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|ontology_enrichment_disease=DOID:2531!1.92e-14!51;DOID:0060083!1.92e-14!51;DOID:1240!1.14e-11!39;DOID:8692!1.57e-08!31;DOID:1036!8.97e-07!8
 
|ontology_enrichment_disease=DOID:2531!1.92e-14!51;DOID:0060083!1.92e-14!51;DOID:1240!1.14e-11!39;DOID:8692!1.57e-08!31;DOID:1036!8.97e-07!8
 
|ontology_enrichment_uberon=UBERON:0002390!2.95e-22!102;UBERON:0003061!2.95e-22!102;UBERON:0002193!5.09e-20!112;UBERON:0007023!2.28e-15!115;UBERON:0000178!4.80e-12!15;UBERON:0000179!4.80e-12!15;UBERON:0000463!4.80e-12!15;UBERON:0002371!4.86e-10!80;UBERON:0001474!2.07e-08!86;UBERON:0002405!3.43e-08!115;UBERON:0002384!5.82e-08!375;UBERON:0004177!2.30e-07!7
 
|ontology_enrichment_uberon=UBERON:0002390!2.95e-22!102;UBERON:0003061!2.95e-22!102;UBERON:0002193!5.09e-20!112;UBERON:0007023!2.28e-15!115;UBERON:0000178!4.80e-12!15;UBERON:0000179!4.80e-12!15;UBERON:0000463!4.80e-12!15;UBERON:0002371!4.86e-10!80;UBERON:0001474!2.07e-08!86;UBERON:0002405!3.43e-08!115;UBERON:0002384!5.82e-08!375;UBERON:0004177!2.30e-07!7
 +
|tfbs_overrepresentation=0.191353,0.0774498,0.00177175,0.0631091,0.00350459,0.363996,0.0569281,0.00615604,0.043387,0.0341265,0.181435,0.288577,0.0323727,0.164339,0.193153,9.67067e-05,0.183412,0.128744,0.0698403,0.141416,0.243245,0.172742,0.107781,0.000354565,0.0550418,0.276459,0.268949,0.119094,0.186914,0.122514,0.26347,0.0117122,0.0239693,0.267529,0.0877018,0.00640354,0.788552,0.0568767,0.157159,0.0879352,0.126525,0.0326801,0.182216,0.2375,0.157881,0.0480278,0.0503649,0.00260181,0.0111479,0.158244,0.19996,0.0715789,0.0924421,0.12203,0.255843,0.0508907,0.140644,0.273035,0.000197601,0.138225,0.0390464,0.194086,0.142115,0.0999599,0.0720888,0.0667453,0.439574,0.0792005,0.113084,0.216289,0.0267205,0.0892037,0.116917,0.155921,0.00995563,0.0227583,0.126543,0.0578308,0.0493551,0.00965832,0.125428,0.290468,0.0562614,0.150119,0.368178,0.320801,0.0848546,0.268505,0.0384285,0.0827752,0.112676,0.0655645,0.12511,0.0626609,0.00654393,2.57847e-05,0.327332,0.199405,0.121709,0.00946363,0.0759036,0.350158,0.0181842,0.0491142,0.0437659,0.0541957,0.0883058,0.105785,0.187509,0.34189,0.0302681,0.0450707,0.194256,0.0235108,0.132631,0.0447483,0.0270258,0.0748174,0.180926,0.110194,0.00199911,0.0420112,0.182323,0.112709,0.134107,0.228632,0.119051,0.0196757,0.110868,0.175735,0.078637,0.0985137,0.0755515,0.0302655,0.164103,0.141472,0.085537,0.0730922,0.0438087,0.0052702,0.0302521,0.166414,0.000279662,0.202388,0.701894,0.000136326,0.129544,0.00636631,0.0515825,0.157774,0.258146,0.186826,0.233377,0.0352845,0.0565357,0.153577,0.0984158,0.29227,0.0683304,0.0447121,0.291455,0.124982,0.152417,0.192028,0.346873,0.000625723,0.0530169,0.0146311,0.0534404,0.392741,0.0293007,0.179282,0.564569,0.0715212,0.105131,0.118265,0.182591,0.234755,0.000159544,0.0472274,0.205973,0.159869,0.0363736,0.15105,0.0970713,0.155237,0.236268,0.0532055,0.108938,0.224443,0.140245,0.0318635,0.160458,0.292792,0.000599085,0.0622664,0.102951,0.0795624,0.0891668,0.14349,0.117261,0.00326469,0.0408965,0.0799774,0.177664,0.329956,0.346995,0.197158,0.265132,0.0288641,0.0606832,0.136664,0.158184,0.147626,0.393313,0.218801,0.21271,0.132273,0.0830988,0.134907,0.0181987,0.462724,0.202467,0.208718,0.0972471,0.165147,0.180711,0.00663425,0.0797807,0.0790532,0.675167,0.137848,0.0553945,0.10068,0.125804,0.122288,0.0624687,0.334388,0.21183,0.275612,0.235571,0.435782,0.128998,6.79951e-06,0.151958,0.178155,0.107176,0.146021,0.463127,0.15291,0.0229006,0.00276785,0.239646,0.128521,0.1286,0.207017,0.14037,0.259646,0.0916845,0.687863,0.0816983,0.226367,0.211672,0.167038,0.0457509,0.106603,0.106727,0.12083,0.154253,0.0993998,0.352707,0.0834863,0.324356,0.545829,0.113754,0.0504034,0.169684,0.327364,0.0880794,0.149583,0.0479295,0.000152055,0.20358,0.644298,0.018014,0.381628,0.332539,0.545329,0.129819,0.389374,0.22808,0.414547,0.489273,0.100406,0.084046,0.720642,0.34505,0.369161,0.500422,0.0311814,0.112403,0.702495,0.241524,0.0232022,0.234628,0.0386001,0.0108883,0.101233,0.279946,0.524104,0.467825,0.201843,0.00010177,0.264959,0.624969,0.127765,0.161502,0.00216594,0.322903,0.350886,0.380582,0.218919,0.0150105,0.286293,0.239547,0.708425,0.359128,0.395864,0.318966,0.0782875,0.188516,0.317802,0.512763,0.369971,0.214221,0.537928,0.129952,0.683088,0.00185115,0.235444,0.00665429,0.199727,0.840703,0.00959778,0.302142,0.239545,0.432689,0.272581,0.343881,0.730486,0.606382,0.0733855,0.258511,0.316925,0.356561,0.573659,0.211506,0.0883859,0.0962508,0.0310083,0.0346954,3.30372e-05,0.6873,0.0353617,0.773224,0.284591,0.656755,0.54723,0.043578,0.393583,0.076625,0.0596868,0.0984075,0.293026,0.00320607,0.694744,0.0149898,0.372182,0.429205,0.0572193,0.365653,0.0988815,0.0697989,0.00105075,0.072148,0.000127213,0.0474911,0.421082,0.25441,0.202782,0.00579711,0.517933,0.584705,0.517001,0.620475,0.12395,0.103882,0.188259,0.189182,0.477589,0.46699,0.0460871,0.560187,0.321282,0.198207,0.0616078,0.178485,0.329745,0.175552,0.129238,0.283924,0.370995,0.360161,0.429696,0.386216,0.0015881,0.706685,0.0683036,0.627185,0.074467,0.333725,0.447838,0.289666,0.500627,0.513045,0.0233876,0.203356,0.0414975,0.265037,0.00356416,0.0543569,0.53531,0.341771,0.0186884,0.0236936,0.356381,0.184395,0.0094773,0.624689,0.206945,0.00610748,0.462531,0.296994,0.244339,0.117049,0.0786167,0.261511,0.729876,0.433821,0.276604,0.436806,0.576549,0.499072,0.744662,0.382579,0.397546,0.0919254,0.0735469,0.248103,0.102621,0.0760107,0.187642,0.286156,0.261868,0.541583,0.540322,0.247151,0.146385,0.365815,0.0576261,0.382413,0.164977,0.175633,0.139918,0.34669,0.0828344,0.4729,0.0238089,0.383126,0.354433,0.00468928,0.0614918,0.219485,0.149782,0.136923,0.118103,0.113892,0.00175492,0.140201,0.0580534,0.00518407,0.000795424,0.168389,0.270152,0.0340965,0.432751,0.0660736,0.108971,0.0879235,0.235214,0.145546,0.28124,0.00230282,0.251882,0.172263,0.243319,0.0637178,0.257309,0.500692,0.166608,0.0280285,0.238082,0.219023,0.115115,0.124916,0.0149794,0.28498,0.140114,0.348988,0.00641248,0.224626,0.183585,2.05006e-05,0.03989,0.171436,0.05892,0.0691994,0.268299,0.198844,0.1049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}}
 
}}

Revision as of 09:06, 8 August 2012


Full id: C2218_Mast_splenic_CD8_thymus_CD4_Hodgkin_Natural



Phase1 CAGE Peaks

  Short description
Hg19::chr12:55378625..55378672,+ p@chr12:55378625..55378672
+
Hg19::chr22:40297105..40297116,+ p7@GRAP2
Hg19::chr22:40297138..40297143,+ p8@GRAP2
Hg19::chr22:40297150..40297195,+ p1@GRAP2


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen
hematopoietic stem cell8.91e-62172
angioblastic mesenchymal cell8.91e-62172
hematopoietic oligopotent progenitor cell4.90e-59165
hematopoietic multipotent progenitor cell4.90e-59165
hematopoietic cell6.88e-59182
leukocyte9.84e-51140
hematopoietic lineage restricted progenitor cell7.80e-45124
nongranular leukocyte3.22e-42119
lymphocyte5.36e-3653
common lymphoid progenitor5.36e-3653
lymphoid lineage restricted progenitor cell2.69e-3552
myeloid cell5.11e-24112
common myeloid progenitor5.11e-24112
T cell4.33e-1825
pro-T cell4.33e-1825
mature alpha-beta T cell5.69e-1818
alpha-beta T cell5.69e-1818
immature T cell5.69e-1818
mature T cell5.69e-1818
immature alpha-beta T cell5.69e-1818
lymphocyte of B lineage1.87e-1524
pro-B cell1.87e-1524
myeloid leukocyte1.38e-1476
myeloid lineage restricted progenitor cell2.49e-1370
CD8-positive, alpha-beta T cell4.82e-1211
granulocyte monocyte progenitor cell8.28e-1271
B cell6.54e-1014
CD14-positive, CD16-negative classical monocyte8.33e-1042
mesenchymal cell1.28e-09358
monopoietic cell3.87e-0963
monocyte3.87e-0963
monoblast3.87e-0963
promonocyte3.87e-0963
macrophage dendritic cell progenitor4.85e-0965
connective tissue cell8.92e-09365
classical monocyte1.53e-0845
CD4-positive, alpha-beta T cell7.22e-076
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.95e-22102
blood island2.95e-22102
hemolymphoid system5.09e-20112
adult organism2.28e-15115
blood4.80e-1215
haemolymphatic fluid4.80e-1215
organism substance4.80e-1215
bone marrow4.86e-1080
bone element2.07e-0886
immune system3.43e-08115
connective tissue5.82e-08375
hemopoietic organ2.30e-077
Disease
Ontology termp-valuen
hematologic cancer1.92e-1451
immune system cancer1.92e-1451
leukemia1.14e-1139
myeloid leukemia1.57e-0831
chronic leukemia8.97e-078


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

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ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.