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Coexpression cluster:C464: Difference between revisions

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|tfbs_overrepresentation_for_novel_motifs=0.335365,0.942481,0.324717,0.18689,0.563528,0.545716,0.239567,1.24679,0.121741,0.0204012,0.165709,1.37192,0.40338,0.231159,0.560218,0.296747,0.416635,0.196076,0.0212388,0.953095,0.0985208,0.60723,1.02103,0.259643,0.124129,0.289541,1.20782,0.529528,0.0787487,0.509878,0.462061,0.448071,0.362042,0.0842136,0.481261,0.000484993,0.0600845,0.186559,2.6919,0.0244783,0.21951,0.436576,1.54895,0.94426,0.450097,0.115453,0.240368,0.158699,0.632018,1.44225,0.300624,0.249086,0.20228,0.515129,0.653159,0.233295,0.08088,0.209799,0.0544304,0.209089,0.483605,0.242112,1.6727,0.393294,0.255455,0.364726,0.73513,1.08739,0.43915,0.930562,0.133532,0.130122,0.00553467,0.651319,0.017273,0.590052,0.811576,0.379205,0.436366,0.120546,0.240865,0.392395,0.25519,0.553244,0.604277,0.00144418,0.00355274,1.06234,0.321213,1.18432,0.823081,0.579812,0.462581,0.672886,0.0776122,0.0481302,1.0458,0.499768,0.324895,0.00795051,0.190137,0.45769,0.494867,0.419744,0.355282,0.16277,0.406348,0.228655,0.123981,0.525206,0.340916,0.492438,0.316828,0.171884,0.777703,0.215264,0.0104292,1.44332,0.362802,3.1478,0.64371,1.5428,0.183912,0.263675,0.882719,0.379837,0.234914,0.466912,0.683004,0.721086,0.580435,0.153507,0.696335,0.26116,0.835304,1.01534,0.452662,0.179476,0.795107,1.6331,1.23566,0.759951,0.665332,0.496668,0.356718,0.20386,0.343142,1.4753,0.139503,0.162413,0.0781321,0.00135206,0.58078,0.0271838,0.241755,0.959994,0.830659,0.247915,0.124164,0.107739,0.758809,0.564094,0.435692,0.109525,0.36994,0.254599,0.971129,0.670955,0.0277697
|tfbs_overrepresentation_jaspar=MA0003.1;0.27956,MA0004.1;0.169125,MA0006.1;0.0763783,MA0007.1;0.156885,MA0009.1;0.543169,MA0014.1;0.0596512,MA0017.1;0.0964051,MA0019.1;0.275941,MA0024.1;0.450307,MA0025.1;0.665335,MA0027.1;2.11401,MA0028.1;0.286192,MA0029.1;0.467171,MA0030.1;0.457153,MA0031.1;0.401568,MA0038.1;0.678012,MA0040.1;0.472301,MA0041.1;0.181587,MA0042.1;0.160318,MA0043.1;0.543454,MA0046.1;0.533373,MA0048.1;0.0336117,MA0050.1;0.940798,MA0051.1;0.238478,MA0052.1;0.475699,MA0055.1;0.0716488,MA0056.1;0,MA0057.1;0.09109,MA0058.1;0.35609,MA0059.1;0.35417,MA0060.1;0.122116,MA0061.1;1.9162,MA0063.1;0,MA0066.1;0.678752,MA0067.1;0.83875,MA0068.1;0.168508,MA0069.1;0.529912,MA0070.1;0.519883,MA0071.1;1.15027,MA0072.1;1.28327,MA0073.1;0.200932,MA0074.1;0.669394,MA0076.1;0.762816,MA0077.1;2.19066,MA0078.1;0.846104,MA0081.1;0.109654,MA0083.1;0.549943,MA0084.1;1.01907,MA0087.1;0.513678,MA0088.1;0.0904746,MA0089.1;0,MA0090.1;0.127987,MA0091.1;0.509438,MA0092.1;0.146372,MA0093.1;0.268179,MA0095.1;0,MA0098.1;0,MA0100.1;0.252028,MA0101.1;0.272702,MA0103.1;1.3723,MA0105.1;2.09251,MA0106.1;0.272934,MA0107.1;0.400115,MA0108.2;0.398967,MA0109.1;0,MA0111.1;1.35328,MA0113.1;0.285689,MA0114.1;0.0450337,MA0115.1;0.766188,MA0116.1;1.10736,MA0117.1;0.577217,MA0119.1;0.100647,MA0122.1;0.600851,MA0124.1;0.727093,MA0125.1;0.648747,MA0130.1;0,MA0131.1;0.329895,MA0132.1;0,MA0133.1;0,MA0135.1;0.570637,MA0136.1;0.690268,MA0139.1;0.411319,MA0140.1;0.211376,MA0141.1;0.71372,MA0142.1;0.374765,MA0143.1;0.285827,MA0144.1;0.356992,MA0145.1;2.90424,MA0146.1;0.0432698,MA0147.1;0.049714,MA0148.1;0.185927,MA0149.1;1.11603,MA0062.2;1.03913,MA0035.2;0.210872,MA0039.2;0.0824067,MA0138.2;0.316226,MA0002.2;0.110362,MA0137.2;0.0876366,MA0104.2;0.0293723,MA0047.2;0.263601,MA0112.2;0.193034,MA0065.2;0.793594,MA0150.1;1.2794,MA0151.1;0,MA0152.1;0.216094,MA0153.1;0.633172,MA0154.1;0.163016,MA0155.1;0.470175,MA0156.1;1.03924,MA0157.1;0.352016,MA0158.1;0,MA0159.1;2.10766,MA0160.1;0.571442,MA0161.1;0,MA0162.1;0.000733895,MA0163.1;0.0333509,MA0164.1;0.295453,MA0080.2;0.566769,MA0018.2;0.274004,MA0099.2;1.16215,MA0079.2;0.0659037,MA0102.2;2.39833,MA0258.1;0.336256,MA0259.1;0.196503,MA0442.1;0
}}
}}

Revision as of 19:11, 22 January 2013


Full id: C464_clear_serous_pagetoid_squamous_chorionic_thyroid_renal



Phase1 CAGE Peaks

Hg19::chr10:69902750..69902779,+p@chr10:69902750..69902779
+
Hg19::chr15:58820746..58820787,+p@chr15:58820746..58820787
+
Hg19::chr15:58820851..58820862,+p@chr15:58820851..58820862
+
Hg19::chr15:67426669..67426682,+p@chr15:67426669..67426682
+
Hg19::chr16:34980045..34980053,+p@chr16:34980045..34980053
+
Hg19::chr16:34980881..34980902,+p1@ENST00000516136
Hg19::chr16:34980911..34980930,+p2@FLJ26245
Hg19::chr16:34980938..34980966,+p1@FLJ26245
Hg19::chr16:34980985..34980994,+p3@FLJ26245
Hg19::chr16:34981355..34981367,+p2@ENST00000516373
Hg19::chr16:34989787..34989796,+p@chr16:34989787..34989796
+
Hg19::chr16:34989813..34989818,+p@chr16:34989813..34989818
+
Hg19::chr16:34989823..34989828,+p@chr16:34989823..34989828
+
Hg19::chr17:36112802..36112808,+p@chr17:36112802..36112808
+
Hg19::chr1:21625486..21625505,-p24@ECE1
Hg19::chr21:47565715..47565733,+p@chr21:47565715..47565733
+
Hg19::chr5:82197742..82197746,-p@chr5:82197742..82197746
-
Hg19::chr5:82271529..82271542,-p@chr5:82271529..82271542
-
Hg19::chr6:94508854..94508876,-p@chr6:94508854..94508876
-
Hg19::chr7:155755248..155755251,+p1@ENST00000377722
Hg19::chr8:56313461..56313466,-p@chr8:56313461..56313466
-


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:0016512endothelin-converting enzyme 1 activity0.0035321647640094
GO:0016511endothelin-converting enzyme activity0.0035321647640094
GO:0004245neprilysin activity0.00824050467714057



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><br>disease_data<br>

Cell Type
Ontology termp-valuen
epithelial cell of uterus2.45e-126
stromal cell of endometrium2.45e-126


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)
MA0003.10.27956
MA0004.10.169125
MA0006.10.0763783
MA0007.10.156885
MA0009.10.543169
MA0014.10.0596512
MA0017.10.0964051
MA0019.10.275941
MA0024.10.450307
MA0025.10.665335
MA0027.12.11401
MA0028.10.286192
MA0029.10.467171
MA0030.10.457153
MA0031.10.401568
MA0038.10.678012
MA0040.10.472301
MA0041.10.181587
MA0042.10.160318
MA0043.10.543454
MA0046.10.533373
MA0048.10.0336117
MA0050.10.940798
MA0051.10.238478
MA0052.10.475699
MA0055.10.0716488
MA0056.10
MA0057.10.09109
MA0058.10.35609
MA0059.10.35417
MA0060.10.122116
MA0061.11.9162
MA0063.10
MA0066.10.678752
MA0067.10.83875
MA0068.10.168508
MA0069.10.529912
MA0070.10.519883
MA0071.11.15027
MA0072.11.28327
MA0073.10.200932
MA0074.10.669394
MA0076.10.762816
MA0077.12.19066
MA0078.10.846104
MA0081.10.109654
MA0083.10.549943
MA0084.11.01907
MA0087.10.513678
MA0088.10.0904746
MA0089.10
MA0090.10.127987
MA0091.10.509438
MA0092.10.146372
MA0093.10.268179
MA0095.10
MA0098.10
MA0100.10.252028
MA0101.10.272702
MA0103.11.3723
MA0105.12.09251
MA0106.10.272934
MA0107.10.400115
MA0108.20.398967
MA0109.10
MA0111.11.35328
MA0113.10.285689
MA0114.10.0450337
MA0115.10.766188
MA0116.11.10736
MA0117.10.577217
MA0119.10.100647
MA0122.10.600851
MA0124.10.727093
MA0125.10.648747
MA0130.10
MA0131.10.329895
MA0132.10
MA0133.10
MA0135.10.570637
MA0136.10.690268
MA0139.10.411319
MA0140.10.211376
MA0141.10.71372
MA0142.10.374765
MA0143.10.285827
MA0144.10.356992
MA0145.12.90424
MA0146.10.0432698
MA0147.10.049714
MA0148.10.185927
MA0149.11.11603
MA0062.21.03913
MA0035.20.210872
MA0039.20.0824067
MA0138.20.316226
MA0002.20.110362
MA0137.20.0876366
MA0104.20.0293723
MA0047.20.263601
MA0112.20.193034
MA0065.20.793594
MA0150.11.2794
MA0151.10
MA0152.10.216094
MA0153.10.633172
MA0154.10.163016
MA0155.10.470175
MA0156.11.03924
MA0157.10.352016
MA0158.10
MA0159.12.10766
MA0160.10.571442
MA0161.10
MA0162.10.000733895
MA0163.10.0333509
MA0164.10.295453
MA0080.20.566769
MA0018.20.274004
MA0099.21.16215
MA0079.20.0659037
MA0102.22.39833
MA0258.10.336256
MA0259.10.196503
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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