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{{Coexpression_clusters
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0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.249955,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.222548,0.175934,0.157274,0.215705,0.252796,0.205954,0.361435|tfbs_overrepresentation_for_novel_motifs=1.66899,1.40091,1.65103,0.855819,2.62123,0.853988,0.937929,1.23863,1.23181,0.221898,0.820209,0.985163,0.436625,0.925331,0.639839,0.667627,1.17594,0.575162,2.00385,0.305559,0.69094,0.242883,0.845342,0.635379,0.743951,1.00973,0.409304,0.842925,0.645155,0.388328,0.795576,1.21459,0.534793,0.439574,0.599922,0.137917,0.596053,0.855276,0.567465,1.18324,0.598234,0.777097,0.718382,1.54087,0.151453,1.72524,0.939121,0.808003,0.69206,0.645308,1.02504,0.951993,0.336258,1.29475,1.45259,0.928548,0.650353,0.892517,0.388177,0.891404,1.25741,0.941709,0.492369,1.14672,0.961293,1.11026,1.54311,1.91674,1.2037,1.75271,0.762094,0.502203,0.333216,1.45054,0.430728,0.414196,0.396746,1.12884,1.20029,0.73687,0.459024,1.14559,0.960908,0.498519,1.39759,0.169933,0.303648,0.381882,1.053,2.0169,1.63834,1.36973,1.23218,0.543775,0.642354,1.37703,1.14422,1.27663,1.05794,0.360456,0.569121,1.22626,1.27082,1.1798,1.09802,0.815119,1.16312,0.921547,0.743661,0.622396,0.703975,1.26794,0.684398,0.830777,1.58942,0.594137,0.553386,0.794219,1.10778,0.547323,1.44203,1.0504,0.850918,0.973172,1.70203,1.12965,0.930979,1.2374,1.48578,0.561252,1.37044,0.798812,1.50051,0.969553,1.65144,0.372828,0.788803,0.843556,1.60823,2.47382,2.06967,1.57016,0.932872,1.27296,1.09989,2.04753,1.08214,2.31409,0.773313,0.539692,0.318511,0.250511,1.37083,0.481626,0.941179,1.78371,1.03563,0.624795,0.744018,0.710709,1.56892,1.35169,1.19946,0.714443,1.11698,0.960047,1.3017,0.936473,0.265282|tfbs_overrepresentation_jaspar=MA0003.1;0.0471418,MA0004.1;0.826076,MA0006.1;1.5435,MA0007.1;0.804807,MA0009.1;1.3275,MA0014.1;1.24048,MA0017.1;0.686276,MA0019.1;0.990656,MA0024.1;1.21731,MA0025.1;1.46617,MA0027.1;2.95767,MA0028.1;3.88968,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;1.06172,MA0056.1;0,MA0057.1;0.333427,MA0058.1;0.716037,MA0059.1;0.714521,MA0060.1;2.13518,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;0.211629,MA0074.1;0.935474,MA0076.1;4.21544,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;0.715722,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;0.646932,MA0103.1;0.628063,MA0105.1;0.846801,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;0.549955,MA0115.1;1.57693,MA0116.1;0.560723,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;0.273764,MA0146.1;0.107247,MA0147.1;0.565108,MA0148.1;0.854239,MA0149.1;0.884158,MA0062.2;4.02533,MA0035.2;0.894194,MA0039.2;0.432958,MA0138.2;1.04628,MA0002.2;0.476938,MA0137.2;0.666381,MA0104.2;0.491226,MA0047.2;0.973066,MA0112.2;1.34467,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;0.256269,MA0156.1;1.60572,MA0157.1;1.09377,MA0158.1;0,MA0159.1;1.38935,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;0.0107199,MA0102.2;1.88331,MA0258.1;0.519674,MA0259.1;0.575594,MA0442.1;0}}
|full_id=C3494_CD14_Dendritic_Eosinophils_Mast_Whole_Neutrophils_CD4
|id=C3494
|ontology_enrichment_celltype=CL:0000738!6.64e-35!140;CL:0000037!2.89e-34!172;CL:0000566!2.89e-34!172;CL:0000988!6.16e-32!182;CL:0002032!9.93e-32!165;CL:0000837!9.93e-32!165;CL:0002031!3.81e-29!124;CL:0000766!2.62e-26!76;CL:0002087!3.15e-26!119;CL:0000763!3.74e-25!112;CL:0000049!3.74e-25!112;CL:0000557!9.64e-24!71;CL:0000839!3.44e-23!70;CL:0002057!3.41e-21!42;CL:0002009!1.49e-20!65;CL:0002194!1.05e-19!63;CL:0000576!1.05e-19!63;CL:0000040!1.05e-19!63;CL:0000559!1.05e-19!63;CL:0000860!5.89e-18!45;CL:0000134!2.18e-17!358;CL:0000048!5.57e-17!430;CL:0002320!6.42e-17!365;CL:0000723!1.97e-15!436;CL:0000034!3.51e-15!444;CL:0000219!3.30e-14!390
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!8.38e-28!102;UBERON:0003061!8.38e-28!102;UBERON:0002193!1.04e-24!112;UBERON:0002371!1.33e-21!80;UBERON:0001474!5.60e-21!86;UBERON:0004765!1.09e-19!101;UBERON:0001434!1.09e-19!101;UBERON:0002384!1.13e-16!375;UBERON:0002204!9.73e-14!167;UBERON:0002405!1.19e-12!115;UBERON:0000178!6.63e-09!15;UBERON:0000179!6.63e-09!15;UBERON:0000463!6.63e-09!15
}}

Latest revision as of 12:27, 17 September 2013


Full id: C3494_CD14_Dendritic_Eosinophils_Mast_Whole_Neutrophils_CD4



Phase1 CAGE Peaks

Hg19::chr15:45879429..45879438,+p6@PLDN
Hg19::chr15:45879534..45879558,+p3@PLDN
Hg19::chr15:45879564..45879584,+p1@PLDN


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
leukocyte6.91e-36136
hematopoietic stem cell2.12e-34168
angioblastic mesenchymal cell2.12e-34168
hematopoietic cell1.91e-32177
hematopoietic oligopotent progenitor cell6.10e-32161
hematopoietic multipotent progenitor cell6.10e-32161
hematopoietic lineage restricted progenitor cell3.14e-30120
myeloid leukocyte5.41e-2972
nongranular leukocyte3.72e-27115
myeloid cell1.88e-26108
common myeloid progenitor1.88e-26108
granulocyte monocyte progenitor cell2.66e-2667
myeloid lineage restricted progenitor cell6.65e-2666
macrophage dendritic cell progenitor4.89e-2361
monopoietic cell3.47e-2259
monocyte3.47e-2259
monoblast3.47e-2259
promonocyte3.47e-2259
defensive cell3.92e-2148
phagocyte3.92e-2148
classical monocyte4.43e-2142
CD14-positive, CD16-negative classical monocyte4.43e-2142
mesenchymal cell3.81e-16354
connective tissue cell1.40e-15361
multi fate stem cell5.35e-15427
somatic stem cell1.12e-13433
stem cell1.37e-13441
motile cell1.41e-13386
stuff accumulating cell1.84e-1287
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.72e-2998
blood island1.72e-2998
hemolymphoid system1.32e-25108
bone marrow8.02e-2476
bone element2.90e-2382
skeletal element4.54e-2290
skeletal system9.47e-21100
immune system1.47e-1893
connective tissue2.91e-15371
musculoskeletal system2.56e-13167
blood7.37e-0915
haemolymphatic fluid7.37e-0915
organism substance7.37e-0915


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)
MA0003.10.0471418
MA0004.10.826076
MA0006.11.5435
MA0007.10.804807
MA0009.11.3275
MA0014.11.24048
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.13.88968
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
MA0055.11.06172
MA0056.10
MA0057.10.333427
MA0058.10.716037
MA0059.10.714521
MA0060.12.13518
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
MA0073.10.211629
MA0074.10.935474
MA0076.14.21544
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.715722
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.846801
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.10.549955
MA0115.11.57693
MA0116.10.560723
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
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.24.02533
MA0035.20.894194
MA0039.20.432958
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.21.34467
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.256269
MA0156.11.60572
MA0157.11.09377
MA0158.10
MA0159.11.38935
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.0107199
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
BCLAF1#9774321.65264761012189.8473954032885e-050.00139073986277762
BRCA1#672320.18423064322380.0001215704860271640.00164082450118777
CCNT2#90536.336201576962630.003930750035764890.0189653332248567
CHD2#1106310.34402283411690.0009033701102746880.00659585227537599
E2F1#186934.907389214879320.008460985347239390.0324515919456605
E2F6#187635.017155731697390.00791769806886330.0321394717483778
EGR1#195834.988179094810140.008056488137383440.0319867540231967
ELF1#199734.258097958807540.01295179875054610.0461206624742843
ELK4#2005316.2356816584680.0002336043955745990.00255443508212915
GABPB1#255337.067683836182170.002832212825417420.0153858764771792
GATA1#2623313.56030814380040.0004009615963782630.00387382314191947
GATA3#2625327.2365163572064.94721007899563e-050.000850224902814258
GTF2B#2959331.94382993432423.06634405746243e-050.000626949700503757
GTF2F1#2962312.73966087675770.0004835525047438590.0043326818842608
JUND#372736.994663941871030.002921845042734990.01564654537344
MAX#414936.452555509007120.003721913834265510.0186209800688314
MXI1#460139.96157162875930.001011470541259020.0071935288974158
MYC#460935.22228187160940.007020843755740150.0293934859699249
NFKB1#479035.488063424193840.006049381815655430.0269179577966528
NFYA#4800318.42558069983050.0001598135507814160.0019926895212584
NFYB#4801316.75979325353650.0002123649923296180.00245372136673448
PAX5#507936.669565531177830.003370290999677260.0172645586479936
POU2F2#545239.106124057742520.001324165192682130.00881024963741664
SIN3A#2594235.408884726815140.006318961977991520.0276012576336034
SIX5#147912317.0867153554590.0002004060546325010.00239393891567697
SREBF1#6720347.00584944048839.62099323994382e-060.000254445913645605
SRF#6722313.79717826216780.0003806615025800190.00374525734036313
TCF7L2#6934310.77017656313730.0008003181298398380.00612654292768034
USF1#739136.361499277207960.00388404057290560.0189953319313364
USF2#7392312.99219738506960.0004558979393427810.00421097770292922
YY1#752834.911170749853860.008441455341808260.0328655043594823
ZBTB33#10009331.66472502998123.14815888737575e-050.000633507834371168
ZBTB7A#5134137.35190930787590.002516255860282270.0139873986476485
ZNF143#7702313.50087655222790.0004062804962997170.00388389279204083
ZNF263#1012738.221841637010680.001799043925565870.0109162414909467



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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