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Coexpression cluster:C222: Difference between revisions

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{{Coexpression_clusters
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47,0.991748,0.98867,0.942255,0.991936,0.512241,0.880255,0.943282,0.986389,0.996208,0.999157,0.576942,0.952414,0.993671,0.997895,0.995697,0.77916,0.993689,0.998789,0.925749,0.967023,0.996471,0.978357,0.996424,0.981766,0.572813,0.772745,0.687,0.635832,0.998865,0.992389,0.999913,0.973945,0.937622,0.894696,0.916882,0.735664,0.994859,0.976209,0.995448,0.990956,0.94351,0.998516,0.999656,0.986644,0.977055,0.998411,0.970985,0.995025,0.943096,0.987895,0.988218,0.803422,0.998466,0.998605,0.992827,0.994551,0.993529,0.963663,0.990408,0.997985,0.930802,0.995956,0.997804,0.983695,0.992144,0.961704,0.991406,0.997419,0.974945,0.952368,0.998396,0.995752,0.98331,0.985229,0.890205,0.955799,0.999682,0.999212,0.995167,0.844227,0.992484,0.91333,0.696914,0.69808,0.971277,0.827943,0.593759,0.697816,0.999764,0.998604,0.994165,0.988947,0.996865,0.989473,0.840701,0.893272,0.762214,0.940207,0.760695,0.908728,0.773936,0.820668,0.949505,0.918303,0.623726,0.777198,0.869201,0.555652,0.956781,0.992945,0.999498,0.999338,0.999902,0.963536,0.998662,0.998348,0.992074,0.996274,0.999537,0.998226,0.985565,0.999274,0.998711,0.953171,0.977509,0.993292,0.991886,0.999342,0.980198,0.999801,0.930538,0.995153,0.995872,0.929618,0.990898,0.98987,0.99923,0.999264,0.998034,0.97971,0.995921,0.881014,0.999816,0.996088,0.99357,0.887381,0.857248,0.99974,0.914188,0.976434,0.998948,0.797753,0.998926,0.900482,0.995722,0.984893,0.884479,0.994827,0.986756,0.993239,0.99994|tfbs_overrepresentation_for_novel_motifs=0.0207422,0.00314816,0.64081,0.6407,0.309125,2.18737,0.558765,1.33851,0.218097,0.000374298,1.15783,0.375149,0.0647525,1.65716,1.53069,0.220961,0.355927,2.41077,0.805222,0.145682,0.89694,0.0206686,0.368536,2.63049,2.77149,0.185368,0.0006767,3.13448,0.317339,0.0130438,0.281892,0.128219,0.0623141,0.119247,0.0227321,8.76466e-05,0.0573965,0.199454,0.168486,0.02473,0.355259,1.31126,0.00191727,0.674642,0.000590989,0.771231,0.561442,1.47357,0.00653685,0.0942505,0.768049,0.325129,0.00361808,1.55506,0.267067,0.122325,0.723997,3.57096,0.937707,0.458688,0.894281,1.74013,0.473721,0.662499,0.338813,0.0829343,0.330565,0.634378,0.389255,0.494239,0.0378986,0.900387,0.00111346,0.265686,0.10593,0.0454765,0.00197275,0.090229,1.25971,0.0897596,1.29952,0.320962,0.145753,1.95953,0.231091,1.87489e-07,0.000404818,0.0494026,0.062611,0.723693,0.402373,1.15184,0.136867,1.44787,0.181628,0.083508,0.218747,0.159951,0.496135,0.00248008,0.0151068,0.133928,1.47858,1.19814,3.95643,0.156658,0.340968,0.117558,0.204186,0.00825041,0.285018,0.917531,0.00287666,0.341988,1.70342,0.344524,5.71933e-05,1.40037,0.0819847,0.0109875,0.259994,1.26332,0.194534,0.155227,0.452854,0.629044,0.29521,0.139488,0.788573,2.64466,0.613513,2.27521,0.300056,0.0388522,0.412612,0.0210148,0.718462,0.071753,0.379168,1.15303,0.77165,2.49727,0.547471,0.157978,0.0790113,0.0213098,0.918914,0.999919,0.00803706,0.0287518,0.0126149,0.000154837,1.15448,0.19619,0.566078,0.520049,0.0570962,0.00852079,0.0322062,0.0722331,0.922676,0.202736,0.769862,0.074589,0.289493,0.145101,0.0548396,0.302896,4.84137e-05|tfbs_overrepresentation_jaspar=MA0003.1;0.0470905,MA0004.1;1.18403,MA0006.1;0.304319,MA0007.1;0.297084,MA0009.1;0.188448,MA0014.1;9.52193e-05,MA0017.1;0.252736,MA0019.1;0.383754,MA0024.1;0.129538,MA0025.1;0.276261,MA0027.1;1.62682,MA0028.1;0.0130864,MA0029.1;0.139645,MA0030.1;0.416449,MA0031.1;0.101986,MA0038.1;0.131055,MA0040.1;0.142775,MA0041.1;0.0735289,MA0042.1;0.0564905,MA0043.1;0.18864,MA0046.1;0.181878,MA0048.1;0.00417543,MA0050.1;0.153425,MA0051.1;0.0312827,MA0052.1;0.144862,MA0055.1;0.0100901,MA0056.1;0,MA0057.1;0.0182582,MA0058.1;0.731509,MA0059.1;0.166479,MA0060.1;0.21916,MA0061.1;0.00741891,MA0063.1;0,MA0066.1;0.566693,MA0067.1;0.415509,MA0068.1;0.0185149,MA0069.1;0.179575,MA0070.1;0.514567,MA0071.1;0.251073,MA0072.1;0.170332,MA0073.1;0.00336592,MA0074.1;0.301492,MA0076.1;0.0881774,MA0077.1;0.165866,MA0078.1;0.0600174,MA0081.1;0.0747608,MA0083.1;0.563219,MA0084.1;0.572572,MA0087.1;0.504648,MA0088.1;0.00183379,MA0089.1;0,MA0090.1;3.34067,MA0091.1;0.170853,MA0092.1;0.0463939,MA0093.1;0.944035,MA0095.1;0,MA0098.1;0,MA0100.1;0.600621,MA0101.1;0.039152,MA0103.1;0.871305,MA0105.1;0.245071,MA0106.1;0.0430936,MA0107.1;0.0125785,MA0108.2;0.100589,MA0109.1;0,MA0111.1;0.113046,MA0113.1;0.180764,MA0114.1;0.07454,MA0115.1;0.355528,MA0116.1;0.0134037,MA0117.1;0.211867,MA0119.1;6.0085,MA0122.1;0.228629,MA0124.1;0.86615,MA0125.1;0.263758,MA0130.1;0,MA0131.1;0.0664674,MA0132.1;0,MA0133.1;0,MA0135.1;0.207272,MA0136.1;0.0339983,MA0139.1;0.00145258,MA0140.1;0.466073,MA0141.1;0.0237235,MA0142.1;0.296176,MA0143.1;0.405913,MA0144.1;0.00023117,MA0145.1;0.52623,MA0146.1;0.000370047,MA0147.1;0.273358,MA0148.1;0.385224,MA0149.1;0.0214733,MA0062.2;3.21994e-05,MA0035.2;0.0999679,MA0039.2;6.81277e-08,MA0138.2;1.24864,MA0002.2;0.111606,MA0137.2;0.0022598,MA0104.2;0.0726509,MA0047.2;0.155143,MA0112.2;5.85036,MA0065.2;0.253294,MA0150.1;0.0954098,MA0151.1;0,MA0152.1;0.105019,MA0153.1;0.252172,MA0154.1;0.679878,MA0155.1;0.406906,MA0156.1;0.0148088,MA0157.1;0.265062,MA0158.1;0,MA0159.1;0.595093,MA0160.1;0.418327,MA0161.1;0,MA0162.1;2.92482e-05,MA0163.1;0.256225,MA0164.1;0.427763,MA0080.2;0.03756,MA0018.2;0.0434893,MA0099.2;0.105271,MA0079.2;1.08007e-10,MA0102.2;0.605147,MA0258.1;13.4249,MA0259.1;0.181638,MA0442.1;0}}
|full_id=C222_Melanocyte_Tracheal_Neutrophils_seminal_Smooth_Hair_Chondrocyte
|id=C222
}}

Latest revision as of 10:59, 17 September 2013


Full id: C222_Melanocyte_Tracheal_Neutrophils_seminal_Smooth_Hair_Chondrocyte



Phase1 CAGE Peaks

Hg19::chr12:127650883..127650899,+p@chr12:127650883..127650899
+
Hg19::chr12:20704408..20704429,-p@chr12:20704408..20704429
-
Hg19::chr16:47538712..47538741,+p@chr16:47538712..47538741
+
Hg19::chr16:47539078..47539114,+p@chr16:47539078..47539114
+
Hg19::chr16:47539123..47539137,+p@chr16:47539123..47539137
+
Hg19::chr16:47539167..47539197,+p@chr16:47539167..47539197
+
Hg19::chr16:47539209..47539227,+p@chr16:47539209..47539227
+
Hg19::chr17:19355659..19355697,+p@chr17:19355659..19355697
+
Hg19::chr17:19355708..19355726,-p@chr17:19355708..19355726
-
Hg19::chr17:19355981..19356006,+p@chr17:19355981..19356006
+
Hg19::chr17:55868735..55868760,-p1@ENST00000465918
Hg19::chr19:24183671..24183682,-p@chr19:24183671..24183682
-
Hg19::chr19:24183683..24183733,-p@chr19:24183683..24183733
-
Hg19::chr19:24184094..24184124,+p@chr19:24184094..24184124
+
Hg19::chr19:24184120..24184171,-p1@ENST00000516139
Hg19::chr19:24184398..24184425,-p@chr19:24184398..24184425
-
Hg19::chr19:24184427..24184439,-p@chr19:24184427..24184439
-
Hg19::chr19:24184523..24184537,-p@chr19:24184523..24184537
-
Hg19::chr19:24184625..24184659,-p@chr19:24184625..24184659
-
Hg19::chr19:24184734..24184744,-p@chr19:24184734..24184744
-
Hg19::chr19:24184742..24184755,+p@chr19:24184742..24184755
+
Hg19::chr19:24184761..24184801,-p@chr19:24184761..24184801
-
Hg19::chr19:24184789..24184805,+p@chr19:24184789..24184805
+
Hg19::chr19:24184810..24184853,-p@chr19:24184810..24184853
-
Hg19::chr19:24184982..24185040,-p@chr19:24184982..24185040
-
Hg19::chr19:36066500..36066548,+p@chr19:36066500..36066548
+
Hg19::chr19:36066685..36066712,+p@chr19:36066685..36066712
+
Hg19::chr19:54158391..54158409,-p1@ENST00000465104
Hg19::chr1:108113112..108113127,-p@chr1:108113112..108113127
-
Hg19::chr1:108113342..108113377,-p@chr1:108113342..108113377
-
Hg19::chr1:108113380..108113412,-p@chr1:108113380..108113412
-
Hg19::chr1:108113460..108113484,-p@chr1:108113460..108113484
-
Hg19::chr1:108113504..108113523,+p@chr1:108113504..108113523
+
Hg19::chr1:108113539..108113572,-p1@ENST00000516385
Hg19::chr1:108113587..108113609,-p2@ENST00000516385
Hg19::chr1:182181606..182181635,-p@chr1:182181606..182181635
-
Hg19::chr1:222522767..222522779,+p1@ENST00000481366
Hg19::chr1:91852865..91852920,+p@chr1:91852865..91852920
+
Hg19::chr1:91853052..91853084,+p@chr1:91853052..91853084
+
Hg19::chr20:46687619..46687628,-p@chr20:46687619..46687628
-
Hg19::chr2:133038149..133038183,-p@chr2:133038149..133038183
-
Hg19::chr2:133038177..133038193,+p@chr2:133038177..133038193
+
Hg19::chr2:133038186..133038189,-p@chr2:133038186..133038189
-
Hg19::chr2:133038197..133038248,-p@chr2:133038197..133038248
-
Hg19::chr2:133038477..133038499,-p@chr2:133038477..133038499
-
Hg19::chr2:133038779..133038807,-p1@ENST00000516509
Hg19::chr2:133038924..133038952,-p@chr2:133038924..133038952
-
Hg19::chr2:133039059..133039080,-p@chr2:133039059..133039080
-
Hg19::chr2:133039143..133039211,-p@chr2:133039143..133039211
-
Hg19::chr2:230045512..230045561,-p@chr2:230045512..230045561
-
Hg19::chr2:230045560..230045595,+p@chr2:230045560..230045595
+
Hg19::chr2:230045581..230045635,-p1@ENST00000490522
Hg19::chr4:70296632..70296655,-p@chr4:70296632..70296655
-
Hg19::chr5:71146736..71146779,+p1@ENST00000489202
Hg19::chr5:71146768..71146806,-p@chr5:71146768..71146806
-
Hg19::chr5:71146851..71146906,+p@chr5:71146851..71146906
+
Hg19::chr5:71146907..71146947,-p@chr5:71146907..71146947
-
Hg19::chr6:133594052..133594086,+p@chr6:133594052..133594086
+
Hg19::chr7:68527609..68527620,+p3@ENST00000517158
Hg19::chr8:56755274..56755292,-p2@ENST00000498581
Hg19::chr8:56755296..56755334,-p1@ENST00000498581
Hg19::chr9:79186680..79186713,-p@chr9:79186680..79186713
-
Hg19::chrX:108297439..108297456,-p1@RN28S1
Hg19::chrX:108297729..108297767,-p3@RN28S1
Hg19::chrX:108297807..108297838,-p2@RN28S1


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>

Cell Type
Ontology termp-valuen
smooth muscle cell7.76e-0743
smooth muscle myoblast7.76e-0743


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)
MA0003.10.0470905
MA0004.11.18403
MA0006.10.304319
MA0007.10.297084
MA0009.10.188448
MA0014.19.52193e-05
MA0017.10.252736
MA0019.10.383754
MA0024.10.129538
MA0025.10.276261
MA0027.11.62682
MA0028.10.0130864
MA0029.10.139645
MA0030.10.416449
MA0031.10.101986
MA0038.10.131055
MA0040.10.142775
MA0041.10.0735289
MA0042.10.0564905
MA0043.10.18864
MA0046.10.181878
MA0048.10.00417543
MA0050.10.153425
MA0051.10.0312827
MA0052.10.144862
MA0055.10.0100901
MA0056.10
MA0057.10.0182582
MA0058.10.731509
MA0059.10.166479
MA0060.10.21916
MA0061.10.00741891
MA0063.10
MA0066.10.566693
MA0067.10.415509
MA0068.10.0185149
MA0069.10.179575
MA0070.10.514567
MA0071.10.251073
MA0072.10.170332
MA0073.10.00336592
MA0074.10.301492
MA0076.10.0881774
MA0077.10.165866
MA0078.10.0600174
MA0081.10.0747608
MA0083.10.563219
MA0084.10.572572
MA0087.10.504648
MA0088.10.00183379
MA0089.10
MA0090.13.34067
MA0091.10.170853
MA0092.10.0463939
MA0093.10.944035
MA0095.10
MA0098.10
MA0100.10.600621
MA0101.10.039152
MA0103.10.871305
MA0105.10.245071
MA0106.10.0430936
MA0107.10.0125785
MA0108.20.100589
MA0109.10
MA0111.10.113046
MA0113.10.180764
MA0114.10.07454
MA0115.10.355528
MA0116.10.0134037
MA0117.10.211867
MA0119.16.0085
MA0122.10.228629
MA0124.10.86615
MA0125.10.263758
MA0130.10
MA0131.10.0664674
MA0132.10
MA0133.10
MA0135.10.207272
MA0136.10.0339983
MA0139.10.00145258
MA0140.10.466073
MA0141.10.0237235
MA0142.10.296176
MA0143.10.405913
MA0144.10.00023117
MA0145.10.52623
MA0146.10.000370047
MA0147.10.273358
MA0148.10.385224
MA0149.10.0214733
MA0062.23.21994e-05
MA0035.20.0999679
MA0039.26.81277e-08
MA0138.21.24864
MA0002.20.111606
MA0137.20.0022598
MA0104.20.0726509
MA0047.20.155143
MA0112.25.85036
MA0065.20.253294
MA0150.10.0954098
MA0151.10
MA0152.10.105019
MA0153.10.252172
MA0154.10.679878
MA0155.10.406906
MA0156.10.0148088
MA0157.10.265062
MA0158.10
MA0159.10.595093
MA0160.10.418327
MA0161.10
MA0162.12.92482e-05
MA0163.10.256225
MA0164.10.427763
MA0080.20.03756
MA0018.20.0434893
MA0099.20.105271
MA0079.21.08007e-10
MA0102.20.605147
MA0258.113.4249
MA0259.10.181638
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

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