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{{Coexpression_clusters
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309489,0.430805,0.362154,0.480785,0.185476,0.336314,0.344469,0.184651,0.303359,0.297596,0.42392,0.425912,0.380826,0.259046,0.345068,0.151046,0.483953,0.347171,0.321735,0.15463,0.13907,0.470121,0.269432,0.250466,0.409882,0.115686,0.408975,0.162633,0.342661,0.27567,0.248127,0.33299,0.384731,0.319112,0.526476|tfbs_overrepresentation_for_novel_motifs=0.508327,0.205703,1.25018,0.654974,0.454983,0.653236,0.733342,0.324142,0.859849,0.703495,0.621241,0.778743,0.274093,0.721271,0.453496,0.478935,0.963929,0.395009,0.287891,0.167776,0.500405,0.384437,0.645033,0.44943,0.549618,0.802434,0.25115,0.642741,0.458349,0.233785,0.598009,1.00172,0.359091,0.27659,0.417272,0.0526856,1.06371,0.654459,0.388123,0.301779,0.415749,0.580638,0.132849,0.451846,0.218848,2.27128,0.734485,0.609718,0.124583,0.458489,0.817229,0.746838,0.191745,1.08035,1.2359,0.724351,0.4631,0.689906,1.22844,1.64682,1.04369,0.736968,0.321912,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,0.566575,0.330474,2.36503,1.23387,0.741483,0.255232,0.240727,0.917983,0.987729,0.543014,0.293154,0.934302,0.755403,0.327263,1.18161,0.914416,0.963115,0.647361,0.844289,1.79645,1.41984,1.15413,1.01895,0.367039,1.15465,0.381528,0.28626,1.06255,0.849074,0.211081,0.389604,1.01316,1.05685,0.967698,0.88799,2.54079,0.951411,0.717647,1.35434,2.90764,0.512457,1.05402,0.494368,0.631235,1.37132,0.412056,0.597842,0.596731,0.897476,0.370186,1.22546,0.841768,0.650322,0.767198,1.48307,0.918767,0.72668,1.02407,1.2687,0.382577,1.15483,0.601055,1.28328,0.763715,1.43285,0.629991,0.591636,0.643339,1.38998,2.25246,1.84906,1.35224,0.728494,1.05895,0.889806,1.63047,0.87256,2.09294,1.41294,0.953361,0.526389,2.53309,1.15522,0.312599,0.736459,1.56426,0.827475,0.439798,0.54968,0.518696,1.35101,1.13636,0.98692,0.522159,0.906429,0.754576,0.35004,0.731946,0.0938701|tfbs_overrepresentation_jaspar=MA0003.1;0.280184,MA0004.1;0.626788,MA0006.1;2.00428,MA0007.1;0.606704,MA0009.1;1.11255,MA0014.1;3.07977,MA0017.1;0.496101,MA0019.1;0.784036,MA0024.1;1.00439,MA0025.1;1.24931,MA0027.1;2.73598,MA0028.1;1.18667,MA0029.1;1.02437,MA0030.1;1.01252,MA0031.1;0.945567,MA0038.1;0.736268,MA0040.1;1.03042,MA0041.1;0.64667,MA0042.1;0.612397,MA0043.1;1.11288,MA0046.1;1.10134,MA0048.1;1.08193,MA0050.1;0.613347,MA0051.1;0.731787,MA0052.1;1.03442,MA0055.1;0.0853006,MA0056.1;0,MA0057.1;0.189508,MA0058.1;0.523638,MA0059.1;0.522232,MA0060.1;0.860776,MA0061.1;0.791444,MA0063.1;0,MA0066.1;0.736721,MA0067.1;1.43651,MA0068.1;0.692739,MA0069.1;1.09737,MA0070.1;1.08584,MA0071.1;0.695094,MA0072.1;1.0812,MA0073.1;0.782425,MA0074.1;0.730989,MA0076.1;1.33654,MA0077.1;1.07324,MA0078.1;0.836493,MA0081.1;0.522409,MA0083.1;1.12028,MA0084.1;1.62584,MA0087.1;1.07867,MA0088.1;0.818263,MA0089.1;0,MA0090.1;0.556637,MA0091.1;0.629594,MA0092.1;0.588959,MA0093.1;0.456342,MA0095.1;0,MA0098.1;0,MA0100.1;2.96921,MA0101.1;0.459973,MA0103.1;0.442769,MA0105.1;0.520776,MA0106.1;0.779931,MA0107.1;0.378225,MA0108.2;0.94238,MA0109.1;0,MA0111.1;0.5713,MA0113.1;0.797251,MA0114.1;0.372523,MA0115.1;1.35895,MA0116.1;0.994489,MA0117.1;1.1512,MA0119.1;0.504689,MA0122.1;1.17777,MA0124.1;1.31673,MA0125.1;1.23103,MA0130.1;0,MA0131.1;0.855546,MA0132.1;0,MA0133.1;0,MA0135.1;1.14377,MA0136.1;0.743749,MA0139.1;0.277033,MA0140.1;0.692258,MA0141.1;0.520334,MA0142.1;0.912455,MA0143.1;0.797437,MA0144.1;0.356507,MA0145.1;0.442008,MA0146.1;0.333008,MA0147.1;1.77656,MA0148.1;0.653474,MA0149.1;0.681935,MA0062.2;0.777733,MA0035.2;0.691506,MA0039.2;3.41529,MA0138.2;0.837782,MA0002.2;0.30855,MA0137.2;0.47779,MA0104.2;2.35335,MA0047.2;0.767096,MA0112.2;0.136971,MA0065.2;0.146576,MA0150.1;0.550239,MA0151.1;0,MA0152.1;0.69926,MA0153.1;1.21379,MA0154.1;0.514087,MA0155.1;1.3196,MA0156.1;0.480289,MA0157.1;0.883854,MA0158.1;0,MA0159.1;1.00463,MA0160.1;0.669748,MA0161.1;0,MA0162.1;1.72541,MA0163.1;0.680296,MA0164.1;0.810347,MA0080.2;0.456437,MA0018.2;0.781393,MA0099.2;0.699641,MA0079.2;0.230892,MA0102.2;1.66336,MA0258.1;0.345771,MA0259.1;2.71109,MA0442.1;0}}
|full_id=C1739_CD14_Mast_Natural_Eosinophils_immature_Melanocyte_CD14CD16
|id=C1739
}}

Latest revision as of 11:51, 17 September 2013


Full id: C1739_CD14_Mast_Natural_Eosinophils_immature_Melanocyte_CD14CD16



Phase1 CAGE Peaks

Hg19::chr15:45879287..45879319,-p@chr15:45879287..45879319
-
Hg19::chr17:66243950..66243978,-p1@BC056237
Hg19::chr17:66244002..66244037,-p2@BC056237
Hg19::chr19:10514593..10514606,+p@chr19:10514593..10514606
+
Hg19::chr1:115053955..115053993,+p@chr1:115053955..115053993
+


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
leukocyte2.33e-45136
hematopoietic cell8.55e-38177
hematopoietic stem cell1.15e-36168
angioblastic mesenchymal cell1.15e-36168
hematopoietic oligopotent progenitor cell1.03e-32161
hematopoietic multipotent progenitor cell1.03e-32161
hematopoietic lineage restricted progenitor cell1.92e-32120
nongranular leukocyte2.27e-32115
myeloid leukocyte2.91e-2272
classical monocyte1.03e-2142
CD14-positive, CD16-negative classical monocyte1.03e-2142
defensive cell6.04e-2048
phagocyte6.04e-2048
granulocyte monocyte progenitor cell6.01e-1967
myeloid cell4.55e-17108
common myeloid progenitor4.55e-17108
macrophage dendritic cell progenitor2.58e-1661
myeloid lineage restricted progenitor cell7.52e-1666
lymphocyte2.94e-1553
common lymphoid progenitor2.94e-1553
lymphoid lineage restricted progenitor cell4.93e-1552
monopoietic cell5.15e-1559
monocyte5.15e-1559
monoblast5.15e-1559
promonocyte5.15e-1559
nucleate cell4.41e-1455
intermediate monocyte5.47e-099
CD14-positive, CD16-positive monocyte5.47e-099
stuff accumulating cell6.89e-0987
mature alpha-beta T cell1.41e-0818
alpha-beta T cell1.41e-0818
immature T cell1.41e-0818
mature T cell1.41e-0818
immature alpha-beta T cell1.41e-0818
granulocyte1.26e-078
T cell1.81e-0725
pro-T cell1.81e-0725
lymphocyte of B lineage7.11e-0724
pro-B cell7.11e-0724
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.92e-2198
blood island1.92e-2198
hemolymphoid system1.91e-17108
bone marrow7.21e-1776
bone element5.86e-1682
immune system4.29e-1493
skeletal element1.27e-1290
skeletal system7.21e-10100


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)
MA0003.10.280184
MA0004.10.626788
MA0006.12.00428
MA0007.10.606704
MA0009.11.11255
MA0014.13.07977
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.11.18667
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.11.08193
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.0853006
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.10.522232
MA0060.10.860776
MA0061.10.791444
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.692739
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.782425
MA0074.10.730989
MA0076.11.33654
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.818263
MA0089.10
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.12.96921
MA0101.10.459973
MA0103.10.442769
MA0105.10.520776
MA0106.10.779931
MA0107.10.378225
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.10.797251
MA0114.10.372523
MA0115.11.35895
MA0116.10.994489
MA0117.11.1512
MA0119.10.504689
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.10.855546
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.10.277033
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.442008
MA0146.10.333008
MA0147.11.77656
MA0148.10.653474
MA0149.10.681935
MA0062.20.777733
MA0035.20.691506
MA0039.23.41529
MA0138.20.837782
MA0002.20.30855
MA0137.20.47779
MA0104.22.35335
MA0047.20.767096
MA0112.20.136971
MA0065.20.146576
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.514087
MA0155.11.3196
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.11.00463
MA0160.10.669748
MA0161.10
MA0162.11.72541
MA0163.10.680296
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.20.699641
MA0079.20.230892
MA0102.21.66336
MA0258.10.345771
MA0259.12.71109
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
CCNT2#90556.336201576962639.78880505817628e-050.00138998370016434
CEBPB#105146.376918100659850.001113944176677320.00765288882173412
CHD2#110648.275218267293490.0004028373567101730.00387723995000034
E2F6#187655.017155731697390.0003144978599297790.00322682404884627
EGR1#195843.990543275848110.0067800983001440.0287626096254413
HMGN3#932446.542838178680470.00100801277768350.00722007039904583
IRF1#365946.109731002851120.001315525264767990.00880831793352381
MAX#414945.16204440720570.002526309009485180.013997092129529
MXI1#460147.969257303007440.0004668546380070170.00429433076790689
MYC#460955.22228187160940.0002573944848850610.00276393405376423
NANOG#79923211.69791139240510.01091164951956080.0402188729194781
NFKB1#479055.488063424193840.0002008162847462320.00238954676570715
NRF1#489937.326167668626540.004839689817117540.0226884085110844
PAX5#507956.669565531177837.57493746384605e-050.00116977509062046
POU2F2#545247.284899246194020.0006631223288743860.00542502216084224
SIN3A#2594255.408884726815140.0002159522671657270.00247953373246717
SP1#666744.558705102512720.00407573565781680.0194821619463924
SREBF1#6720328.2035096642939.31681575395428e-050.00135483002022728
TBP#690853.706770687096390.001428755106721120.009184891948224
USF1#739145.089199421766370.00266867775360040.0147171842807198
ZBTB33#10009212.66589001199250.009357016059651590.0353392905020776
ZBTB7A#5134145.881527446300720.001524947561042230.00971358857817088
ZNF143#770238.100525931336740.003624870512090980.018329517353165



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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