1;0.00563817,MA0074.1;1.58758,MA0076.1;0.475586,MA0077.1;0.997832,MA0078.1;1.80244,MA0081.1;0.457725,MA0083.1;1.04447,MA0084.1;1.5477,MA0087.1;1.00322,MA0088.1;0.660742,MA0089.1;0,MA0090.1;0.490736,MA0091.1;0.561458,MA0092.1;0.522012,MA0093.1;0.394379,MA0095.1;0,MA0098.1;0,MA0100.1;0.679972,MA0101.1;1.81721,MA0103.1;0.381434,MA0105.1;0.419295,MA0106.1;0.70837,MA0107.1;1.54633,MA0108.2;0.868347,MA0109.1;0,MA0111.1;0.504913,MA0113.1;0.725375,MA0114.1;0.314898,MA0115.1;1.28169,MA0116.1;0.323925,MA0117.1;1.07516,MA0119.1;0.440684,MA0122.1;1.10154,MA0124.1;1.23968,MA0125.1;1.15445,MA0130.1;0,MA0131.1;0.782708,MA0132.1;0,MA0133.1;0,MA0135.1;1.06778,MA0136.1;0.672893,MA0139.1;0.226048,MA0140.1;0.622527,MA0141.1;1.15452,MA0142.1;0.838805,MA0143.1;0.725558,MA0144.1;0.299851,MA0145.1;0.107156,MA0146.1;0.0213085,MA0147.1;0.327615,MA0148.1;0.584698,MA0149.1;0.612449,MA0062.2;0.23336,MA0035.2;0.621793,MA0039.2;0.0929059,MA0138.2;0.765223,MA0002.2;0.255126,MA0137.2;0.414885,MA0104.2;0.26661,MA0047.2;0.695777,MA0112.2;0.101413,MA0065.2;1.18263,MA0150.1;0.484557,MA0151.1;0,MA0152.1;1.52275,MA0153.1;1.13732,MA0154.1;1.92418,MA0155.1;0.318517,MA0156.1;0.417278,MA0157.1;0.810597,MA0158.1;0,MA0159.1;0.875329,MA0160.1;0.600559,MA0161.1;0,MA0162.1;0.0383129,MA0163.1;0.113377,MA0164.1;1.74929,MA0080.2;0.394469,MA0018.2;0.709805,MA0099.2;0.629739,MA0079.2;0.983809,MA0102.2;1.58513,MA0258.1;0.289793,MA0259.1;0.336472,MA0442.1;0
}}
}}

Revision as of 19:51, 22 January 2013


Full id: C1323_heart_Lymphatic_left_mesenchymal_skeletal_bone_Adipocyte



Phase1 CAGE Peaks

Hg19::chr10:92672040..92672054,-p@chr10:92672040..92672054
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Hg19::chr10:92675596..92675615,-p@chr10:92675596..92675615
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Hg19::chr10:92679951..92679969,-p@chr10:92679951..92679969
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Hg19::chr10:92679988..92680056,-p@chr10:92679988..92680056
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Hg19::chr10:92680062..92680080,-p@chr10:92680062..92680080
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Hg19::chr10:92680836..92680853,-p1@ANKRD1


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><br>

Uber Anatomy
Ontology termp-valuen
vasculature1.02e-2178
vascular system1.02e-2178
circulatory system2.31e-21112
vessel3.69e-2168
epithelial tube2.32e-20117
unilaminar epithelium2.01e-19148
cardiovascular system2.48e-19109
splanchnic layer of lateral plate mesoderm1.21e-1883
epithelial tube open at both ends2.20e-1859
blood vessel2.20e-1859
blood vasculature2.20e-1859
vascular cord2.20e-1859
blood vessel endothelium2.83e-1518
endothelium2.83e-1518
cardiovascular system endothelium2.83e-1518
simple squamous epithelium3.74e-1422
squamous epithelium1.55e-1125
cell layer4.40e-11309
epithelium9.98e-11306
primary circulatory organ1.64e-1027
trunk mesenchyme2.26e-10122
trunk1.54e-09199
mesenchyme1.62e-09160
entire embryonic mesenchyme1.62e-09160
endothelial tube7.30e-099
arterial system endothelium7.30e-099
endothelium of artery7.30e-099
artery2.71e-0842
arterial blood vessel2.71e-0842
arterial system2.71e-0842
heart3.14e-0824
primitive heart tube3.14e-0824
primary heart field3.14e-0824
anterior lateral plate mesoderm3.14e-0824
heart tube3.14e-0824
heart primordium3.14e-0824
cardiac mesoderm3.14e-0824
cardiogenic plate3.14e-0824
heart rudiment3.14e-0824
epithelial vesicle3.54e-0878
skeletal muscle tissue3.89e-0862
striated muscle tissue3.89e-0862
myotome3.89e-0862
somite5.06e-0871
presomitic mesoderm5.06e-0871
presumptive segmental plate5.06e-0871
dermomyotome5.06e-0871
trunk paraxial mesoderm5.06e-0871
organism subdivision8.29e-08264
umbilical blood vessel9.11e-089
paraxial mesoderm9.32e-0872
presumptive paraxial mesoderm9.32e-0872
muscle tissue1.46e-0764
musculature1.46e-0764
musculature of body1.46e-0764
mesoderm1.57e-07315
mesoderm-derived structure1.57e-07315
presumptive mesoderm1.57e-07315
dense mesenchyme tissue1.68e-0773
vein3.87e-079
venous blood vessel3.87e-079
venous system3.87e-079


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)
MA0003.10.00461978
MA0004.10.558729
MA0006.10.391183
MA0007.10.539222
MA0009.11.03681
MA0014.10.0254709
MA0017.10.432438
MA0019.10.7124
MA0024.10.929647
MA0025.11.17262
MA0027.12.65688
MA0028.10.408079
MA0029.10.949428
MA0030.10.937696
MA0031.10.871496
MA0038.10.665566
MA0040.10.955415
MA0041.10.578072
MA0042.10.544748
MA0043.11.03713
MA0046.11.02569
MA0048.10.152639
MA0050.10.545671
MA0051.10.661179
MA0052.10.959373
MA0055.10.213007
MA0056.10
MA0057.12.04333
MA0058.10.458909
MA0059.10.457555
MA0060.10.267412
MA0061.12.71441
MA0063.10
MA0066.10.66601
MA0067.11.35893
MA0068.10.578694
MA0069.11.02175
MA0070.11.01032
MA0071.10.625297
MA0072.11.00572
MA0073.10.00563817
MA0074.11.58758
MA0076.10.475586
MA0077.10.997832
MA0078.11.80244
MA0081.10.457725
MA0083.11.04447
MA0084.11.5477
MA0087.11.00322
MA0088.10.660742
MA0089.10
MA0090.10.490736
MA0091.10.561458
MA0092.10.522012
MA0093.10.394379
MA0095.10
MA0098.10
MA0100.10.679972
MA0101.11.81721
MA0103.10.381434
MA0105.10.419295
MA0106.10.70837
MA0107.11.54633
MA0108.20.868347
MA0109.10
MA0111.10.504913
MA0113.10.725375
MA0114.10.314898
MA0115.11.28169
MA0116.10.323925
MA0117.11.07516
MA0119.10.440684
MA0122.11.10154
MA0124.11.23968
MA0125.11.15445
MA0130.10
MA0131.10.782708
MA0132.10
MA0133.10
MA0135.11.06778
MA0136.10.672893
MA0139.10.226048
MA0140.10.622527
MA0141.11.15452
MA0142.10.838805
MA0143.10.725558
MA0144.10.299851
MA0145.10.107156
MA0146.10.0213085
MA0147.10.327615
MA0148.10.584698
MA0149.10.612449
MA0062.20.23336
MA0035.20.621793
MA0039.20.0929059
MA0138.20.765223
MA0002.20.255126
MA0137.20.414885
MA0104.20.26661
MA0047.20.695777
MA0112.20.101413
MA0065.21.18263
MA0150.10.484557
MA0151.10
MA0152.11.52275
MA0153.11.13732
MA0154.11.92418
MA0155.10.318517
MA0156.10.417278
MA0157.10.810597
MA0158.10
MA0159.10.875329
MA0160.10.600559
MA0161.10
MA0162.10.0383129
MA0163.10.113377
MA0164.11.74929
MA0080.20.394469
MA0018.20.709805
MA0099.20.629739
MA0079.20.983809
MA0102.21.58513
MA0258.10.289793
MA0259.10.336472
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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