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Difference between revisions of "Coexpression cluster:C2235"

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|ontology_enrichment_disease=
 
|ontology_enrichment_disease=
 
|ontology_enrichment_uberon=UBERON:0002390!4.54e-25!102;UBERON:0003061!4.54e-25!102;UBERON:0002193!2.29e-24!112;UBERON:0002371!3.08e-24!80;UBERON:0001474!1.58e-23!86;UBERON:0004765!1.01e-21!101;UBERON:0001434!1.01e-21!101;UBERON:0002405!2.39e-20!115;UBERON:0002384!7.03e-10!375;UBERON:0002204!3.26e-07!167
 
|ontology_enrichment_uberon=UBERON:0002390!4.54e-25!102;UBERON:0003061!4.54e-25!102;UBERON:0002193!2.29e-24!112;UBERON:0002371!3.08e-24!80;UBERON:0001474!1.58e-23!86;UBERON:0004765!1.01e-21!101;UBERON:0001434!1.01e-21!101;UBERON:0002405!2.39e-20!115;UBERON:0002384!7.03e-10!375;UBERON:0002204!3.26e-07!167
 +
|tfbs_overrepresentation=0.191353,0.0774498,0.50138,0.0631091,0.257053,0.363996,0.0569281,0.160638,0.043387,0.0341265,0.181435,0.288577,0.243414,0.164339,0.193153,0.0816702,0.183412,0.128744,0.0698403,0.141416,0.0323255,0.172742,0.107781,0.124486,0.0550418,0.276459,0.268949,0.119094,0.186914,0.122514,0.26347,0.149094,0.0239693,0.267529,0.0877018,0.111013,0.788552,0.0568767,0.157159,0.0879352,0.126525,0.0326801,0.182216,0.2375,0.157881,0.0480278,0.0503649,0.234372,0.145553,0.158244,0.19996,0.0715789,0.0924421,0.12203,0.255843,0.0508907,0.140644,0.273035,0.103044,0.138225,0.0390464,0.194086,0.142115,0.0999599,0.0720888,0.0667453,0.439574,0.0792005,0.113084,0.216289,0.470097,0.0892037,0.116917,0.155921,0.00995563,0.0227583,0.126543,0.0578308,0.0493551,0.00965832,0.125428,0.0469922,0.0562614,0.150119,0.368178,0.0580589,0.0848546,0.268505,0.131915,0.0827752,0.112676,0.0655645,0.12511,0.0626609,0.112199,0.150351,0.690341,0.199405,0.121709,0.347653,0.0759036,0.350158,0.184542,0.0491142,0.280878,0.0541957,0.0883058,0.423154,0.187509,0.34189,0.23573,0.0450707,0.194256,0.0235108,0.132631,0.0447483,0.0270258,0.0748174,0.180926,0.110194,0.215858,0.275495,0.182323,0.112709,0.134107,0.228632,0.119051,0.0196757,0.110868,0.016435,0.078637,0.0985137,0.0755515,0.0302655,0.164103,0.141472,0.085537,0.0730922,0.0438087,0.0052702,0.0302521,0.0146861,0.262198,0.0220217,0.701894,0.0913381,0.129544,0.110696,0.0515825,0.157774,0.258146,0.186826,0.233377,0.0352845,0.0565357,0.153577,0.0984158,0.29227,0.0683304,0.0447121,0.291455,0.124982,0.152417,0.192028,0.346873,0.149398,0.0530169,0.0146311,0.0534404,0.392741,0.2321,0.179282,0.564569,0.0715212,0.105131,0.118265,0.182591,0.234755,0.230552,0.0472274,0.205973,0.159869,0.0363736,0.15105,0.0970713,0.155237,0.236268,0.0532055,0.108938,0.224443,0.140245,0.241581,0.160458,0.292792,0.147332,0.0622664,0.102951,0.0795624,0.0891668,0.14349,0.117261,0.0797088,0.0408965,0.0799774,0.177664,0.329956,0.346995,0.197158,0.265132,0.230439,0.0606832,0.136664,0.158184,0.147626,0.0901258,0.218801,0.21271,0.132273,0.0830988,0.134907,0.184613,0.462724,0.0220395,0.208718,0.0972471,0.0144563,0.180711,0.112956,0.0797807,0.0790532,0.309911,0.476758,0.0553945,0.10068,0.125804,0.122288,0.0624687,0.334388,0.21183,0.275612,0.235571,0.435782,0.128998,0.109226,0.0121793,0.178155,0.107176,0.146021,0.463127,0.15291,0.206234,0.238926,0.00279479,0.128521,0.1286,0.207017,0.14037,0.259646,0.0916845,0.687863,0.0816983,0.226367,0.211672,0.167038,0.0457509,0.106603,0.106727,0.12083,0.154253,0.0993998,0.352707,0.0834863,0.324356,0.545829,0.113754,0.0504034,0.169684,0.690367,0.495926,0.603871,0.73998,0.3024,0.672445,0.376043,0.420045,0.0455198,0.332539,0.186966,0.129819,0.0881702,0.594055,0.414547,0.489273,0.100406,0.271656,0.137229,0.34505,0.369161,0.500422,0.0311814,0.112403,0.702495,0.241524,0.45167,0.234628,0.520726,0.143893,0.101233,0.279946,0.0395226,0.132138,0.201843,0.0526663,0.264959,0.0178302,0.460819,0.511459,0.221488,0.322903,0.350886,0.380582,0.0590382,0.398372,0.286293,0.239547,0.127626,0.359128,0.395864,0.683133,0.368633,0.547291,0.109035,0.512763,0.369971,0.214221,0.0434864,0.464342,0.318915,0.131933,0.235444,0.48585,0.402752,0.279301,0.349116,0.302142,0.239545,0.432689,0.640367,0.343881,0.145459,0.0682924,0.617741,0.258511,0.316925,0.356561,0.573659,0.211506,0.0883859,0.0962508,0.238465,0.70198,0.301365,0.112487,0.159267,0.0178234,0.651927,0.656755,0.54723,0.00464429,0.090261,0.469888,0.0596868,0.0984075,0.293026,0.16661,0.332526,0.605423,0.372182,0.429205,0.578951,0.0769243,0.41035,0.784024,0.35234,0.376421,0.172079,0.291917,0.104649,0.25441,0.202782,0.103116,0.166182,0.219758,0.517001,0.252778,0.12395,0.419676,0.188259,0.189182,0.477589,0.46699,0.0460871,0.0505495,0.321282,0.198207,0.0616078,0.178485,0.329745,0.175552,0.129238,0.283924,0.370995,0.074448,0.429696,0.0866206,0.385297,0.346931,0.239407,0.0181818,0.360203,0.333725,0.119902,0.289666,0.033464,0.16264,0.452694,0.565545,0.287542,0.265037,0.0791459,0.754776,0.53531,0.341771,0.424526,0.290547,0.0727712,0.184395,0.194887,0.624689,0.206945,0.304719,0.462531,0.296994,0.244339,0.117049,0.0786167,0.629381,0.376317,0.433821,0.0865866,0.113459,0.21267,0.499072,0.158149,0.382579,0.397546,0.0919254,0.0735469,0.248103,0.102621,0.0760107,0.187642,0.286156,0.261868,0.0445868,0.183047,0.247151,0.146385,0.365815,0.0576261,0.382413,0.164977,0.175633,0.139918,0.34669,0.0828344,0.4729,0.0238089,0.383126,0.354433,0.142001,0.0614918,0.219485,0.149782,0.136923,0.118103,0.113892,0.207214,0.140201,0.0580534,0.00518407,0.161297,0.168389,0.270152,0.249506,0.432751,0.0660736,0.108971,0.0879235,0.235214,0.145546,0.28124,0.417003,0.251882,0.172263,0.243319,0.0637178,0.257309,0.0334797,0.166608,0.227224,0.238082,0.219023,0.115115,0.124916,0.0149794,0.28498,0.140114,0.348988,0.00641248,0.224626,0.183585,0.271662,0.03989,0.171436,0.05892,0.0691994,0.268299,0.198844,0.104946,0.00852994,0.207615,0.161213,0.118999,0.0737069,0.357807,0.254051,0.178782,0.019419,0.0866228,0.0408454,0.044355,0.105411,0.0997542,0.209692,0.248936,0.0725263,0.102587,0.0742013,0.0552936,0.0457886,0.0514927,0.324236,0.220368,0.258624,0.064656,0.226143,0.460406,0.0438521,0.435508,0.281453,0.0522771,0.0787278,0.515487,0.159873,0.142462,0.143935,0.332403,0.0379537,0.6545,0.187953,0.051459,0.114868,0.0726892,0.18732,0.32305,0.278397,0.245002,0.170848,0.487259,0.302909,0.363016,0.100188,0.223102,0.107653,0.235857,0.419621,0.191914,0.184022,0.216557,0.182956,0.116818,0.0883765,0.36316,0.0625685,0.124464,0.0454742,0.173134,0.101893,0.142875,0.167635,0.171311,0.00520751,0.548036,0.0685131,0.130287,0.0661526,0.0815772,0.0993937,0.122878,0.0187576,0.0451012,0.0976639,0.351199,0.267945,0.758305,0.278645,0.365775,0.155708,0.248017,0.22995,0.652972,0.0760151,0.0629459,0.486024,0.0803251,0.226641,0.379174,0.0939463,0.286748,0.367925,0.0471607,0.163865,0.226359,0.22476,0.165788,0.265324,0.279778,0.141699,0.0887743,0.142302,0.0653269,0.125712,0.264432,0.0994829,0.0604041,0.144185,0.0925862,0.289561,0.199201,0.049937,0.172796,0.0595495,0.071232,0.149346,0.121978,0.22302,0.137423,0.284016,0.0754883,0.299492,0.100006,0.0756617,0.197817,0.251078,0.0434358,0.133127,0.410303,0.223717,0.426452,0.196838,0.0826805,0.246601,0.0199582,0.608002,0.202165,0.0946865,0.120618,0.079499,0.18762,0.195618,0.127688,0.201169,0.220353,0.24948,0.178639,0.291976,0.320355,0.364334,0.15547,0.110256,0.415419,0.14794,0.147307,0.0316373,0.225961,0.124417,0.0639386,0.317428,0.182843,0.130771,0.06079,0.135777,0.147842,0.0339286,0.217363,0.119015,0.690952,0.21618,0.0323312,0.107021,0.238657,0.20272,0.0896967,0.61565,0.0780061,0.315336,0.230477,0.279823,0.295555,0.502112,0.369553,0.0478217,0.158752,0.170854,0.0575231,0.174063,0.514243,0.459091,0.54832,0.502211,0.296013,0.0895871,0.00120864,0.127256,0.523209,0.548059,0.25423,0.490559,0.45013,0.153911,0.135135,0.685908,0.0133357,0.529642,0.509113,0.483077,0.590496,0.0671621,0.0446875,0.259354,0.526336,0.757308,0.290703,0.622694,0.138899,0.139104,0.360199,0.241059,0.0937029,0.0323345,0.0768516,0.212703,0.201391,0.364079,0.680099,0.215551,0.104625,0.0537414,0.328518,0.545608,0.310552,0.324103,0.0295909,0.103928,0.784052,0.209437,0.843495,0.748403,0.598945,0.630688,0.464001,0.152018,0.579004,0.605327,0.278028,0.137711,0.261575,0.257956,0.264245,0.379063,0.326516,0.522925,0.0205071,0.475063,0.202522,0.183837,0.158557,0.126097,0.3955,0.442469,0.212239,0.294954,0.156999,0.35974,0.667777,0.39549,0.234254,0.357409,0.328421,0.365184,0.15578,0.620526,0.404625,0.416164,0.424691,0.132999,0.479581,0.62689,0.172925,0.274432,0.284496,0.512545,0.162017,0.563206,0.260945,0.321001,0.263302,0.047857,0.180735,0.189249,0.216102,0.0355932,0.109605,0.397869,0.217863,0.226491,0.102502,0.463987,0.260097,0.0342559,0.454761,0.0840572,0.142363,0.452129,0.301581,0.261657,0.0686105,0.466529,0.187223,0.438176,0.349112,0.391754,0.385425,0.307816,0.461541,0.386339,0.0849889,0.232374,0.478745,0.07062,0.319747,0.475047,0.557967,0.608127,0.282281,0.612712,0.2536,0.246827,0.564333,0.70712,0.0136122,0.559969,0.0738474,0.100705,0.574252,0.493455,0.346636,0.457747,0.0694762,0.476541,0.579645,0.119749,0.106831,0.254628,0.355111,0.00451196,0.416962,0.0191073,0.378333,0.387805,0.264038,0.0282238,0.102495,0.350933,0.263896,0.0446972,0.24452,0.329284,0.242783,0.0947248,0.336551,0.210656,0.246234,0.211271,0.281295,0.267248,0.118257,0.125087,0.0250035,0.321224,0.133173,0.325254,0.0392149,0.546295,0.231754,0.249415,0.283107,0.285648,0.427316,0.0890097,0.279553,0.25563,0.240967,0.160955,0.256687,0.0432189,0.122439,0.16188,0.23235,0.00521493,0.353147,0.112422,0.170886,0.267687,0.000637917,0.284866,0.0887542,0.267811,0.338547,0.147872,0.189388,0.293546,0.210125,0.292967,0.218414,0.0509944,0.0871471,0.0689852,0.0602698,0.341188,0.259328,0.437467,0.0015944,0.15696,0.129351,0.141936,0.0786166,0.276997,0.205513,0.282389,0.251421,0.162089,0.330223,0.387837,0.233244,0.207281,0.327401,0.195748,0.27845,0.161712,0.237871,0.239139,0.095257,0.328852,0.332769,0.262022,0.274403,0.266687,0.184534,0.248707,0.31749,0.15156,0.287598,0.313858,0.223773,0.036547,0.181895,0.253768,0.30702,0.202977,0.170837,0.327002,0.28543,0.222656,0.228479,0.127111,0.259989,0.390754,0.355805,0.279739,0.108118,0.0371525,0.139723,0.0708274,0.0710478,0.196248,0.102645,0.0539258,0.0709978,0.401939,0.332746,0.271338,0.242121,0.298673,0.244395,0.106889,0.128632,0.0845989,0.159153,0.0842401,0.13698,0.0874421,0.100355,0.167854,0.142846,0.0583767,0.088258,0.117657,0.0486914,0.175784,0.262778,0.373453,0.0755696,0.433518,0.184359,0.334474,0.325785,0.257476,0.291176,0.376537,0.322827,0.229571,0.0739466,0.335984,0.171704,0.208256,0.265058,0.256405,0.362898,0.302133,0.40806,0.0120812,0.279606,0.00499935,0.150674,0.251128,0.246177,0.0729297,0.0104945,0.318525,0.213257,0.287217,0.122782,0.410951,0.289049,0.266974,0.125746,0.112897,0.0926658,0.222091,0.205977,0.0675312,0.0936726,0.343425,0.132374,0.285122,0.22741,0.203996,0.276721,0.321965,0.0386145,0.450113
 
}}
 
}}

Revision as of 09:07, 8 August 2012


Full id: C2235_Mast_CD14_Basophils_immature_Neutrophils_Monocytederived_mature



Phase1 CAGE Peaks

  Short description
Hg19::chr12:69327112..69327126,+ p@chr12:69327112..69327126
+
Hg19::chr15:86124881..86124895,+ p35@AKAP13
Hg19::chr19:13947099..13947104,- p1@LOC284454
Hg19::chr9:127048437..127048462,+ p10@NEK6


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


GO IDGO nameFDR corrected p-value
GO:0004674protein serine/threonine kinase activity0.0117724961403574
GO:0004691cAMP-dependent protein kinase activity0.0117724961403574
GO:0009966regulation of signal transduction0.0117724961403574
GO:0030071regulation of mitotic metaphase/anaphase transition0.0117724961403574
GO:0007091mitotic metaphase/anaphase transition0.0117724961403574
GO:0004690cyclic nucleotide-dependent protein kinase activity0.0117724961403574
GO:0004672protein kinase activity0.0165849601211184
GO:0016773phosphotransferase activity, alcohol group as acceptor0.0211838772948868
GO:0016301kinase activity0.02669602727628
GO:0016772transferase activity, transferring phosphorus-containing groups0.02669602727628
GO:0007242intracellular signaling cascade0.02669602727628
GO:0007059chromosome segregation0.02669602727628
GO:0019992diacylglycerol binding0.02669602727628
GO:0007088regulation of mitosis0.0281470938565469
GO:0043123positive regulation of I-kappaB kinase/NF-kappaB cascade0.0387994826056314
GO:0043122regulation of I-kappaB kinase/NF-kappaB cascade0.0396760250169122
GO:0007249I-kappaB kinase/NF-kappaB cascade0.0440474291966009
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0440474291966009
GO:0009967positive regulation of signal transduction0.0440474291966009
GO:0016740transferase activity0.0440474291966009
GO:0035023regulation of Rho protein signal transduction0.0440474291966009
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0440474291966009
GO:0007266Rho protein signal transduction0.0477194477002178
GO:0060089molecular transducer activity0.0477194477002178
GO:0004871signal transducer activity0.0477194477002178



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


Cell Type
Ontology termp-valuen
myeloid leukocyte1.51e-2676
granulocyte monocyte progenitor cell1.77e-2671
myeloid lineage restricted progenitor cell1.17e-2470
macrophage dendritic cell progenitor4.25e-2465
CD14-positive, CD16-negative classical monocyte1.34e-2342
monopoietic cell3.29e-2363
monocyte3.29e-2363
monoblast3.29e-2363
promonocyte3.29e-2363
classical monocyte1.02e-2245
leukocyte8.48e-21140
hematopoietic lineage restricted progenitor cell8.42e-18124
myeloid cell4.97e-17112
common myeloid progenitor4.97e-17112
nongranular leukocyte2.36e-16119
hematopoietic stem cell3.48e-15172
angioblastic mesenchymal cell3.48e-15172
hematopoietic cell3.08e-14182
hematopoietic oligopotent progenitor cell1.62e-13165
hematopoietic multipotent progenitor cell1.62e-13165
mesenchymal cell1.68e-10358
connective tissue cell8.02e-10365
motile cell2.20e-08390
Uber Anatomy
Ontology termp-valuen
hematopoietic system4.54e-25102
blood island4.54e-25102
hemolymphoid system2.29e-24112
bone marrow3.08e-2480
bone element1.58e-2386
skeletal element1.01e-21101
skeletal system1.01e-21101
immune system2.39e-20115
connective tissue7.03e-10375
musculoskeletal system3.26e-07167


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.