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{{Coexpression_clusters
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568,0.246105,0.173026,0.200432,0.139785,0.197112,0.240478,0.156465,0.13108,0.256963,0.222798,0.172134,0.176789,0.0969345,0.202137,0.310405,0.280943,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.15113,0.078016,0.0407233,0.0537355,0.0577193,0.261724,0.211332,0.187731,0.233626,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.204393,0.295769,0.0457063,0.347036,0.141729,0.263159,0.255956,0.200105,0.227491,0.29837,0.0352561,0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.0342254,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.222548,0.175934,0.157274,0.215705,0.252796,0.205954,0.361435|tfbs_overrepresentation_for_novel_motifs=0.699513,0.869629,0.690871,0.855819,0.641468,0.853988,0.937929,1.23863,0.491742,0.63186,0.820209,0.985163,0.436625,0.925331,0.639839,0.667627,1.17594,0.575162,0.452865,0.305559,0.69094,0.242883,0.845342,0.635379,0.743951,1.00973,1.05396,0.842925,0.645155,0.388328,0.795576,1.21459,0.534793,1.11965,0.599922,0.843849,0.596053,0.855276,1.39264,0.469078,0.598234,0.777097,0.718382,0.63803,0.461452,0.726632,0.939121,0.808003,1.28131,0.645308,1.02504,0.951993,0.336258,1.29475,1.45259,0.928548,0.650353,0.892517,0.388177,0.891404,1.25741,0.941709,0.492369,1.14672,0.961293,1.11026,1.54311,1.91674,1.2037,1.75271,0.762094,0.502203,0.333216,1.45054,0.430728,0.414196,0.396746,1.12884,1.20029,0.73687,0.459024,1.14559,0.960908,0.498519,1.39759,0.169933,0.82001,0.381882,1.053,2.0169,1.63834,1.36973,1.23218,0.543775,0.642354,0.560075,0.450952,1.27663,1.05794,0.946807,0.569121,1.22626,1.27082,1.1798,1.09802,0.815119,1.16312,0.921547,0.743661,0.622396,0.703975,1.26794,0.684398,0.830777,1.58942,0.594137,0.188952,0.794219,1.10778,0.547323,1.44203,1.0504,1.98143,0.973172,1.70203,1.12965,0.930979,1.2374,1.48578,0.561252,1.37044,0.798812,1.50051,0.969553,1.65144,0.372828,0.788803,0.843556,1.60823,2.47382,2.06967,1.57016,0.932872,1.27296,1.09989,0.883164,1.08214,2.31409,0.773313,0.539692,0.318511,0.250511,1.37083,0.481626,0.941179,1.78371,1.03563,0.624795,0.744018,0.710709,1.56892,1.35169,1.19946,0.714443,1.11698,0.960047,0.524529,0.936473,0.951408|tfbs_overrepresentation_jaspar=MA0003.1;0.178364,MA0004.1;0.826076,MA0006.1;0.639288,MA0007.1;0.804807,MA0009.1;1.3275,MA0014.1;0.118426,MA0017.1;0.686276,MA0019.1;0.990656,MA0024.1;1.21731,MA0025.1;1.46617,MA0027.1;2.95767,MA0028.1;0.658629,MA0029.1;1.23771,MA0030.1;1.22561,MA0031.1;1.15713,MA0038.1;0.94098,MA0040.1;1.24388,MA0041.1;0.847069,MA0042.1;0.810843,MA0043.1;1.32783,MA0046.1;1.31611,MA0048.1;0.341392,MA0050.1;0.81185,MA0051.1;0.936307,MA0052.1;1.24796,MA0055.1;0.190716,MA0056.1;0,MA0057.1;0.886807,MA0058.1;1.70328,MA0059.1;1.70014,MA0060.1;0.492218,MA0061.1;0.456531,MA0063.1;0,MA0066.1;0.941452,MA0067.1;1.65513,MA0068.1;0.405474,MA0069.1;1.31207,MA0070.1;1.30033,MA0071.1;0.897953,MA0072.1;1.29561,MA0073.1;0.990225,MA0074.1;0.935474,MA0076.1;0.734647,MA0077.1;1.28751,MA0078.1;1.04495,MA0081.1;0.714712,MA0083.1;1.33535,MA0084.1;1.84562,MA0087.1;1.29304,MA0088.1;0.257905,MA0089.1;0,MA0090.1;0.751469,MA0091.1;0.829044,MA0092.1;0.785956,MA0093.1;1.55117,MA0095.1;0,MA0098.1;0,MA0100.1;0.956299,MA0101.1;0.646932,MA0103.1;0.628063,MA0105.1;0.31555,MA0106.1;0.986396,MA0107.1;0.556367,MA0108.2;1.15387,MA0109.1;0,MA0111.1;0.767139,MA0113.1;1.00436,MA0114.1;1.35563,MA0115.1;1.57693,MA0116.1;1.3784,MA0117.1;1.36676,MA0119.1;0.695578,MA0122.1;1.39371,MA0124.1;1.53432,MA0125.1;1.44766,MA0130.1;0,MA0131.1;1.06461,MA0132.1;0,MA0133.1;0,MA0135.1;1.35921,MA0136.1;0.948776,MA0139.1;0.440097,MA0140.1;0.894983,MA0141.1;0.712476,MA0142.1;1.12317,MA0143.1;1.00455,MA0144.1;0.531867,MA0145.1;0.752137,MA0146.1;1.70974,MA0147.1;1.38767,MA0148.1;0.854239,MA0149.1;0.884158,MA0062.2;0.449458,MA0035.2;0.894194,MA0039.2;0.432958,MA0138.2;1.04628,MA0002.2;0.476938,MA0137.2;0.666381,MA0104.2;1.2307,MA0047.2;0.973066,MA0112.2;2.07067,MA0065.2;1.39232,MA0150.1;0.744617,MA0151.1;0,MA0152.1;0.902317,MA0153.1;1.43021,MA0154.1;0.312019,MA0155.1;1.31345,MA0156.1;0.669101,MA0157.1;1.09377,MA0158.1;0,MA0159.1;0.565904,MA0160.1;0.871361,MA0161.1;0,MA0162.1;0.149099,MA0163.1;1.2663,MA0164.1;1.01792,MA0080.2;0.643061,MA0018.2;0.987913,MA0099.2;0.902716,MA0079.2;0.0373086,MA0102.2;1.88331,MA0258.1;1.29138,MA0259.1;0.575594,MA0442.1;0}}
|full_id=C3630_Sebocyte_Mammary_Keratinocyte_Urothelial_Tracheal_Corneal_Esophageal
|id=C3630
|ontology_enrichment_celltype=CL:0000066!1.50e-29!254;CL:0002076!3.97e-19!43;CL:0000223!6.61e-16!59;CL:0002251!2.45e-10!21;CL:0002368!4.45e-10!13;CL:0002159!3.19e-08!13;CL:0002202!8.83e-07!9;CL:0002632!8.83e-07!9
|ontology_enrichment_disease=DOID:305!1.40e-18!106;DOID:0050687!6.75e-11!143;DOID:1749!2.36e-09!14
|ontology_enrichment_uberon=UBERON:0004119!1.35e-30!169;UBERON:0000925!1.35e-30!169;UBERON:0006595!1.35e-30!169;UBERON:0001007!5.46e-23!155;UBERON:0001555!5.46e-23!155;UBERON:0007026!5.46e-23!155;UBERON:0001004!1.18e-21!72;UBERON:0000077!8.54e-21!130;UBERON:0004921!2.39e-19!129;UBERON:0004185!2.39e-19!129;UBERON:0000065!1.57e-16!53;UBERON:0001041!3.02e-15!98;UBERON:0008947!3.92e-13!38;UBERON:0003258!3.92e-13!38;UBERON:0000072!1.32e-12!46;UBERON:0000161!1.60e-11!35;UBERON:0005911!1.55e-10!82;UBERON:0005153!2.34e-09!37;UBERON:0000166!8.46e-09!21;UBERON:0000464!9.76e-09!104;UBERON:0005631!1.26e-08!14;UBERON:0000158!1.26e-08!14;UBERON:0000466!1.96e-08!126;UBERON:0005178!3.75e-08!34;UBERON:0002224!3.75e-08!34;UBERON:0001737!8.11e-08!9;UBERON:0005181!1.09e-07!35;UBERON:0003104!1.12e-07!238;UBERON:0009142!1.12e-07!238;UBERON:0000165!2.19e-07!28;UBERON:0000930!2.19e-07!28;UBERON:0001557!3.25e-07!19;UBERON:0000062!3.70e-07!511;UBERON:0003124!8.16e-07!7
}}

Latest revision as of 12:30, 17 September 2013


Full id: C3630_Sebocyte_Mammary_Keratinocyte_Urothelial_Tracheal_Corneal_Esophageal



Phase1 CAGE Peaks

Hg19::chr17:38633109..38633113,-p@chr17:38633109..38633113
-
Hg19::chr17:38645058..38645086,+p@chr17:38645058..38645086
+
Hg19::chr17:38657867..38657882,-p1@TNS4


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>disease_data<br>

Cell Type
Ontology termp-valuen
epithelial cell4.32e-35253
endo-epithelial cell1.31e-3142
endodermal cell1.25e-2658
respiratory epithelial cell1.22e-1913
epithelial cell of alimentary canal2.07e-1620
epithelial cell of tracheobronchial tree4.53e-139
epithelial cell of lower respiratory tract4.53e-139
general ecto-epithelial cell1.33e-1214
acinar cell1.81e-105
transitional epithelial cell5.19e-094
urothelial cell5.19e-094
protein secreting cell1.30e-086
stratified squamous epithelial cell3.25e-086
keratin accumulating cell3.25e-086
stratified epithelial cell3.25e-086
keratinizing barrier epithelial cell3.25e-086
epithelial fate stem cell3.25e-086
stratified epithelial stem cell3.25e-086
surface ectodermal cell3.25e-086
extraembryonic cell3.69e-0819
epidermal cell1.48e-079
squamous epithelial cell3.67e-0763
bronchial epithelial cell3.82e-073
duct epithelial cell5.52e-073
branched duct epithelial cell5.52e-073
tracheal epithelial cell5.52e-073
tracheoblast5.52e-073
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure8.87e-29160
endoderm8.87e-29160
presumptive endoderm8.87e-29160
respiratory system1.66e-2774
respiratory tract5.64e-2054
digestive system1.92e-19145
digestive tract1.92e-19145
primitive gut1.92e-19145
foregut3.33e-1887
respiratory primordium3.07e-1738
endoderm of foregut3.07e-1738
subdivision of digestive tract9.52e-16118
larynx5.85e-159
extraembryonic membrane2.70e-1414
membranous layer2.70e-1414
segment of respiratory tract5.95e-1447
orifice7.14e-1136
endo-epithelium1.15e-1082
upper respiratory tract1.50e-1019
oral opening1.84e-1022
urothelium5.10e-105
chorion7.23e-097
tracheobronchial tree7.68e-0915
lower respiratory tract7.68e-0915
mouth1.15e-0829
stomodeum1.15e-0829
epithelial bud1.33e-0837
surface structure2.87e-0899
transitional epithelium3.02e-086
mucosa3.89e-0820
epithelial fold4.33e-0847
saliva-secreting gland9.61e-086
gland of oral region9.61e-086
gland of foregut9.61e-086
oral gland9.61e-086
oral cavity9.61e-086
organ part1.73e-07218
mouth mucosa2.11e-0713
organ component layer2.64e-0766
thoracic cavity element2.69e-0734
thoracic cavity2.69e-0734
extraembryonic structure3.32e-0724
exocrine gland3.78e-0731
exocrine system3.78e-0731
lower respiratory tract epithelium3.82e-073
epithelium of bronchus3.82e-073
amnion4.20e-077
thoracic segment organ5.42e-0735
primordium5.65e-07160
gland7.40e-0759
Disease
Ontology termp-valuen
carcinoma1.67e-16106
squamous cell carcinoma5.92e-1014
cell type cancer2.03e-09143


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)
MA0003.10.178364
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.10.658629
MA0029.11.23771
MA0030.11.22561
MA0031.11.15713
MA0038.10.94098
MA0040.11.24388
MA0041.10.847069
MA0042.10.810843
MA0043.11.32783
MA0046.11.31611
MA0048.10.341392
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.10.190716
MA0056.10
MA0057.10.886807
MA0058.11.70328
MA0059.11.70014
MA0060.10.492218
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.990225
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.257905
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.11.55117
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.31555
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.11.35563
MA0115.11.57693
MA0116.11.3784
MA0117.11.36676
MA0119.10.695578
MA0122.11.39371
MA0124.11.53432
MA0125.11.44766
MA0130.10
MA0131.11.06461
MA0132.10
MA0133.10
MA0135.11.35921
MA0136.10.948776
MA0139.10.440097
MA0140.10.894983
MA0141.10.712476
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.752137
MA0146.11.70974
MA0147.11.38767
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.432958
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.21.2307
MA0047.20.973066
MA0112.22.07067
MA0065.21.39232
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.11.31345
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.11.2663
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.0373086
MA0102.21.88331
MA0258.11.29138
MA0259.10.575594
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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