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Coexpression cluster:C236: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002371!1.42e-71!76;UBERON:0001474!5.88e-66!82;UBERON:0002390!1.81e-61!98;UBERON:0003061!1.81e-61!98;UBERON:0004765!1.28e-59!90;UBERON:0002405!1.62e-57!93;UBERON:0002193!2.96e-55!108;UBERON:0001434!4.20e-53!100;UBERON:0002204!1.99e-29!167;UBERON:0003081!1.48e-26!203;UBERON:0000926!8.03e-15!315;UBERON:0004120!8.03e-15!315;UBERON:0006603!8.03e-15!315;UBERON:0002384!1.26e-13!371
|ontology_enrichment_uberon=UBERON:0002371!1.42e-71!76;UBERON:0001474!5.88e-66!82;UBERON:0002390!1.81e-61!98;UBERON:0003061!1.81e-61!98;UBERON:0004765!1.28e-59!90;UBERON:0002405!1.62e-57!93;UBERON:0002193!2.96e-55!108;UBERON:0001434!4.20e-53!100;UBERON:0002204!1.99e-29!167;UBERON:0003081!1.48e-26!203;UBERON:0000926!8.03e-15!315;UBERON:0004120!8.03e-15!315;UBERON:0006603!8.03e-15!315;UBERON:0002384!1.26e-13!371
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0.701653,0.981381,0.923424,0.661448,0.667363,0.982044,0.43488,1,0.811195,0.541248,0.834665,0.305776,0.809552,0.825542,0.707682,0.984162,0.936925,0.988491,0.900004,0.998709,0.461118,0.51076,0.813632,0.560205,0.997047,0.82122,0.576737,0.484749,0.949229,0.278042,0.999315,0.898428,0.246965,0.859219,0.999267,0.53154,0.470253,0.397064,0.507939,0.764056,0.999998,0.999896,0.64896,0.872416,0.267745,0.357221,0.456836,0.575794,0.809576,0.493743,0.780375,0.953035,0.999973,0.886783,0.526958,0.963345,0.91763,0.922298,0.739741,1,0.688429,0.616709,0.519013,0.12821,0.524657,0.999116,0.766643,0.874022,0.905222,0.509612,0.740196,0.891385,1,1,0.831728,0.86129,0.0784428,0.398194,0.193411,0.630826,0.58899,0.829759,0.786815,0.234478,0.899399,0.761422,0.960984,0.233163,0.53027,0.939076,0.595699,0.663774,0.688455,0.853208,0.718277,0.640652,0.869145,0.685798,0.602268,0.788635,0.998705,0.961271,0.925988,0.992116,0.622241,0.983807,0.0369086,0.204421,0.626979,0.719986,0.920537,0.957712,0.999999,0.845176,0.431151,0.849817,0.705315,0.953339,0.221313,0.598031,0.84297,0.974561,0.924081,0.330978,0.882952,0.672229,0.99038,0.711137,0.821491,0.676593,0.683072,0.904678,0.578687,0.977131,0.859109,0.983096,0.662802,0.011444,0.873459,0.931387,0.364492,0.682695,0.398984,0.973084,0.55739,0.562786,0.972477,0.916255,0.811674,0.37544,0.846393,0.999358,0.999914,0.33663,0.996256,0.979022,0.953892,0.964856,0.999966,1,0.514606,0.999971,0.936932,0.582657,0.772429,0.99838,0.888137,0.975831,0.975768,0.0387178,0.999403,0.996335,0.0784008,0.998711,0.990731,0.627633,0.989263,0.776482,0.975048,0.830053,0.998048,0.998271,0.99891,0.999995,0.852101,0.950544,0.993028,0.989366,0.8582,1,1,0.0342981,0.907275,0.995929,0.962405,0.48718,0.993756,0.998393,0.999996,0.660719,0.866985,0.999565,0.990331,0.997659,0.995657,0.986888,0.96399,0.980681,0.724241,0.0248259,1,0.85347,1,0.999998,0.4561,1,0.999945,0.980473,1,0.810702,1,0.99556,1,1,1,0.937523,0.933735,0.472854,0.829616,0.833021,0.960558,0.469702,0.835511,0.121731,0.800305,0.947883,0.3201,0.327689,0.930677,0.68261,0.756064,0.111389,0.642016,0.999924,0.978531,0.554095,0.778903,1,0.99942,0.976313,0.995461,0.0882524,0.999967,0.568392,0.999782,0.986505,0.998792,1,0.999814,0.726137,0.268297,0.613118,0.999566,1,0.997985,0.469274,0.950057,0.791768,0.999999,0.87345,0.807022,0.819556,0.979468,0.999965,0.52407,0.956517,0.998968,0.97717,0.944696,0.977954,0.997299,0.922826,0.976824,0.773885,0.463025,0.986374,0.982454,0.990216,0.998075,0.606359,1,0.721767,0.458456,0.99439,0.974577,0.567879,0.997339,0.962441,0.936458,0.818193,0.835476,0.992617,0.99989,0.955781,0.999905,0.80443,0.787243,0.960285,1,0.300243,0.997892,0.95869,0.999999,0.805752,0.782658,0.949342,0.998796,0.756322,0.913744,0.995631,0.99846,0.56965,0.436243,0.99994,0.623646,0.897918,0.991223,0.700749,0.997615,0.828882,0.894013,0.797095,0.193822,0.989102,0.490575,0.917887,0.376242,0.391094,0.769583,0.72184,0.862962,0.920075,0.463509,0.955032,0.835918,0.843758,0.315491,0.871615,0.675002,0.995297,0.830325,0.309841,0.974825,0.544502,0.252068,0.368115,0.729543,0.997522,0.933326,0.0579295,0.272427,0.771512,0.924866,0.811915,0.478822,0.854339,0.92608,0.900832,0.880341,0.987974,0.258446,0.52195,0.989901,0.48722,0.992884,0.746123,0.83713,0.162877,0.905606,0.814878,0.963597,0.969169,0.963227,0.703373,0.537923,0.739437,0.651575,0.600242,0.944618,0.645397,0.742301,0.64275,0.460906,0.870377,0.659317,0.701121,0.346208,0.440192,0.955862,0.926393,0.734239,0.98129,0.847689,0.355033,0.447369,0.930991,0.400412,0.952806,0.264389,0.908911,0.57261,0.771573,0.99721,0.982169,0.824348,0.949475,0.834705,0.578808,0.792119,0.976292,0.911456,0.87551,0.804554,0.976158,0.640397,0.948247,0.626004,0.905875,0.964788,0.936913,0.980124,0.728899,0.885174,0.337216,0.595405,0.988217,0.932992,0.998476,0.531015,0.81506,0.935795,0.89138,0.661607,0.662789,0.624743,0.797593,0.558535,0.662521,0.873834,0.936571,0.499655,0.983247,0.994663,0.983973,0.234198,0.868787,0.728501,0.72417,0.726927,0.370019,0.390673,0.462014,0.753196,0.897052,0.588198,0.744076,0.550805,0.521104,0.542732,0.467286,0.912654,0.13533,0.841353,0.5781,0.938293,0.831465,0.638995,0.572771,0.992504,0.825052,0.738596,0.482985,0.852275,0.525448,0.968075,0.940989,0.932053,0.652338,0.77533,0.983089,0.911148,0.992072,0.732615,0.69348,0.79828,0.598703,0.888686,0.891456,0.920832,0.147428,0.55846,0.855178,0.380447,0.739435,0.483192,0.86223,0.829148,0.757935,0.975385,0.853382,0.985683,0.765601,0.426681,0.618948,0.230651,0.333245,0.965446,0.702481,0.978169,0.940647,0.654741
|tfbs_overrepresentation_for_novel_motifs=0.0302383,0.00298565,0.0049439,0.752726,0.598333,0.46218,0.0408393,0.058554,0.11087,0.000138968,0.0176018,0.768132,0.00280507,0.148809,0.236469,0.286994,0.129211,1.04759,0.12562,0.00353193,0.333311,0.0443052,0.233996,0.57757,0.26053,0.0615595,0.123458,0.0211122,0.0558456,0.0506176,0.176324,0.148708,0.00382996,0.179012,0.00147004,0.0508219,0.00138549,0.0232074,0.12963,0.00530766,0.458221,0.0120901,0.103009,5.10319,0.00456963,0.00735048,0.0411414,0.0733745,0.423421,0.0172342,0.0666484,0.0444934,0.0680575,0.193284,0.295445,0.0385102,0.419676,0.124639,0.0245949,0.0301237,0.171852,0.16175,0.111658,0.115379,0.0470171,0.32677,1.69077,0.671368,0.143078,0.529031,0.0521234,0.666287,0.000179647,0.294007,4.77662e-05,0.0017112,0.0580083,0.107313,0.436055,0.0423532,0.135081,0.114858,2.04885,0.322041,0.257877,1.23583e-06,3.09971,0.580303,0.264507,0.761697,0.435137,0.239613,0.477797,1.41914,0.00269533,0.963037,0.444493,0.18274,0.0783772,0.00551553,1.61099,0.469946,0.179416,0.131096,0.312963,0.0168743,0.123045,0.611774,0.0448541,0.00204614,0.201617,1.00985,0.0794957,0.0191806,0.396646,0.285526,9.12672e-07,0.0665138,0.0982022,1.1539,0.288078,0.942132,0.738184,0.419696,0.486804,0.10767,0.98919,0.16084,0.319028,0.122149,1.25272,0.179808,0.329708,0.413749,0.445632,0.282999,0.335983,0.021216,0.411319,1.19365,0.810106,0.381801,2.43312,0.533264,0.649869,0.118185,0.615227,1.0399,0.308836,0.0164574,0.0832871,3.91744e-08,0.240328,0.0986254,0.0416665,0.555316,1.35518,0.109122,0.696902,0.00619065,0.380851,1.2072,0.434992,0.034753,1.66381,0.176924,0.0374762,0.0404722,4.87637e-06
}}
}}

Revision as of 13:53, 26 November 2012


Full id: C236_CD14_Neutrophils_Monocytederived_renal_Eosinophils_testis_mesothelioma



Phase1 CAGE Peaks

Hg19::chr10:121154492..121154507,-p@chr10:121154492..121154507
-
Hg19::chr11:35228220..35228226,+p@chr11:35228220..35228226
+
Hg19::chr11:60183051..60183054,+p7@MS4A14
Hg19::chr11:9207433..9207444,-p@chr11:9207433..9207444
-
Hg19::chr11:9207504..9207519,-p@chr11:9207504..9207519
-
Hg19::chr11:9207544..9207563,-p@chr11:9207544..9207563
-
Hg19::chr11:9224733..9224747,-p@chr11:9224733..9224747
-
Hg19::chr12:90028637..90028650,-p@chr12:90028637..90028650
-
Hg19::chr14:35270349..35270367,-p@chr14:35270349..35270367
-
Hg19::chr14:35270378..35270401,-p@chr14:35270378..35270401
-
Hg19::chr15:39673743..39673750,-p@chr15:39673743..39673750
-
Hg19::chr15:45753568..45753592,+p@chr15:45753568..45753592
+
Hg19::chr15:45753821..45753832,+p@chr15:45753821..45753832
+
Hg19::chr15:45754126..45754155,+p@chr15:45754126..45754155
+
Hg19::chr15:45755889..45755934,+p@chr15:45755889..45755934
+
Hg19::chr16:55851797..55851809,-p@chr16:55851797..55851809
-
Hg19::chr17:49098687..49098705,-p@chr17:49098687..49098705
-
Hg19::chr17:72607351..72607373,-p@chr17:72607351..72607373
-
Hg19::chr17:76537739..76537756,-p@chr17:76537739..76537756
-
Hg19::chr18:61656025..61656039,+p@chr18:61656025..61656039
+
Hg19::chr18:61656066..61656085,+p@chr18:61656066..61656085
+
Hg19::chr19:52302728..52302742,-p@chr19:52302728..52302742
-
Hg19::chr19:54778385..54778415,-p@chr19:54778385..54778415
-
Hg19::chr19:55401699..55401714,+p@chr19:55401699..55401714
+
Hg19::chr1:157094541..157094547,-p@chr1:157094541..157094547
-
Hg19::chr1:160673803..160673806,-p@chr1:160673803..160673806
-
Hg19::chr20:30680206..30680216,+p@chr20:30680206..30680216
+
Hg19::chr21:37741568..37741572,+p2@MORC3
Hg19::chr21:45578064..45578104,-p@chr21:45578064..45578104
-
Hg19::chr2:143689349..143689367,+p@chr2:143689349..143689367
+
Hg19::chr2:143690337..143690349,+p@chr2:143690337..143690349
+
Hg19::chr2:143691180..143691192,+p@chr2:143691180..143691192
+
Hg19::chr2:143691203..143691217,+p@chr2:143691203..143691217
+
Hg19::chr2:143693415..143693427,+p@chr2:143693415..143693427
+
Hg19::chr2:143693429..143693450,+p@chr2:143693429..143693450
+
Hg19::chr2:143719228..143719232,+p@chr2:143719228..143719232
+
Hg19::chr3:10266052..10266067,+p@chr3:10266052..10266067
+
Hg19::chr3:10266146..10266158,+p@chr3:10266146..10266158
+
Hg19::chr3:10266234..10266276,+p@chr3:10266234..10266276
+
Hg19::chr3:10266288..10266301,+p@chr3:10266288..10266301
+
Hg19::chr3:170079070..170079087,+p@chr3:170079070..170079087
+
Hg19::chr3:170108089..170108122,+p@chr3:170108089..170108122
+
Hg19::chr3:170108158..170108171,+p@chr3:170108158..170108171
+
Hg19::chr3:33868462..33868472,+p@chr3:33868462..33868472
+
Hg19::chr3:39188734..39188759,+p@chr3:39188734..39188759
+
Hg19::chr3:72147410..72147424,-p@chr3:72147410..72147424
-
Hg19::chr3:72428522..72428552,-p2@RYBP
Hg19::chr4:122600725..122600738,-p@chr4:122600725..122600738
-
Hg19::chr4:122600766..122600777,-p@chr4:122600766..122600777
-
Hg19::chr4:139135048..139135078,-p@chr4:139135048..139135078
-
Hg19::chr4:139135635..139135651,-p@chr4:139135635..139135651
-
Hg19::chr4:139140415..139140423,-p@chr4:139140415..139140423
-
Hg19::chr4:169307206..169307214,-p@chr4:169307206..169307214
-
Hg19::chr5:150472940..150472943,+p@chr5:150472940..150472943
+
Hg19::chr6:116736718..116736735,+p@chr6:116736718..116736735
+
Hg19::chr6:2895616..2895628,-p@chr6:2895616..2895628
-
Hg19::chr7:154997905..154997916,-p@chr7:154997905..154997916
-
Hg19::chr8:134926792..134926802,-p@chr8:134926792..134926802
-
Hg19::chr8:79754868..79754882,+p@chr8:79754868..79754882
+


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

No GOStat results

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
classical monocyte2.89e-13642
CD14-positive, CD16-negative classical monocyte2.89e-13642
defensive cell1.75e-11848
phagocyte1.75e-11848
monopoietic cell1.40e-9359
monocyte1.40e-9359
monoblast1.40e-9359
promonocyte1.40e-9359
macrophage dendritic cell progenitor2.30e-9061
myeloid lineage restricted progenitor cell3.62e-8366
granulocyte monocyte progenitor cell7.43e-8267
myeloid leukocyte1.08e-8072
stuff accumulating cell1.22e-6287
nongranular leukocyte9.56e-55115
myeloid cell5.38e-52108
common myeloid progenitor5.38e-52108
leukocyte3.18e-48136
hematopoietic lineage restricted progenitor cell3.54e-46120
hematopoietic stem cell6.90e-38168
angioblastic mesenchymal cell6.90e-38168
hematopoietic cell1.20e-35177
hematopoietic oligopotent progenitor cell3.87e-35161
hematopoietic multipotent progenitor cell3.87e-35161
mesenchymal cell1.33e-14354
connective tissue cell3.44e-14361
motile cell9.76e-13386
multi fate stem cell5.87e-11427
somatic stem cell1.03e-10433
stem cell2.15e-10441
single nucleate cell9.26e-083
mononuclear cell9.26e-083
Uber Anatomy
Ontology termp-valuen
bone marrow1.42e-7176
bone element5.88e-6682
hematopoietic system1.81e-6198
blood island1.81e-6198
skeletal element1.28e-5990
immune system1.62e-5793
hemolymphoid system2.96e-55108
skeletal system4.20e-53100
musculoskeletal system1.99e-29167
lateral plate mesoderm1.48e-26203
mesoderm8.03e-15315
mesoderm-derived structure8.03e-15315
presumptive mesoderm8.03e-15315
connective tissue1.26e-13371


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)

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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

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