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{{Coexpression_clusters
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esterase complex!0.0143037934536429!5051$GO:0045648!positive regulation of erythrocyte differentiation!0.0143037934536429!2113$GO:0003847!1-alkyl-2-acetylglycerophosphocholine esterase activity!0.0143037934536429!5051$GO:0045646!regulation of erythrocyte differentiation!0.0185910998909698!2113$GO:0045639!positive regulation of myeloid cell differentiation!0.0185910998909698!2113$GO:0030218!erythrocyte differentiation!0.0347091582755624!2113$GO:0045637!regulation of myeloid cell differentiation!0.0347091582755624!2113$GO:0045597!positive regulation of cell 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,0.345505,0.375521,0.271405,0.311201,0.221943,0.306427,0.367733,0.246925,0.208775,0.390438,0.00904736,0.270094,0.276922,0.156279,0.313647,0.461742,0.422872,0.336468,0.13327,0.313545,0.17149,0.0877361,0.0880065,0.238969,0.126615,0.0669467,0.0879453,0.0275302,0.396935,0.326779,0.292869,0.0735747,0.29552,0.131776,0.158116,0.104606,0.194814,0.104167,0.168186,0.108081,0.123829,0.205215,0.175247,0.0724304,0.109077,0.144842,0.0604892,0.214671,0.316879,0.0216036,0.430541,0.508546,0.224871,0.398887,0.389061,0.310732,0.349611,0.445995,0.385709,0.278202,0.426488,0.400591,0.209809,0.253154,0.319519,0.309489,0.430805,0.362154,0.480785,0.185476,0.336314,0.344469,0.184651,0.303359,0.297596,0.42392,0.425912,0.380826,0.259046,0.345068,0.151046,0.483953,0.347171,0.321735,0.15463,0.13907,0.470121,0.269432,0.250466,0.409882,0.115686,0.408975,0.162633,0.342661,0.27567,0.248127,0.33299,0.384731,0.319112,0.526476|tfbs_overrepresentation_for_novel_motifs=0.508327,0.452433,0.500341,0.654974,0.454983,0.653236,0.733342,0.324142,0.321368,0.345702,0.621241,0.778743,0.274093,0.721271,0.453496,1.20439,0.963929,0.395009,0.287891,0.167776,0.500405,0.384437,0.645033,0.44943,0.549618,0.802434,0.700122,0.642741,0.458349,0.233785,0.598009,1.00172,0.94379,0.27659,0.417272,0.757784,0.413782,0.654459,0.388123,0.815792,0.415749,0.580638,0.414516,0.451846,0.476793,0.533483,0.734485,0.609718,0.124583,0.458489,0.817229,0.746838,0.560115,1.08035,1.2359,0.724351,0.4631,0.689906,0.233662,0.688844,1.04369,0.736968,0.321912,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,0.566575,0.880217,0.189341,1.23387,0.741483,0.255232,0.240727,0.917983,0.987729,0.543014,0.293154,0.934302,0.755403,1.57121,1.18161,1.37242,0.963115,0.647361,0.844289,1.79645,1.41984,1.15413,1.01895,0.96134,0.455791,0.381528,0.28626,1.06255,0.849074,0.606298,1.01093,1.01316,1.05685,0.967698,0.88799,0.616433,0.951411,0.717647,0.549347,0.437618,0.512457,1.05402,0.494368,1.52665,1.37132,0.412056,0.084145,0.596731,0.897476,0.370186,1.22546,0.841768,0.650322,0.767198,1.48307,0.918767,0.72668,1.02407,1.2687,0.382577,1.15483,0.601055,1.28328,0.763715,1.43285,0.221105,0.591636,0.643339,1.38998,2.25246,1.84906,1.35224,0.728494,1.05895,0.889806,0.680988,0.87256,2.09294,0.577088,0.363423,2.27985,0.398598,1.15522,0.312599,0.736459,1.56426,0.827475,0.439798,1.35505,0.518696,1.35101,1.13636,0.98692,0.522159,0.906429,0.754576,0.35004,0.731946,1.45393|tfbs_overrepresentation_jaspar=MA0003.1;2.24383,MA0004.1;0.626788,MA0006.1;1.14863,MA0007.1;0.606704,MA0009.1;1.11255,MA0014.1;0.660087,MA0017.1;0.496101,MA0019.1;0.784036,MA0024.1;1.00439,MA0025.1;1.24931,MA0027.1;2.73598,MA0028.1;0.470679,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;0.195817,MA0050.1;0.613347,MA0051.1;0.731787,MA0052.1;1.03442,MA0055.1;0.603517,MA0056.1;0,MA0057.1;1.05691,MA0058.1;0.523638,MA0059.1;0.522232,MA0060.1;0.321781,MA0061.1;0.291022,MA0063.1;0,MA0066.1;1.74614,MA0067.1;1.43651,MA0068.1;0.247962,MA0069.1;1.09737,MA0070.1;1.08584,MA0071.1;0.695094,MA0072.1;1.0812,MA0073.1;4.94585,MA0074.1;0.730989,MA0076.1;0.540943,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;0.412364,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;0.750974,MA0101.1;1.16366,MA0103.1;0.442769,MA0105.1;1.58771,MA0106.1;0.779931,MA0107.1;0.985964,MA0108.2;0.94238,MA0109.1;0,MA0111.1;1.40074,MA0113.1;0.797251,MA0114.1;0.973423,MA0115.1;1.35895,MA0116.1;0.382106,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;0.759606,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;1.35428,MA0147.1;1.00307,MA0148.1;0.653474,MA0149.1;0.681935,MA0062.2;0.777733,MA0035.2;0.691506,MA0039.2;1.12758,MA0138.2;1.95446,MA0002.2;0.30855,MA0137.2;0.47779,MA0104.2;0.320919,MA0047.2;0.767096,MA0112.2;1.96224,MA0065.2;0.449243,MA0150.1;0.550239,MA0151.1;0,MA0152.1;0.69926,MA0153.1;1.21379,MA0154.1;0.172764,MA0155.1;2.57641,MA0156.1;1.20729,MA0157.1;0.883854,MA0158.1;0,MA0159.1;0.386729,MA0160.1;0.669748,MA0161.1;0,MA0162.1;1.23503,MA0163.1;3.1409,MA0164.1;0.810347,MA0080.2;2.01584,MA0018.2;0.781393,MA0099.2;0.699641,MA0079.2;1.03616,MA0102.2;1.66336,MA0258.1;0.914277,MA0259.1;0.395396,MA0442.1;0}}
|full_id=C1622_thymus_CD8_Natural_vein_blood_acute_Basophils
|gostat_on_coexpression_clusters=GO:0008247!2-acetyl-1-alkylglycerophosphocholine esterase complex!0.0143037934536429!5051$GO:0045648!positive regulation of erythrocyte differentiation!0.0143037934536429!2113$GO:0003847!1-alkyl-2-acetylglycerophosphocholine esterase activity!0.0143037934536429!5051$GO:0045646!regulation of erythrocyte differentiation!0.0185910998909698!2113$GO:0045639!positive regulation of myeloid cell differentiation!0.0185910998909698!2113$GO:0030218!erythrocyte differentiation!0.0347091582755624!2113$GO:0045637!regulation of myeloid cell differentiation!0.0347091582755624!2113$GO:0045597!positive regulation of cell differentiation!0.0419666994026459!2113
|id=C1622
}}

Latest revision as of 11:48, 17 September 2013


Full id: C1622_thymus_CD8_Natural_vein_blood_acute_Basophils



Phase1 CAGE Peaks

Hg19::chr11:128392309..128392350,-p3@ETS1
Hg19::chr1:26317321..26317401,-p2@PAFAH2
Hg19::chr3:18486936..18486954,-p@chr3:18486936..18486954
-
Hg19::chr7:142494795..142494838,+p1@TRBJ2-5
Hg19::chr7:99817566..99817579,+p1@PVRIG


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

GO IDGO nameFDR corrected p-value
GO:00082472-acetyl-1-alkylglycerophosphocholine esterase complex0.0143037934536429
GO:0045648positive regulation of erythrocyte differentiation0.0143037934536429
GO:00038471-alkyl-2-acetylglycerophosphocholine esterase activity0.0143037934536429
GO:0045646regulation of erythrocyte differentiation0.0185910998909698
GO:0045639positive regulation of myeloid cell differentiation0.0185910998909698
GO:0030218erythrocyte differentiation0.0347091582755624
GO:0045637regulation of myeloid cell differentiation0.0347091582755624
GO:0045597positive regulation of cell differentiation0.0419666994026459



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
lymphocyte1.07e-4653
common lymphoid progenitor1.07e-4653
lymphoid lineage restricted progenitor cell1.47e-4552
nucleate cell2.13e-4455
nongranular leukocyte1.11e-31115
leukocyte2.29e-29136
T cell6.98e-2925
pro-T cell6.98e-2925
mature alpha-beta T cell4.21e-2618
alpha-beta T cell4.21e-2618
immature T cell4.21e-2618
mature T cell4.21e-2618
immature alpha-beta T cell4.21e-2618
hematopoietic stem cell5.50e-25168
angioblastic mesenchymal cell5.50e-25168
hematopoietic lineage restricted progenitor cell2.47e-24120
hematopoietic cell1.34e-22177
hematopoietic oligopotent progenitor cell1.13e-21161
hematopoietic multipotent progenitor cell1.13e-21161
CD8-positive, alpha-beta T cell2.91e-1711
B cell2.41e-1514
lymphocyte of B lineage1.23e-1424
pro-B cell1.23e-1424
CD4-positive, alpha-beta T cell2.90e-096
Uber Anatomy
Ontology termp-valuen
blood3.26e-1315
haemolymphatic fluid3.26e-1315
organism substance3.26e-1315
adult organism2.77e-11114
hemopoietic organ4.16e-087
immune organ4.16e-087
thymus2.49e-074
hemolymphoid system gland2.49e-074
thymic region2.49e-074
pharyngeal gland2.49e-074
thymus primordium2.49e-074
hematopoietic system7.62e-0798
blood island7.62e-0798


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)
MA0003.12.24383
MA0004.10.626788
MA0006.11.14863
MA0007.10.606704
MA0009.11.11255
MA0014.10.660087
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
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
MA0048.10.195817
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.603517
MA0056.10
MA0057.11.05691
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.10.291022
MA0063.10
MA0066.11.74614
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.14.94585
MA0074.10.730989
MA0076.10.540943
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.412364
MA0089.10
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.11.16366
MA0103.10.442769
MA0105.11.58771
MA0106.10.779931
MA0107.10.985964
MA0108.20.94238
MA0109.10
MA0111.11.40074
MA0113.10.797251
MA0114.10.973423
MA0115.11.35895
MA0116.10.382106
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
MA0139.10.759606
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.442008
MA0146.11.35428
MA0147.11.00307
MA0148.10.653474
MA0149.10.681935
MA0062.20.777733
MA0035.20.691506
MA0039.21.12758
MA0138.21.95446
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.21.96224
MA0065.20.449243
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.172764
MA0155.12.57641
MA0156.11.20729
MA0157.10.883854
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.11.23503
MA0163.13.1409
MA0164.10.810347
MA0080.22.01584
MA0018.20.781393
MA0099.20.699641
MA0079.21.03616
MA0102.21.66336
MA0258.10.914277
MA0259.10.395396
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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