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Coexpression cluster:C319: Difference between revisions

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|tfbs_overrepresentation_for_novel_motifs=0.0287425,7.23655e-08,0.0269591,18.1446,0.660018,0.0735202,0.10819,0.00375336,0.0668694,5.3799e-06,0.0616072,0.409166,0.00157917,0.102536,0.0178858,0.0225221,0.241765,0.00969171,0.00204609,9.55894e-05,0.113182,1.24986e-05,0.070358,0.0783262,0.0390948,0.143316,0.000985336,0.523767,0.018718,0.0520008,0.198201,0.267649,0.00619703,0.00165709,0.0124237,4.63162e-08,0.0119651,0.073998,0.0456027,0.00261218,1.94393,0.0481345,0.00497031,0.649842,1.22565e-07,0.139395,0.714411,0.209901,14.2542,0.0187423,0.151425,0.114685,0.00183462,0.324404,0.44636,0.339349,0.0195564,2.10827,0.000660967,0.296528,0.297482,2.35398,0.00362587,0.22289,0.119085,0.200228,0.521221,0.855242,1.32827,1.67963,0.0439016,12.7188,0.000197127,1.97638,0.00143197,0.00107595,0.00078019,0.607649,0.257953,0.964837,2.94577,0.22217,0.118901,0.706737,0.402504,3.96353e-07,1.8698,0.0478139,0.964986,0.949353,0.603033,0.38081,0.279762,2.42612,0.0182763,39.5722,0.043558,0.311235,0.16954,0.000371417,0.265996,0.275668,0.827688,0.684247,0.192851,0.0599151,0.233409,0.100868,0.0390206,0.0153312,0.0296924,0.304984,0.26424,0.0652065,0.560651,0.0117425,1.57956e-05,0.0532522,0.198721,0.109022,0.437833,0.495789,0.0723883,0.124825,0.659217,1.14589,0.105051,0.283396,0.47344,0.252853,0.381361,0.444069,0.485604,0.123062,0.614506,0.000484164,0.191962,0.245145,0.576866,1.39099,0.999445,0.544168,0.105901,4.12758,0.19397,1.01006,0.183458,1.23491,0.0470448,0.00656257,0.000135644,1.65912e-05,1.76154,0.00312692,0.109674,0.732713,0.157155,0.0156667,0.634117,0.0311632,0.54311,0.366972,0.257396,1.28076,16.3666,0.118491,0.0054798,3.00509,7.81187e-11
|tfbs_overrepresentation_jaspar=MA0003.1;2.85586e-13,MA0004.1;0.063591,MA0006.1;0.017801,MA0007.1;0.0565706,MA0009.1;0.348676,MA0014.1;9.20242e-09,MA0017.1;0.0260407,MA0019.1;0.416216,MA0024.1;0.269509,MA0025.1;0.457382,MA0027.1;1.8693,MA0028.1;0.0209428,MA0029.1;0.283613,MA0030.1;0.275218,MA0031.1;0.229546,MA0038.1;0.354223,MA0040.1;0.28793,MA0041.1;0.0709832,MA0042.1;0.212621,MA0043.1;0.348924,MA0046.1;0.340164,MA0048.1;0.00204631,MA0050.1;0.213589,MA0051.1;0.107453,MA0052.1;0.290795,MA0055.1;1.24962e-06,MA0056.1;0,MA0057.1;0.000198151,MA0058.1;0.0323589,MA0059.1;0.0320159,MA0060.1;0.00361847,MA0061.1;0.213879,MA0063.1;0,MA0066.1;0.109799,MA0067.1;0.617744,MA0068.1;0.000918689,MA0069.1;0.337164,MA0070.1;0.328499,MA0071.1;1.55884,MA0072.1;0.325036,MA0073.1;0,MA0074.1;0.107076,MA0076.1;0.0367614,MA0077.1;0.319123,MA0078.1;0.162277,MA0081.1;0.032059,MA0083.1;0.354583,MA0084.1;0.789341,MA0087.1;0.323157,MA0088.1;2.16033e-05,MA0089.1;0,MA0090.1;0.0410451,MA0091.1;0.064608,MA0092.1;0.0507443,MA0093.1;0.0183708,MA0095.1;0,MA0098.1;0,MA0100.1;0.116712,MA0101.1;0.084972,MA0103.1;0.0742812,MA0105.1;0.000125439,MA0106.1;0.131372,MA0107.1;0.041265,MA0108.2;0.644907,MA0109.1;0,MA0111.1;0.0452988,MA0113.1;0.434,MA0114.1;0.411742,MA0115.1;0.549953,MA0116.1;0.00831185,MA0117.1;0.37852,MA0119.1;0.0279214,MA0122.1;0.399455,MA0124.1;0.513817,MA0125.1;0.442376,MA0130.1;0,MA0131.1;0.173329,MA0132.1;0,MA0133.1;0,MA0135.1;0.372723,MA0136.1;11.2334,MA0139.1;0.0940753,MA0140.1;0.0895621,MA0141.1;0.128645,MA0142.1;1.13026,MA0143.1;0.140623,MA0144.1;0.00598591,MA0145.1;3.68375e-05,MA0146.1;6.22471e-08,MA0147.1;0.00871497,MA0148.1;0.073613,MA0149.1;0.0851592,MA0062.2;0.00194025,MA0035.2;0.0892374,MA0039.2;4.02839e-10,MA0138.2;0.163015,MA0002.2;0.133452,MA0137.2;0.0222989,MA0104.2;0.0035701,MA0047.2;0.124773,MA0112.2;2.7275e-05,MA0065.2;0.0022167,MA0150.1;0.153714,MA0151.1;0,MA0152.1;0.0926128,MA0153.1;0.42835,MA0154.1;0.00105603,MA0155.1;2.03953e-05,MA0156.1;0.243463,MA0157.1;0.190314,MA0158.1;0,MA0159.1;0.0449759,MA0160.1;1.45519,MA0161.1;0,MA0162.1;1.04268e-07,MA0163.1;0.00194394,MA0164.1;0.147628,MA0080.2;1.78604,MA0018.2;0.41269,MA0099.2;0.0927801,MA0079.2;0,MA0102.2;0.824164,MA0258.1;0.00516272,MA0259.1;0.277049,MA0442.1;0
}}
}}

Revision as of 19:03, 22 January 2013


Full id: C319_CD14_Neural_Hepatocyte_Neurons_optic_heart_migratory



Phase1 CAGE Peaks

Hg19::chr11:51572116..51572132,+p@chr11:51572116..51572132
+
Hg19::chr12:34846341..34846350,-p@chr12:34846341..34846350
-
Hg19::chr18:18518105..18518132,+p@chr18:18518105..18518132
+
Hg19::chr19:27733888..27733894,-p@chr19:27733888..27733894
-
Hg19::chr1:121484421..121484466,+p@chr1:121484421..121484466
+
Hg19::chr1:121484466..121484499,-p@chr1:121484466..121484499
-
Hg19::chr1:121484540..121484563,-p@chr1:121484540..121484563
-
Hg19::chr1:121484587..121484617,+p@chr1:121484587..121484617
+
Hg19::chr1:121484620..121484648,-p@chr1:121484620..121484648
-
Hg19::chr1:121484663..121484674,+p@chr1:121484663..121484674
+
Hg19::chr1:121484726..121484747,+p@chr1:121484726..121484747
+
Hg19::chr1:121484793..121484854,+p@chr1:121484793..121484854
+
Hg19::chr1:121484852..121484888,-p@chr1:121484852..121484888
-
Hg19::chr1:121484998..121485040,+p@chr1:121484998..121485040
+
Hg19::chr1:121485035..121485074,-p@chr1:121485035..121485074
-
Hg19::chr1:121485187..121485212,+p@chr1:121485187..121485212
+
Hg19::chr1:121485212..121485254,-p@chr1:121485212..121485254
-
Hg19::chr1:121485345..121485375,+p@chr1:121485345..121485375
+
Hg19::chr1:121485374..121485399,-p@chr1:121485374..121485399
-
Hg19::chr2:92269315..92269359,+p@chr2:92269315..92269359
+
Hg19::chr2:92269459..92269479,+p@chr2:92269459..92269479
+
Hg19::chr2:92269498..92269517,+p@chr2:92269498..92269517
+
Hg19::chr2:92269597..92269622,+p@chr2:92269597..92269622
+
Hg19::chr3:196625613..196625636,+p@chr3:196625613..196625636
+
Hg19::chr3:196625671..196625730,+p@chr3:196625671..196625730
+
Hg19::chr6:58777359..58777399,+p@chr6:58777359..58777399
+
Hg19::chr6:58777582..58777603,+p@chr6:58777582..58777603
+
Hg19::chr6:58777668..58777693,-p@chr6:58777668..58777693
-
Hg19::chr6:58779028..58779078,+p@chr6:58779028..58779078
+
Hg19::chr7:61968942..61968968,+p@chr7:61968942..61968968
+
Hg19::chr7:61968977..61968993,-p@chr7:61968977..61968993
-
Hg19::chr7:61969256..61969284,+p@chr7:61969256..61969284
+
Hg19::chr7:61969289..61969315,-p@chr7:61969289..61969315
-
Hg19::chr7:61969317..61969357,+p@chr7:61969317..61969357
+
Hg19::chr7:61969343..61969394,-p@chr7:61969343..61969394
-
Hg19::chr7:61969437..61969456,+p@chr7:61969437..61969456
+
Hg19::chr7:61969465..61969493,-p@chr7:61969465..61969493
-


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><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)
MA0003.12.85586e-13
MA0004.10.063591
MA0006.10.017801
MA0007.10.0565706
MA0009.10.348676
MA0014.19.20242e-09
MA0017.10.0260407
MA0019.10.416216
MA0024.10.269509
MA0025.10.457382
MA0027.11.8693
MA0028.10.0209428
MA0029.10.283613
MA0030.10.275218
MA0031.10.229546
MA0038.10.354223
MA0040.10.28793
MA0041.10.0709832
MA0042.10.212621
MA0043.10.348924
MA0046.10.340164
MA0048.10.00204631
MA0050.10.213589
MA0051.10.107453
MA0052.10.290795
MA0055.11.24962e-06
MA0056.10
MA0057.10.000198151
MA0058.10.0323589
MA0059.10.0320159
MA0060.10.00361847
MA0061.10.213879
MA0063.10
MA0066.10.109799
MA0067.10.617744
MA0068.10.000918689
MA0069.10.337164
MA0070.10.328499
MA0071.11.55884
MA0072.10.325036
MA0073.10
MA0074.10.107076
MA0076.10.0367614
MA0077.10.319123
MA0078.10.162277
MA0081.10.032059
MA0083.10.354583
MA0084.10.789341
MA0087.10.323157
MA0088.12.16033e-05
MA0089.10
MA0090.10.0410451
MA0091.10.064608
MA0092.10.0507443
MA0093.10.0183708
MA0095.10
MA0098.10
MA0100.10.116712
MA0101.10.084972
MA0103.10.0742812
MA0105.10.000125439
MA0106.10.131372
MA0107.10.041265
MA0108.20.644907
MA0109.10
MA0111.10.0452988
MA0113.10.434
MA0114.10.411742
MA0115.10.549953
MA0116.10.00831185
MA0117.10.37852
MA0119.10.0279214
MA0122.10.399455
MA0124.10.513817
MA0125.10.442376
MA0130.10
MA0131.10.173329
MA0132.10
MA0133.10
MA0135.10.372723
MA0136.111.2334
MA0139.10.0940753
MA0140.10.0895621
MA0141.10.128645
MA0142.11.13026
MA0143.10.140623
MA0144.10.00598591
MA0145.13.68375e-05
MA0146.16.22471e-08
MA0147.10.00871497
MA0148.10.073613
MA0149.10.0851592
MA0062.20.00194025
MA0035.20.0892374
MA0039.24.02839e-10
MA0138.20.163015
MA0002.20.133452
MA0137.20.0222989
MA0104.20.0035701
MA0047.20.124773
MA0112.22.7275e-05
MA0065.20.0022167
MA0150.10.153714
MA0151.10
MA0152.10.0926128
MA0153.10.42835
MA0154.10.00105603
MA0155.12.03953e-05
MA0156.10.243463
MA0157.10.190314
MA0158.10
MA0159.10.0449759
MA0160.11.45519
MA0161.10
MA0162.11.04268e-07
MA0163.10.00194394
MA0164.10.147628
MA0080.21.78604
MA0018.20.41269
MA0099.20.0927801
MA0079.20
MA0102.20.824164
MA0258.10.00516272
MA0259.10.277049
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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