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{{Coexpression_clusters
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8,0.175934,0.157274,0.215705,0.252796,0.205954,0.361435|tfbs_overrepresentation_for_novel_motifs=0.699513,0.869629,0.690871,0.855819,0.641468,0.853988,0.937929,0.494933,0.491742,0.221898,0.820209,0.985163,0.436625,0.925331,0.639839,0.667627,1.17594,0.575162,0.452865,0.305559,2.77916,0.242883,0.845342,1.53533,0.743951,1.00973,0.409304,0.842925,0.645155,0.388328,0.795576,1.21459,0.534793,1.11965,1.46099,0.137917,1.45286,0.855276,0.567465,1.18324,0.598234,0.777097,0.259059,1.54087,0.901413,1.72524,0.939121,0.808003,0.247669,0.645308,1.02504,0.951993,0.336258,1.29475,1.45259,0.928548,0.650353,0.892517,0.388177,0.891404,1.25741,0.941709,0.492369,1.14672,0.961293,1.11026,1.54311,1.91674,1.2037,1.75271,0.762094,0.502203,0.333216,1.45054,0.430728,1.06461,0.396746,1.12884,1.20029,0.73687,0.459024,1.14559,0.960908,0.498519,1.39759,0.977977,0.303648,0.381882,1.053,2.0169,1.63834,1.36973,1.23218,0.543775,0.642354,0.560075,0.450952,1.27663,1.05794,0.360456,0.569121,1.22626,1.27082,1.1798,1.09802,0.815119,1.16312,0.921547,0.743661,0.622396,0.703975,1.26794,0.684398,1.94007,1.58942,0.594137,1.05469,0.794219,1.10778,1.35006,1.44203,1.0504,0.850918,0.973172,1.70203,1.12965,0.930979,1.2374,1.48578,0.561252,1.37044,0.798812,1.50051,0.969553,1.65144,0.372828,1.8537,0.843556,1.60823,2.47382,2.06967,1.57016,0.932872,1.27296,1.09989,0.883164,1.08214,2.31409,0.773313,0.539692,0.318511,0.698641,1.37083,1.21015,0.941179,1.78371,2.35853,0.624795,0.744018,0.710709,1.56892,1.35169,1.19946,0.714443,1.11698,0.960047,0.524529,0.936473,0.56135|tfbs_overrepresentation_jaspar=MA0003.1;2.61626,MA0004.1;0.826076,MA0006.1;0.639288,MA0007.1;0.804807,MA0009.1;1.3275,MA0014.1;0.758317,MA0017.1;0.686276,MA0019.1;0.990656,MA0024.1;1.21731,MA0025.1;1.46617,MA0027.1;2.95767,MA0028.1;1.58389,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;2.37507,MA0056.1;0,MA0057.1;0.333427,MA0058.1;0.716037,MA0059.1;0.714521,MA0060.1;0.492218,MA0061.1;1.15625,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;2.0778,MA0072.1;1.29561,MA0073.1;0.0185922,MA0074.1;0.935474,MA0076.1;1.74184,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;0.642957,MA0095.1;0,MA0098.1;0,MA0100.1;0.956299,MA0101.1;2.63873,MA0103.1;0.628063,MA0105.1;1.5295,MA0106.1;0.986396,MA0107.1;1.36919,MA0108.2;1.15387,MA0109.1;0,MA0111.1;0.767139,MA0113.1;1.00436,MA0114.1;0.549955,MA0115.1;1.57693,MA0116.1;0.560723,MA0117.1;1.36676,MA0119.1;1.66081,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;1.6959,MA0142.1;1.12317,MA0143.1;1.00455,MA0144.1;0.531867,MA0145.1;0.273764,MA0146.1;0.107247,MA0147.1;0.565108,MA0148.1;0.854239,MA0149.1;0.884158,MA0062.2;1.9924,MA0035.2;0.894194,MA0039.2;0.432958,MA0138.2;1.04628,MA0002.2;1.20011,MA0137.2;1.60005,MA0104.2;0.491226,MA0047.2;0.973066,MA0112.2;0.264678,MA0065.2;0.277623,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;1.60572,MA0157.1;1.09377,MA0158.1;0,MA0159.1;0.565904,MA0160.1;0.871361,MA0161.1;0,MA0162.1;0.149099,MA0163.1;0.122425,MA0164.1;1.01792,MA0080.2;0.643061,MA0018.2;0.987913,MA0099.2;0.902716,MA0079.2;0.311277,MA0102.2;1.88331,MA0258.1;0.519674,MA0259.1;0.575594,MA0442.1;0}}
|full_id=C3942_Mast_CD14_CD4_CD8_Natural_Eosinophils_Basophils
|id=C3942
|ontology_enrichment_celltype=CL:0000738!3.42e-34!140;CL:0000988!4.32e-31!182;CL:0000037!8.77e-31!172;CL:0000566!8.77e-31!172;CL:0000766!8.79e-29!76;CL:0002032!4.85e-27!165;CL:0000837!4.85e-27!165;CL:0002031!3.77e-25!124;CL:0002057!4.64e-25!42;CL:0000557!1.28e-24!71;CL:0000763!2.38e-24!112;CL:0000049!2.38e-24!112;CL:0002087!1.61e-22!119;CL:0000839!1.87e-22!70;CL:0000860!2.19e-22!45;CL:0002009!5.80e-21!65;CL:0002194!1.89e-19!63;CL:0000576!1.89e-19!63;CL:0000040!1.89e-19!63;CL:0000559!1.89e-19!63;CL:0002393!1.03e-10!9;CL:0002397!1.03e-10!9;CL:0000134!4.92e-09!358;CL:0002320!1.49e-08!365;CL:0000451!1.63e-07!10;CL:0000081!4.90e-07!11;CL:0000080!6.60e-07!6;CL:0000624!7.38e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!2.16e-22!102;UBERON:0003061!2.16e-22!102;UBERON:0002371!7.86e-21!80;UBERON:0002193!6.89e-20!112;UBERON:0001474!9.71e-20!86;UBERON:0004765!1.67e-15!101;UBERON:0001434!1.67e-15!101;UBERON:0002405!9.17e-14!115;UBERON:0002384!4.00e-08!375;UBERON:0003081!1.21e-07!216
}}

Latest revision as of 12:36, 17 September 2013


Full id: C3942_Mast_CD14_CD4_CD8_Natural_Eosinophils_Basophils



Phase1 CAGE Peaks

Hg19::chr1:224033095..224033112,-p@chr1:224033095..224033112
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Hg19::chr1:224033119..224033129,-p@chr1:224033119..224033129
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Hg19::chr2:197127963..197127981,-p@chr2:197127963..197127981
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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
leukocyte3.92e-49136
hematopoietic cell1.67e-43177
hematopoietic stem cell1.59e-41168
angioblastic mesenchymal cell1.59e-41168
myeloid leukocyte1.70e-4172
granulocyte monocyte progenitor cell2.01e-3767
hematopoietic lineage restricted progenitor cell4.24e-35120
hematopoietic oligopotent progenitor cell4.14e-34161
hematopoietic multipotent progenitor cell4.14e-34161
myeloid lineage restricted progenitor cell1.76e-3366
classical monocyte4.85e-3342
CD14-positive, CD16-negative classical monocyte4.85e-3342
myeloid cell5.30e-32108
common myeloid progenitor5.30e-32108
nongranular leukocyte9.93e-30115
macrophage dendritic cell progenitor1.51e-2961
defensive cell6.02e-2848
phagocyte6.02e-2848
monopoietic cell1.78e-2659
monocyte1.78e-2659
monoblast1.78e-2659
promonocyte1.78e-2659
intermediate monocyte7.18e-239
CD14-positive, CD16-positive monocyte7.18e-239
mesenchymal cell3.53e-14354
circulating cell6.58e-146
connective tissue cell1.37e-13361
histamine secreting cell4.35e-135
biogenic amine secreting cell4.35e-135
granulocytopoietic cell4.35e-135
mast cell4.35e-135
mast cell progenitor4.35e-135
basophil mast progenitor cell4.35e-135
dendritic cell2.38e-1210
stuff accumulating cell3.68e-1287
motile cell1.56e-11386
CD4-positive, alpha-beta T cell7.78e-116
stem cell4.59e-10441
multi fate stem cell1.27e-09427
immature conventional dendritic cell1.63e-095
common dendritic progenitor1.63e-095
somatic stem cell2.86e-09433
natural killer cell8.47e-093
pro-NK cell8.47e-093
conventional dendritic cell1.35e-088
basophil1.51e-083
non-classical monocyte1.63e-083
CD14-low, CD16-positive monocyte1.63e-083
granulocyte5.77e-088
mature alpha-beta T cell5.89e-0818
alpha-beta T cell5.89e-0818
immature T cell5.89e-0818
mature T cell5.89e-0818
immature alpha-beta T cell5.89e-0818
blood cell7.27e-0811
plasmacytoid dendritic cell7.61e-083
single nucleate cell8.99e-083
mononuclear cell8.99e-083
endocrine cell4.71e-079
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.24e-4098
blood island5.24e-4098
hemolymphoid system3.83e-35108
bone marrow7.78e-3476
immune system8.07e-3193
bone element1.30e-3082
skeletal element5.53e-2790
skeletal system2.86e-23100
lateral plate mesoderm1.34e-15203
connective tissue8.61e-13371
musculoskeletal system7.47e-11167


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)
MA0003.12.61626
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.758317
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.11.58389
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
MA0055.12.37507
MA0056.10
MA0057.10.333427
MA0058.10.716037
MA0059.10.714521
MA0060.10.492218
MA0061.11.15625
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.12.0778
MA0072.11.29561
MA0073.10.0185922
MA0074.10.935474
MA0076.11.74184
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
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.12.63873
MA0103.10.628063
MA0105.11.5295
MA0106.10.986396
MA0107.11.36919
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.10.549955
MA0115.11.57693
MA0116.10.560723
MA0117.11.36676
MA0119.11.66081
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
MA0141.11.6959
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.21.9924
MA0035.20.894194
MA0039.20.432958
MA0138.21.04628
MA0002.21.20011
MA0137.21.60005
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.11.31345
MA0156.11.60572
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.311277
MA0102.21.88331
MA0258.10.519674
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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
ELF1#199734.258097958807540.01295179875054610.0462626255928138



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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