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Difference between revisions of "Coexpression cluster:C1382"

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|full_id=C1382_CD14_Natural_CD8_CD4_Basophils_CD19_Neutrophils
 
|full_id=C1382_CD14_Natural_CD8_CD4_Basophils_CD19_Neutrophils
 
|id=C1382
 
|id=C1382
|ontology_enrichment_celltype=CL:0000037!3.01e-39!172;CL:0000566!3.01e-39!172;CL:0000988!1.88e-38!182;CL:0000738!1.36e-36!140;CL:0002032!1.52e-35!165;CL:0000837!1.52e-35!165;CL:0002087!3.74e-32!119;CL:0002031!1.25e-31!124;CL:0002057!1.59e-25!42;CL:0000860!3.38e-25!45;CL:0000763!1.91e-19!112;CL:0000049!1.91e-19!112;CL:0000766!8.98e-18!76;CL:0000557!8.84e-17!71;CL:0002009!3.65e-16!65;CL:0000839!2.58e-15!70;CL:0000542!2.91e-15!53;CL:0000051!2.91e-15!53;CL:0002194!3.15e-15!63;CL:0000576!3.15e-15!63;CL:0000040!3.15e-15!63;CL:0000559!3.15e-15!63;CL:0000838!3.42e-15!52;CL:0000791!3.20e-10!18;CL:0000789!3.20e-10!18;CL:0002420!3.20e-10!18;CL:0002419!3.20e-10!18;CL:0000790!3.20e-10!18;CL:0000084!5.99e-09!25;CL:0000827!5.99e-09!25;CL:0000134!1.63e-08!358;CL:0002320!4.42e-08!365;CL:0000003!5.19e-08!722;CL:0000236!4.02e-07!14
+
|ontology_enrichment_celltype=CL:0000037!2.27e-36!168;CL:0000566!2.27e-36!168;CL:0000738!1.74e-35!136;CL:0000988!1.94e-35!177;CL:0002032!9.56e-33!161;CL:0000837!9.56e-33!161;CL:0002087!1.09e-31!115;CL:0002031!1.69e-31!120;CL:0000860!2.04e-25!42;CL:0002057!2.04e-25!42;CL:0000473!1.57e-20!48;CL:0000234!1.57e-20!48;CL:0000763!7.57e-18!108;CL:0000049!7.57e-18!108;CL:0000557!1.34e-17!67;CL:0000766!1.36e-17!72;CL:0002009!1.01e-16!61;CL:0000839!6.41e-16!66;CL:0002194!9.55e-16!59;CL:0000576!9.55e-16!59;CL:0000040!9.55e-16!59;CL:0000559!9.55e-16!59;CL:0000838!2.14e-14!52;CL:0000542!2.63e-14!53;CL:0000051!2.63e-14!53;CL:0002242!6.74e-14!55;CL:0000791!6.70e-10!18;CL:0000789!6.70e-10!18;CL:0002420!6.70e-10!18;CL:0002419!6.70e-10!18;CL:0000790!6.70e-10!18;CL:0000084!3.31e-08!25;CL:0000827!3.31e-08!25;CL:0000003!2.89e-07!722;CL:0000134!3.21e-07!354;CL:0000325!5.82e-07!87;CL:0000236!7.12e-07!14;CL:0002320!7.29e-07!361
 
|ontology_enrichment_disease=
 
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!2.64e-18!102;UBERON:0003061!2.64e-18!102;UBERON:0002193!1.31e-17!112;UBERON:0002405!1.41e-14!115;UBERON:0002371!4.97e-14!80;UBERON:0001474!9.32e-12!86;UBERON:0003081!7.91e-09!216;UBERON:0004765!4.10e-08!101;UBERON:0001434!4.10e-08!101;UBERON:0002384!8.28e-07!375
+
|ontology_enrichment_uberon=UBERON:0002390!3.26e-18!98;UBERON:0003061!3.26e-18!98;UBERON:0002193!4.39e-18!108;UBERON:0002405!4.06e-15!93;UBERON:0002371!4.03e-14!76;UBERON:0001474!4.61e-12!82;UBERON:0004765!1.17e-09!90;UBERON:0003081!1.59e-08!203;UBERON:0001434!5.95e-08!100
 
|tf_chipseq_enrich=BCL3#602;3:17.2735514018692:0.000453963060809826:0.00422035322306546!BCLAF1#9774;3:10.8263238050609:0.00177235104699106:0.0108890270602212!CCNT2#905;4:4.22413438464176:0.00710980547887581:0.0296080774515854!ELF1#1997;5:3.54841496567295:0.00344683777572169:0.0175277188849254!ETS1#2113;4:6.48584061480156:0.00141047406846322:0.00916953011118769!GABPB1#2553;4:4.71178922412145:0.00473005431155596:0.0222884922507035!HEY1#23462;5:3.36675920258809:0.00442382704520303:0.0209494909211009!HMGN3#9324;4:5.45236514890039:0.00272961688233377:0.0149875641435286!MAX#4149;4:4.30170367267141:0.00664492391067637:0.0282972154253671!PAX5#5079;4:4.44637702078522:0.00587473351924079:0.026362090487926!POLR2A#5430;6:2.14745317655807:0.0101957067681878:0.0380119736965968!POU2F2#5452;4:6.07074937182835:0.00181532620952452:0.0108941477904115!REST#5978;4:6.43335247741868:0.00145495422303207:0.00932461733549623!SIN3A#25942;4:3.60592315121009:0.0127389384448714:0.0459406765277596!SMARCB1#6598;5:15.2105964842978:2.82373084197797e-06:9.74901241009379e-05!TAF1#6872;5:2.78587190478774:0.0107863634029041:0.0397907882955705!TAF7#6879;4:7.62204626994928:0.00075927901514148:0.00596631864136341!TBP#6908;5:3.08897557258032:0.00664544827578693:0.0282856083659336!YY1#7528;5:4.09264229154488:0.00174336546284953:0.0107254562661724
 
|tf_chipseq_enrich=BCL3#602;3:17.2735514018692:0.000453963060809826:0.00422035322306546!BCLAF1#9774;3:10.8263238050609:0.00177235104699106:0.0108890270602212!CCNT2#905;4:4.22413438464176:0.00710980547887581:0.0296080774515854!ELF1#1997;5:3.54841496567295:0.00344683777572169:0.0175277188849254!ETS1#2113;4:6.48584061480156:0.00141047406846322:0.00916953011118769!GABPB1#2553;4:4.71178922412145:0.00473005431155596:0.0222884922507035!HEY1#23462;5:3.36675920258809:0.00442382704520303:0.0209494909211009!HMGN3#9324;4:5.45236514890039:0.00272961688233377:0.0149875641435286!MAX#4149;4:4.30170367267141:0.00664492391067637:0.0282972154253671!PAX5#5079;4:4.44637702078522:0.00587473351924079:0.026362090487926!POLR2A#5430;6:2.14745317655807:0.0101957067681878:0.0380119736965968!POU2F2#5452;4:6.07074937182835:0.00181532620952452:0.0108941477904115!REST#5978;4:6.43335247741868:0.00145495422303207:0.00932461733549623!SIN3A#25942;4:3.60592315121009:0.0127389384448714:0.0459406765277596!SMARCB1#6598;5:15.2105964842978:2.82373084197797e-06:9.74901241009379e-05!TAF1#6872;5:2.78587190478774:0.0107863634029041:0.0397907882955705!TAF7#6879;4:7.62204626994928:0.00075927901514148:0.00596631864136341!TBP#6908;5:3.08897557258032:0.00664544827578693:0.0282856083659336!YY1#7528;5:4.09264229154488:0.00174336546284953:0.0107254562661724
 
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,0.076236,0.444489,0.31161,0.361651,0.0953991,0.319245,0.236827,0.0650516,0.575882,0.390908,0.0773818,0.115736,0.296177,0.229952,0.205891,0.207936,0.454529,0.0563868,0.21513,0.268235,0.0761868,0.167255,0.107028,0.267379,0.443026,0.387018,0.343977,0.244992,0.0806655,0.417985,0.147684,0.146453,0.0559261,0.157053,0.332022,0.557852,0.273582,0.262915,0.306556,0.26147,0.170005,0.03931,0.147801,0.092369,0.18076,0.329937,0.248113,0.148878,0.206465,0.240599,0.245625,0.674943,0.3342,0.100989,0.188919,0.0975693,0.119835,0.145322,0.178533,0.267392,0.0668831,0.142859,0.477403,0.749878,0.358495,0.387334,0.494914,0.224219,0.347904,0.324262,0.0771032,0.111827,0.0929171,0.63152,0.118035,0.319902,0.510835,0.137556,0.397628,0.49748,0.0699003,0.235435,0.31953,0.215533,0.191316,0.370285,0.388777,0.204831,0.130161,0.205669,0.0963721,0.182511,0.369139,0.145449,0.0892237,0.208284,0.135613,0.401189,0.283386,0.0739625,0.247651,0.0879809,0.104922,0.215434,0.177269,0.31512,0.198881,0.394164,0.111068,0.4137,0.146194,0.147563,0.281527,0.35188,0.3889,0.192889,0.547162,0.316041,0.203431,0.280212,0.121421,0.346061,0.275075,0.054262,0.287361,0.138613,0.175356,0.116846,0.267784,0.278571,0.185281,0.286026,0.31159,0.349805,0.255609,0.404239,0.439697,0.493192,0.223892,0.160738,0.553042,0.213489,0.212611,0.338443,0.319005,0.180695,0.45842,0.436073,0.261316,0.189596,0.448839,0.196587,0.213353,0.0504588,0.307626,0.173101,0.525576,0.306056,0.341713,0.156156,0.33569,0.288104,0.526446,0.761719,0.114697,0.433479,0.324956,0.388835,0.408751,0.648685,0.855529,0.070868,0.654476,0.245,0.0850317,0.0340601,0.661446,0.60218,0.696439,0.648789,0.409327,0.466607,0.685907,0.603176,0.670776,0.696176,0.355968,0.636386,0.592254,0.0881515,0.616927,0.82397,0.340734,0.677416,0.255628,0.628346,0.387005,0.750579,0.326884,0.772379,0.129532,0.230665,0.402631,0.181689,0.853963,0.623606,0.488239,0.754734,0.799242,0.48468,0.494578,0.301433,0.711296,0.492887,0.509735,0.727698,0.559471,0.134655,0.449761,0.6937,0.427531,0.801496,0.629087,0.275995,0.200465,0.297082,0.149532,0.612581,0.746016,0.221303,0.240506,0.593416,0.72684,0.59088,0.759983,0.343078,0.0768361,0.360788,0.368898,0.510705,0.447298,0.304675,0.576455,0.619669,0.287839,0.262665,0.286983,0.183051,0.530004,0.583703,0.300816,0.407994,0.225997,0.487688,0.491994,0.529993,0.329919,0.484887,0.189506,0.57085,0.650025,0.766238,0.540605,0.881739,0.563634,0.848142,0.624569,0.435062,0.226664,0.785953,0.0908572,0.659669,0.659285,0.711322,0.49471,0.823122,0.367684,0.700165,0.258457,0.654742,0.305952,0.356524,0.159817,0.177234,0.376842,0.319704,0.555004,0.607569,0.773067,0.650555,0.597394,0.198803,0.628973,0.594475,0.416321,0.365565,0.47205,0.610358,0.331346,0.578885,0.474879,0.601828,0.518205,0.424119,0.60488,0.519279,0.515179,0.745866,0.623664,0.414645,0.438945,0.619652,0.706112,0.754688,0.39196,0.758981,0.355152,0.346355,0.712437,0.841498,0.520214,0.708106,0.486574,0.493703,0.366382,0.639482,0.471879,0.600697,0.474504,0.621275,0.727464,0.223923,0.564042,0.356483,0.5588,0.624316,0.55481,0.777518,0.509842,0.866311,0.368631,0.321667,0.149733,0.477082,0.368449,0.066291,0.343349,0.450702,0.341084,0.138667,0.459605,0.298707,0.345583,0.299527,0.390707,0.372757,0.172033,0.181635,0.304651,0.440771,0.613566,0.445744,0.371991,0.694395,0.326635,0.349721,0.39301,0.396235,0.566617,0.524829,0.388491,0.357781,0.338712,0.231439,0.359148,0.0641227,0.177916,0.232711,0.00774694,0.402268,0.479755,0.163801,0.245045,0.373321,0.433875,0.395243,0.130132,0.373481,0.462042,0.213394,0.270174,0.406219,0.298,0.40549,0.30902,0.0755079,0.12783,0.101672,0.0890286,0.465261,0.362561,0.578088,0.285875,0.0276999,0.18761,0.20516,0.115576,0.385234,0.291842,0.392097,0.352327,0.232997,0.122302,0.521039,0.328594,0.294205,0.448388,0.278746,0.387086,0.232479,0.334662,0.336321,0.139427,0.450171,0.454978,0.366035,0.0845395,0.0798623,0.0382775,0.0694754,0.43615,0.218495,0.398705,0.431643,0.316114,0.360691,0.26003,0.35537,0.423126,0.288449,0.244977,0.447896,0.395958,0.314638,0.322324,0.184473,0.363414,0.524458,0.482957,0.388728,0.157712,0.3633,0.202084,0.104337,0.104656,0.279419,0.149946,0.0797883,0.104584,0.180857,0.0238,0.378002,0.340219,0.412672,0.343186,0.155969,0.186603,0.124175,0.228962,0.12366,0.198264,0.128253,0.14669,0.240899,0.206424,0.0862744,0.129421,0.171188,0.0721407,0.251724,0.36701,0.504058,0.491191,0.573638,0.263371,0.457065,0.446399,0.360168,0.403229,0.507716,0.442751,0.323763,0.486842,0.458912,0.246162,0.295506,0.369944,0.358783,0.491474,0.417013,0.544575,0.21822,0.388558,0.397562,0.21727,0.351946,0.345508,0.484083,0.486223,0.437432,0.302171,0.398223,0.178399,0.547908,0.400541,0.372405,0.182559,0.164471,0.533328,0.313891,0.292462,0.46896,0.137165,0.467981,0.191837,0.395568,0.320916,0.289812,0.384881,0.441686,0.369492,0.592234
 
}}
 
}}

Revision as of 02:12, 19 October 2012


Full id: C1382_CD14_Natural_CD8_CD4_Basophils_CD19_Neutrophils



Phase1 CAGE Peaks

  Short description
Hg19::chr13:42037742..42037760,+ p5@C13orf15
Hg19::chr17:39845542..39845569,- p@chr17:39845542..39845569
-
Hg19::chr18:33077635..33077682,+ p@chr18:33077635..33077682
+
Hg19::chr1:198126705..198126726,- p@chr1:198126705..198126726
-
Hg19::chr2:128459741..128459755,- p@chr2:128459741..128459755
-
Hg19::chr2:128459765..128459803,- p@chr2:128459765..128459803
-


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


Cell Type
Ontology termp-valuen
hematopoietic stem cell2.27e-36168
angioblastic mesenchymal cell2.27e-36168
leukocyte1.74e-35136
hematopoietic cell1.94e-35177
hematopoietic oligopotent progenitor cell9.56e-33161
hematopoietic multipotent progenitor cell9.56e-33161
nongranular leukocyte1.09e-31115
hematopoietic lineage restricted progenitor cell1.69e-31120
classical monocyte2.04e-2542
CD14-positive, CD16-negative classical monocyte2.04e-2542
defensive cell1.57e-2048
phagocyte1.57e-2048
myeloid cell7.57e-18108
common myeloid progenitor7.57e-18108
granulocyte monocyte progenitor cell1.34e-1767
myeloid leukocyte1.36e-1772
macrophage dendritic cell progenitor1.01e-1661
myeloid lineage restricted progenitor cell6.41e-1666
monopoietic cell9.55e-1659
monocyte9.55e-1659
monoblast9.55e-1659
promonocyte9.55e-1659
lymphoid lineage restricted progenitor cell2.14e-1452
lymphocyte2.63e-1453
common lymphoid progenitor2.63e-1453
nucleate cell6.74e-1455
mature alpha-beta T cell6.70e-1018
alpha-beta T cell6.70e-1018
immature T cell6.70e-1018
mature T cell6.70e-1018
immature alpha-beta T cell6.70e-1018
T cell3.31e-0825
pro-T cell3.31e-0825
native cell2.89e-07722
mesenchymal cell3.21e-07354
stuff accumulating cell5.82e-0787
B cell7.12e-0714
connective tissue cell7.29e-07361
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.26e-1898
blood island3.26e-1898
hemolymphoid system4.39e-18108
immune system4.06e-1593
bone marrow4.03e-1476
bone element4.61e-1282
skeletal element1.17e-0990
lateral plate mesoderm1.59e-08203
skeletal system5.95e-08100


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
BCL3#602317.27355140186920.0004539630608098260.00422035322306546
BCLAF1#9774310.82632380506090.001772351046991060.0108890270602212
CCNT2#90544.224134384641760.007109805478875810.0296080774515854
ELF1#199753.548414965672950.003446837775721690.0175277188849254
ETS1#211346.485840614801560.001410474068463220.00916953011118769
GABPB1#255344.711789224121450.004730054311555960.0222884922507035
HEY1#2346253.366759202588090.004423827045203030.0209494909211009
HMGN3#932445.452365148900390.002729616882333770.0149875641435286
MAX#414944.301703672671410.006644923910676370.0282972154253671
PAX5#507944.446377020785220.005874733519240790.026362090487926
POLR2A#543062.147453176558070.01019570676818780.0380119736965968
POU2F2#545246.070749371828350.001815326209524520.0108941477904115
REST#597846.433352477418680.001454954223032070.00932461733549623
SIN3A#2594243.605923151210090.01273893844487140.0459406765277596
SMARCB1#6598515.21059648429782.82373084197797e-069.74901241009379e-05
TAF1#687252.785871904787740.01078636340290410.0397907882955705
TAF7#687947.622046269949280.000759279015141480.00596631864136341
TBP#690853.088975572580320.006645448275786930.0282856083659336
YY1#752854.092642291544880.001743365462849530.0107254562661724



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.