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Difference between revisions of "Coexpression cluster:C810"

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|tf_chipseq_enrich=BATF#10538;8:19.4862414338429:3.35986009675805e-10:3.37080142790887e-08!BCL11A#53335;9:25.5325095932464:8.09175691577641e-13:1.15292633086872e-10!BCL3#602;5:17.2735514018692:4.52539555281746e-06:0.00014146297100889!EBF1#1879;6:5.3438801079414:0.000280926593131646:0.00298957534747055!EGR1#1958;6:2.99290745688608:0.00644658718507573:0.0280111132893212!IRF4#3662;7:15.3401588807209:4.36532178232436e-08:2.86555525848003e-06!MAFF#23764;3:16.8946069469835:0.000611362794254419:0.00507552614222077!MAFK#7975;3:8.13021994134897:0.00495756569707518:0.0231630297426222!MEF2A#4205;9:16.8689078186796:3.32312367299441e-11:3.82228759123197e-09!MEF2C#4208;5:20.655677246312:1.88780031393599e-06:6.9520443225374e-05!NFKB1#4790;9:4.93925708177445:1.84959706943667e-06:6.85729742047911e-05!PAX5#5079;8:5.33565242494226:8.62942979482416e-06:0.000234212322853857!POLR2A#5430;10:2.14745317655807:0.000479337749163792:0.00436494508544052!POU2F2#5452;7:6.37428684041977:1.70647444265859e-05:0.000390924510455846!SP1#6667;7:3.98886696469863:0.000373436559150151:0.00371158553493363!SRF#6722;4:5.51887130486712:0.00405805946662648:0.0194127735725084!TAF1#6872;7:2.3401324000217:0.0104083984434833:0.0386366705185338!TBP#6908;8:2.96541654967711:0.000730287566864471:0.00581684740663198!TCF12#6938;7:7.4441254315305:6.0261004481986e-06:0.000179407042391509
 
|tf_chipseq_enrich=BATF#10538;8:19.4862414338429:3.35986009675805e-10:3.37080142790887e-08!BCL11A#53335;9:25.5325095932464:8.09175691577641e-13:1.15292633086872e-10!BCL3#602;5:17.2735514018692:4.52539555281746e-06:0.00014146297100889!EBF1#1879;6:5.3438801079414:0.000280926593131646:0.00298957534747055!EGR1#1958;6:2.99290745688608:0.00644658718507573:0.0280111132893212!IRF4#3662;7:15.3401588807209:4.36532178232436e-08:2.86555525848003e-06!MAFF#23764;3:16.8946069469835:0.000611362794254419:0.00507552614222077!MAFK#7975;3:8.13021994134897:0.00495756569707518:0.0231630297426222!MEF2A#4205;9:16.8689078186796:3.32312367299441e-11:3.82228759123197e-09!MEF2C#4208;5:20.655677246312:1.88780031393599e-06:6.9520443225374e-05!NFKB1#4790;9:4.93925708177445:1.84959706943667e-06:6.85729742047911e-05!PAX5#5079;8:5.33565242494226:8.62942979482416e-06:0.000234212322853857!POLR2A#5430;10:2.14745317655807:0.000479337749163792:0.00436494508544052!POU2F2#5452;7:6.37428684041977:1.70647444265859e-05:0.000390924510455846!SP1#6667;7:3.98886696469863:0.000373436559150151:0.00371158553493363!SRF#6722;4:5.51887130486712:0.00405805946662648:0.0194127735725084!TAF1#6872;7:2.3401324000217:0.0104083984434833:0.0386366705185338!TBP#6908;8:2.96541654967711:0.000730287566864471:0.00581684740663198!TCF12#6938;7:7.4441254315305:6.0261004481986e-06:0.000179407042391509
 
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106051,0.418333,0.562338,0.125614,0.185352,0.836596,0.353062,0.319022,0.321942,0.635845,0.0922004,0.929835,0.405772,0.123725,0.262911,0.171937,0.404613,0.622957,0.557671,0.504704,0.373984,0.811746,0.228285,0.676166,0.231968,0.468003,0.247799,0.48957,0.743386,0.412992,0.398555,0.456726,0.396589,0.266963,0.709133,0.67635,0.149158,0.282725,0.859952,0.378291,0.235602,0.319841,0.367901,0.374858,0.979257,0.319367,0.162583,0.294593,0.157267,0.191637,0.230272,0.279473,0.404631,0.108968,0.22657,0.660939,0.988741,0.971281,0.55805,0.679662,0.345014,0.509635,0.479648,0.929056,0.179342,0.150014,0.81061,0.188879,0.47404,0.696314,0.218579,0.570357,0.68237,0.113765,0.36072,0.47356,0.959721,0.981283,0.537364,0.559783,0.317505,0.20738,0.318705,0.155403,0.28528,0.535959,0.230462,0.144238,0.322438,0.215644,0.574582,0.426136,0.120206,0.377654,0.142291,0.16868,0.332605,0.277625,0.467862,0.308973,0.56623,0.178172,0.589292,0.23158,0.675976,0.423653,0.514609,0.559931,0.300338,0.732963,0.469054,0.750871,0.421894,0.194062,0.507323,0.415,0.903792,0.431432,0.220174,0.274822,0.0187009,0.405162,0.419696,0.289311,0.429656,0.463283,0.512016,0.388586,0.578187,0.619193,0.67784,0.344554,0.253271,0.738717,0.329845,0.328599,0.49772,0.472883,0.28263,0.640164,0.615079,0.396379,0.295573,0.629492,0.305672,0.329653,0.0826755,0.458123,0.271514,0.791032,0.456073,0.501852,0.246465,0.494232,0.43242,0.712293,0.908417,0.183756,0.612124,0.480538,0.559853,0.583498,0.825084,0.831962,0.115301,0.829864,0.080776,0.137664,0.380034,0.27075,0.784815,0.590452,0.825171,0.584173,0.737067,0.854868,0.455616,0.843029,0.862689,0.5197,0.502426,0.440562,0.252404,0.216439,0.944711,0.450492,0.0127816,0.61725,0.490958,0.18698,0.203578,0.580775,0.44764,0.992418,0.99156,0.576288,0.912555,0.959502,0.803782,0.307006,0.903899,0.931168,0.931173,0.679307,0.45002,0.612763,0.10605,0.942119,0.637579,0.396477,0.622052,0.630525,0.586358,0.605312,0.875953,0.492011,0.988024,0.895292,0.444299,0.945381,0.858712,0.665473,0.969881,0.789666,0.885498,0.636276,0.993938,0.989751,0.992758,0.53144,0.0399581,0.535663,0.334231,0.0781485,0.842795,0.761127,0.219538,0.432068,0.398215,0.261296,0.286066,0.358365,0.0607944,0.44921,0.582609,0.347515,0.30635,0.761126,0.715876,0.486888,0.668993,0.741521,0.396087,0.100783,0.696409,0.371904,0.870127,0.748955,0.820992,0.4856,0.914966,0.905314,0.257328,0.566957,0.268413,0.26791,0.873907,0.934834,0.944266,0.534174,0.865681,0.39248,0.886604,0.455938,0.520391,0.251906,0.718663,0.887402,0.473785,0.390604,0.789652,0.91557,0.826633,0.780483,0.92196,0.808423,0.192231,0.592348,0.53157,0.655131,0.209143,0.586429,0.0585063,0.658205,0.851093,0.703901,0.601385,0.0717592,0.705001,0.339766,0.665244,0.224107,0.683791,0.618341,0.0803528,0.3344,0.903869,0.563598,0.0923247,0.518685,0.507693,0.874718,0.953578,0.346038,0.871557,0.670798,0.300038,0.167977,0.817382,0.654945,0.783476,0.09408,0.801753,0.174128,0.773185,0.162573,0.520341,0.380355,0.485241,0.740437,0.918312,0.333168,0.847821,0.535337,0.0279973,0.236882,0.660591,0.535113,0.108025,0.503913,0.263698,0.501058,0.220257,0.273716,0.446439,0.506723,0.447516,0.562098,0.540386,0.269945,0.284002,0.454236,0.620409,0.794982,0.626018,0.043942,0.861346,0.48269,0.51191,0.564853,0.568699,0.751808,0.710655,0.559441,0.521951,0.498061,0.355143,0.523646,0.10457,0.278571,0.35692,0.483693,0.575859,0.663478,0.257808,0.374056,0.541075,0.612576,0.567518,0.207337,0.54127,0.644166,0.329711,0.408394,0.580521,0.445508,0.579662,0.459939,0.122652,0.203837,0.163644,0.143933,0.647708,0.527867,0.762661,0.429455,0.347441,0.292694,0.317977,0.185106,0.555523,0.437378,0.563762,0.515166,0.0731855,0.632866,0.706798,0.485196,0.440503,0.628986,0.41993,0.557752,0.356596,0.492927,0.495033,0.221402,0.630984,0.0824379,0.532147,0.551524,0.539507,0.399497,0.510758,0.615167,0.33694,0.571636,0.610026,0.469149,0.525556,0.394627,0.0381241,0.600238,0.432878,0.373963,0.628435,0.568369,0.467238,0.477159,0.288135,0.52892,0.710278,0.666923,0.559725,0.248778,0.528779,0.313572,0.167775,0.168268,0.420832,0.237199,0.129411,0.168156,0.723393,0.636312,0.546774,0.499966,0.588091,0.503708,0.246187,0.291231,0.198269,0.351675,0.197483,0.308086,0.20448,0.232324,0.368317,0.319783,0.139615,0.206257,0.268704,0.117319,0.383259,0.0421382,0.689269,0.675716,0.758473,0.399175,0.638663,0.626754,0.52491,0.576995,0.693079,0.622646,0.13931,0.305345,0.640709,0.375599,0.44222,0.536945,0.523194,0.676017,0.593153,0.730416,0.00849025,0.0503253,0.570279,0.335207,0.514691,0.506629,0.668131,0.30461,0.616624,0.450988,0.571064,0.279276,0.381344,0.0553241,0.539957,0.285349,0.2588,0.719228,0.46627,0.0208674,0.65176,0.217989,0.283287,0.298817,0.567905,0.475347,0.434688,0.555097,0.621443,0.536392,0.775775
 +
|tfbs_overrepresentation_for_novel_motifs=0.280498,0.383295,0.273994,1.04431,1.24375,0.403356,0.474413,0.140612,0.138703,0.230076,0.375531,0.515448,0.348369,0.46359,0.236531,0.712999,0.68716,0.191625,0.116269,0.0470551,0.274046,0.805814,0.396189,0.233338,0.314616,0.537051,0.641011,0.39419,1.25378,0.281506,0.935963,0.722879,0.165252,0.352585,0.20845,0.0313677,0.20579,0.404426,0.547451,0.395523,0.207288,0.340749,1.26659,0.235234,0.235672,0.301189,0.47544,0.365597,0.518466,0.675323,0.550604,0.486559,0.214602,0.797754,0.947672,0.466348,0.244111,0.435652,0.281305,0.434711,0.762758,0.477672,0.848838,0.660336,0.494624,0.627106,1.0348,1.4,0.712787,1.2388,0.328852,1.40734,0.0579262,0.945703,0.104203,0.0955465,0.610619,0.644006,0.709631,0.832314,1.24887,0.659298,0.49429,0.439665,0.89511,0.0102458,0.175904,0.272913,0.575506,1.4989,1.12715,0.868602,0.739223,0.509773,0.238337,1.62266,0.743843,0.780743,0.579925,0.0696508,0.187593,0.733724,0.775299,0.690713,0.616014,0.37138,0.675372,0.460348,0.31439,0.22412,0.283874,0.772599,0.741574,0.384185,1.07963,0.204477,0.171258,0.354459,0.624851,0.515375,0.937551,0.57318,0.400807,0.504966,1.18924,0.644741,0.468435,0.744085,2.24435,0.182384,0.869279,0.358161,0.993705,0.50181,1.13991,0.0752959,0.9239,0.394712,1.09788,1.95265,1.55112,1.06096,0.470062,0.777301,0.617705,0.42776,0.601672,1.79367,1.60827,0.168379,0.193209,0.0287097,0.869654,1.33157,0.477214,1.26919,0.560015,1.19853,0.314669,0.28899,1.05976,0.851493,0.708865,0.793294,0.633206,0.493542,0.158769,0.473159,0.393553
 
}}
 
}}

Revision as of 05:29, 26 November 2012


Full id: C810_b_cord_xeroderma_adult_plasma_splenic_hairy



Phase1 CAGE Peaks

  Short description
Hg19::chr12:104319130..104319137,+ p@chr12:104319130..104319137
+
Hg19::chr14:75982215..75982255,+ p@chr14:75982215..75982255
+
Hg19::chr19:36204309..36204335,+ p1@ZBTB32
Hg19::chr19:6592539..6592560,- -
p@chr19:6592539..6592560
Hg19::chr6:149353782..149353788,- p5@ENST00000433442
Hg19::chr6:149353827..149353847,- p2@ENST00000433442
Hg19::chr6:149353899..149353911,- p4@ENST00000433442
Hg19::chr6:149373615..149373627,+ p@chr6:149373615..149373627
+
Hg19::chr9:137283392..137283414,+ p@chr9:137283392..137283414
+
Hg19::chr9:137284044..137284078,+ p@chr9:137284044..137284078
+


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


Disease
Ontology termp-valuen
lymphoma6.80e-3310
hematologic cancer1.44e-0951
immune system cancer1.44e-0951
genetic disease2.02e-081
monogenic disease2.02e-081
xeroderma pigmentosum2.02e-081
non-Hodgkin lymphoma2.17e-081
cutaneous T cell lymphoma2.17e-081
mycosis fungoides2.17e-081
anemia2.50e-081
acute leukemia3.57e-081


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)

{{{tfbs_overrepresentation_jaspar}}}



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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BATF#10538819.48624143384293.35986009675805e-103.37080142790887e-08
BCL11A#53335925.53250959324648.09175691577641e-131.15292633086872e-10
BCL3#602517.27355140186924.52539555281746e-060.00014146297100889
EBF1#187965.34388010794140.0002809265931316460.00298957534747055
EGR1#195862.992907456886080.006446587185075730.0280111132893212
IRF4#3662715.34015888072094.36532178232436e-082.86555525848003e-06
MAFF#23764316.89460694698350.0006113627942544190.00507552614222077
MAFK#797538.130219941348970.004957565697075180.0231630297426222
MEF2A#4205916.86890781867963.32312367299441e-113.82228759123197e-09
MEF2C#4208520.6556772463121.88780031393599e-066.9520443225374e-05
NFKB1#479094.939257081774451.84959706943667e-066.85729742047911e-05
PAX5#507985.335652424942268.62942979482416e-060.000234212322853857
POLR2A#5430102.147453176558070.0004793377491637920.00436494508544052
POU2F2#545276.374286840419771.70647444265859e-050.000390924510455846
SP1#666773.988866964698630.0003734365591501510.00371158553493363
SRF#672245.518871304867120.004058059466626480.0194127735725084
TAF1#687272.34013240002170.01040839844348330.0386366705185338
TBP#690882.965416549677110.0007302875668644710.00581684740663198
TCF12#693877.44412543153056.0261004481986e-060.000179407042391509



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.