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Coexpression cluster:C273: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002390!1.18e-41!98;UBERON:0003061!1.18e-41!98;UBERON:0002371!2.17e-38!76;UBERON:0002193!8.81e-37!108;UBERON:0001474!1.00e-36!82;UBERON:0002405!1.35e-33!93;UBERON:0004765!1.13e-31!90;UBERON:0001434!1.09e-27!100;UBERON:0003081!2.15e-14!203;UBERON:0007023!6.01e-12!114;UBERON:0002204!5.60e-10!167;UBERON:0002384!2.57e-07!371;UBERON:0001049!4.38e-07!56;UBERON:0005068!4.38e-07!56;UBERON:0006241!4.38e-07!56;UBERON:0007135!4.38e-07!56
|ontology_enrichment_uberon=UBERON:0002390!1.18e-41!98;UBERON:0003061!1.18e-41!98;UBERON:0002371!2.17e-38!76;UBERON:0002193!8.81e-37!108;UBERON:0001474!1.00e-36!82;UBERON:0002405!1.35e-33!93;UBERON:0004765!1.13e-31!90;UBERON:0001434!1.09e-27!100;UBERON:0003081!2.15e-14!203;UBERON:0007023!6.01e-12!114;UBERON:0002204!5.60e-10!167;UBERON:0002384!2.57e-07!371;UBERON:0001049!4.38e-07!56;UBERON:0005068!4.38e-07!56;UBERON:0006241!4.38e-07!56;UBERON:0007135!4.38e-07!56
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79424,0.467884,0.618444,0.998091,0.870862,0.538904,0.838953,0.991329,0.365323,0.999996,0.913388,0.462462,0.76158,0.588,0.229079,0.942982,0.978373,0.963199,0.88935,0.99961,0.924495,0.995005,0.710745,0.948504,0.737717,0.957606,0.998327,0.457153,0.2191,0.943169,0.906914,0.428572,0.996984,0.995019,0.531953,0.79024,0.999903,0.892883,0.71712,0.836594,0.634559,0.647363,0.999998,0.821753,0.565663,0.80606,0.552553,0.632082,0.707729,0.785732,0.912603,0.418568,0.701064,0.993801,0.999999,0.984958,0.737158,0.995254,0.863135,0.847294,0.953591,0.999996,0.605032,0.534162,1.09289e-24,0.626145,0.951193,0.809516,0.686268,0.981137,0.785554,0.433133,0.877891,0.803171,1,1,0.159038,0.978854,0.535794,0.664568,0.538254,0.547882,0.793728,0.97291,0.708069,0.519096,0.839505,0.316167,0.90966,0.92648,0.45224,0.892366,0.513931,0.580328,0.566409,0.783137,0.795564,0.823954,0.98027,0.602377,0.40675,0.710056,0.994991,0.924973,0.966532,0.978887,0.813373,0.997982,0.571309,0.890332,0.923891,0.637242,0.425649,0.91953,0.999983,0.929615,0.689266,0.779155,0.62218,0.912969,0.72435,0.79914,0.928576,0.789325,0.965683,0.407223,0.982699,0.989302,0.995125,0.862683,0.746566,0.986688,0.847587,0.558364,0.833489,0.802276,0.79011,0.524452,0.824974,0.685546,0.807323,0.990595,0.819966,0.847381,0.333411,0.943852,0.774379,0.983906,0.942847,0.414184,0.735524,0.829304,0.930188,0.997135,0.999987,0.614917,0.988336,0.953963,0.897368,0.9837,0.999724,0.999966,0.437737,0.997739,0.889359,0.501482,0.894287,0.999793,0.974919,0.955443,0.962913,0.917108,0.993968,0.888584,0.847803,0.998388,0.995229,0.858372,0.801767,0.999113,0.997384,0.0801997,0.992804,0.960207,0.976616,1,0.785114,0.998151,0.994609,0.981226,0.720333,1,1,0.911016,0.996512,0.9998,0.946577,0.768018,0.998798,0.998537,0.99995,0.901568,0.532928,0.996552,0.89977,0.99923,0.99101,0.619459,0.999453,0.990718,0.994978,0.987341,1,0.996294,0.999546,0.997124,0.521288,0.999996,0.998812,0.956105,1,0.976885,1,0.990845,1,0.999999,1,0.971647,0.143124,0.874859,0.0590848,0.68152,0.992054,0.903002,0.144068,0.496289,0.0942349,0.997725,0.469798,0.703324,0.529954,0.769447,0.983535,0.865574,0.994695,0.999767,0.840976,0.956549,0.965694,0.999996,0.99915,0.999732,0.988375,0.983981,0.999176,0.988685,0.92214,0.500711,0.999258,1,0.956067,0.903428,0.990289,0.736743,0.999363,0.999991,0.997525,0.873376,0.999167,0.903897,0.999544,0.94278,0.670463,0.74438,0.982052,0.997772,0.951082,0.876848,0.739124,0.892411,0.997553,0.924607,0.992333,0.999576,0.99915,0.923118,0.971684,0.0683271,0.936147,0.999032,0.905705,0.39205,0.999898,0.996721,0.929409,0.994262,0.823808,0.500165,0.981905,0.995902,0.671736,0.940244,0.63165,0.986098,0.984973,0.900593,0.927186,0.000882574,0.646694,0.965927,0.949856,0.825348,0.963286,0.764777,0.945697,0.934168,0.685608,0.559689,0.578381,0.566509,0.999502,0.939535,0.969755,0.888378,0.968349,0.990657,0.879776,0.876592,0.99727,0.807789,0.988478,0.972738,0.191545,0.719339,0.881812,0.972677,0.415671,0.962922,0.94786,0.837432,0.689421,0.991942,0.937931,0.963898,0.938496,0.979371,0.706636,0.435051,0.208961,0.54148,0.666518,0.864091,0.839757,0.973854,0.900612,0.814995,0.965648,0.748523,0.754848,0.638143,0.97991,0.897009,0.968846,0.96082,0.872803,0.140475,0.404957,0.784469,0.613909,0.955263,0.910677,0.580087,0.753722,0.645899,0.497611,0.988399,0.980544,0.664481,0.974336,0.862727,0.847443,0.44772,0.983145,0.764042,0.58075,0.944731,0.45936,0.657461,0.568243,0.518288,0.542411,0.970617,0.667575,0.928458,0.865502,0.223791,0.834478,0.617902,0.528768,0.933009,0.979737,0.660753,0.157201,0.948563,0.926759,0.955872,0.75662,0.990535,0.471394,0.978391,0.874144,0.958901,0.959697,0.328764,0.502706,0.950428,0.971848,0.726048,0.494235,0.909004,0.432883,0.93831,0.855024,0.759629,0.935086,0.5715,0.969934,0.905483,0.450247,0.264896,0.745057,0.645728,0.68288,0.754309,0.948155,0.952539,0.797573,0.686091,0.832242,0.964841,0.34299,0.739319,0.970882,0.829393,0.578175,0.579349,0.473245,0.719887,0.47866,0.579083,0.852351,0.853027,0.717837,0.410249,0.984527,0.840521,0.38316,0.801678,0.646056,0.603866,0.276751,0.250976,0.65876,0.35272,0.884562,0.272357,0.506761,0.295724,0.432356,0.443741,0.896846,0.290158,0.91122,0.968363,0.962272,0.908775,0.855969,0.840727,0.863898,0.768236,0.804066,0.942801,0.953322,0.7653,0.707439,0.38091,0.517048,0.158448,0.862094,0.994994,0.923693,0.984891,0.854623,0.978794,0.981121,0.853233,0.659866,0.644678,0.96534,0.76409,0.827104,0.940292,0.562279,0.785458,0.867266,0.909045,0.705877,0.793822,0.41078,0.846099,0.565736,0.753157,0.992972,0.685153,0.870502,0.496889,0.753548,0.951761,0.501653,0.977775,0.83366,0.973028,0.919631
|tfbs_overrepresentation_for_novel_motifs=0.0134386,3.56743e-05,0.0124057,1.04632,0.931569,0.165426,0.0688204,0.142459,0.244529,0.000155149,0.034587,0.0865239,0.144803,0.0644821,0.0390713,0.0496732,0.179905,0.447649,0.171203,0.00810974,0.541094,0.00389357,0.0407182,0.108024,0.689403,0.31968,0.00739949,0.156373,0.00785733,0.0159416,0.120688,0.202712,0.0126598,0.14941,0.0808805,0.000708362,0.00447698,0.0433158,0.0187625,0.0515339,0.176124,0.108131,0.223234,0.0072773,0.00739999,0.0170686,0.0692392,0.0318343,0.773567,0.00787016,0.103211,0.546275,0.299338,0.253654,0.366286,0.0655743,0.120904,0.199019,0.00496939,0.198004,0.229344,0.246401,0.0674425,0.163473,0.0772948,0.143999,0.436932,0.759916,0.196165,0.61311,0.0227594,0.266654,0.000265327,0.364729,0.000305074,0.00183403,0.0906302,0.153778,28.2276,0.0185985,0.00417511,0.489737,0.0771509,0.00773328,0.325376,0.000180133,84.9074,0.00438065,0.115837,0.852295,0.515064,0.305295,0.213484,0.364229,0.0399634,1.47448,0.01469,0.241732,0.376644,0.0249589,0.140175,0.209836,0.237959,1.6256,0.137727,0.0334213,0.172608,0.226387,0.0873895,0.0061155,0.173917,1.23767,0.0116696,0.0370886,0.474484,0.170788,0.000135652,0.0288997,0.142715,0.116277,0.358301,0.741245,0.0421638,0.27922,0.569162,0.154209,0.235649,0.216727,0.391733,0.0565723,3.15422,0.0298573,0.403205,0.275348,0.526085,5.84663,0.0277966,0.156882,0.489984,1.28951,0.901617,0.458761,0.0670595,0.239344,0.138676,0.190574,0.129791,1.13449,0.105656,0.0134676,0.0259932,1.0613e-06,0.306085,0.00600713,0.0699661,0.640362,0.349799,64.1375,166.802,0.0148645,0.457752,0.292546,0.193642,0.0153625,0.451559,0.56138,0.0940537,0.0683107,5.7724e-09
}}
}}

Revision as of 14:00, 26 November 2012


Full id: C273_Neutrophils_CD14_Eosinophils_Monocytederived_CD4_Natural_Mast



Phase1 CAGE Peaks

Hg19::chr10:121154442..121154449,-p@chr10:121154442..121154449
-
Hg19::chr11:47377641..47377656,-p@chr11:47377641..47377656
-
Hg19::chr11:47377786..47377798,-p@chr11:47377786..47377798
-
Hg19::chr11:47378636..47378650,-p@chr11:47378636..47378650
-
Hg19::chr11:47379735..47379747,-p@chr11:47379735..47379747
-
Hg19::chr11:47379860..47379874,-p@chr11:47379860..47379874
-
Hg19::chr14:35871286..35871297,-p@chr14:35871286..35871297
-
Hg19::chr15:58447767..58447778,+p@chr15:58447767..58447778
+
Hg19::chr15:86212972..86212989,+p20@AKAP13
Hg19::chr16:31926161..31926175,+p@chr16:31926161..31926175
+
Hg19::chr17:21194520..21194548,+p7@MAP2K3
Hg19::chr19:47993823..47993862,-p@chr19:47993823..47993862
-
Hg19::chr1:183556727..183556731,-p@chr1:183556727..183556731
-
Hg19::chr1:27947499..27947502,-p@chr1:27947499..27947502
-
Hg19::chr1:27951156..27951162,-p@chr1:27951156..27951162
-
Hg19::chr1:27951294..27951312,-p@chr1:27951294..27951312
-
Hg19::chr1:27951368..27951397,-p@chr1:27951368..27951397
-
Hg19::chr1:27951398..27951454,-p@chr1:27951398..27951454
-
Hg19::chr1:27955714..27955719,-p@chr1:27955714..27955719
-
Hg19::chr1:33424609..33424645,-p@chr1:33424609..33424645
-
Hg19::chr1:89589346..89589358,-p@chr1:89589346..89589358
-
Hg19::chr20:48500628..48500646,+p@chr20:48500628..48500646
+
Hg19::chr22:35738610..35738623,+p@chr22:35738610..35738623
+
Hg19::chr22:35738627..35738686,+p@chr22:35738627..35738686
+
Hg19::chr22:35738688..35738740,+p@chr22:35738688..35738740
+
Hg19::chr22:35738813..35738828,+p@chr22:35738813..35738828
+
Hg19::chr22:35738894..35738925,+p@chr22:35738894..35738925
+
Hg19::chr22:35738945..35738954,+p@chr22:35738945..35738954
+
Hg19::chr22:35738968..35738980,+p@chr22:35738968..35738980
+
Hg19::chr22:35739061..35739082,+p@chr22:35739061..35739082
+
Hg19::chr22:35739086..35739098,+p@chr22:35739086..35739098
+
Hg19::chr22:35739277..35739390,+p@chr22:35739277..35739390
+
Hg19::chr22:35739411..35739459,+p@chr22:35739411..35739459
+
Hg19::chr22:35739472..35739491,+p@chr22:35739472..35739491
+
Hg19::chr22:35739601..35739650,+p@chr22:35739601..35739650
+
Hg19::chr22:35739658..35739678,+p@chr22:35739658..35739678
+
Hg19::chr22:35739706..35739737,+p4@TOM1
Hg19::chr22:35739742..35739814,+p2@TOM1
Hg19::chr22:35739816..35739887,+p3@TOM1
Hg19::chr2:114700995..114701006,+p@chr2:114700995..114701006
+
Hg19::chr2:145240683..145240706,-p@chr2:145240683..145240706
-
Hg19::chr2:145246478..145246502,-p@chr2:145246478..145246502
-
Hg19::chr2:28619598..28619640,+p@chr2:28619598..28619640
+
Hg19::chr5:169716803..169716815,-p@chr5:169716803..169716815
-
Hg19::chr6:13316777..13316781,-p@chr6:13316777..13316781
-
Hg19::chr7:130586359..130586363,-p@chr7:130586359..130586363
-
Hg19::chr8:59473361..59473383,+p@chr8:59473361..59473383
+


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

GO IDGO nameFDR corrected p-value
GO:0004691cAMP-dependent protein kinase activity0.0302731887304975
GO:0004708MAP kinase kinase activity0.0302731887304975
GO:0004712protein serine/threonine/tyrosine kinase activity0.0302731887304975
GO:0004690cyclic nucleotide-dependent protein kinase activity0.0302731887304975
GO:0004674protein serine/threonine kinase activity0.0302731887304975



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
myeloid leukocyte5.81e-5372
defensive cell2.51e-5248
phagocyte2.51e-5248
classical monocyte4.13e-5242
CD14-positive, CD16-negative classical monocyte4.13e-5242
leukocyte5.29e-46136
granulocyte monocyte progenitor cell2.11e-4467
myeloid lineage restricted progenitor cell1.79e-4366
monopoietic cell1.88e-4159
monocyte1.88e-4159
monoblast1.88e-4159
promonocyte1.88e-4159
macrophage dendritic cell progenitor2.18e-4161
myeloid cell7.55e-38108
common myeloid progenitor7.55e-38108
hematopoietic stem cell4.99e-37168
angioblastic mesenchymal cell4.99e-37168
hematopoietic lineage restricted progenitor cell1.20e-36120
nongranular leukocyte4.57e-36115
hematopoietic oligopotent progenitor cell5.14e-36161
hematopoietic multipotent progenitor cell5.14e-36161
hematopoietic cell1.20e-33177
stuff accumulating cell5.62e-2187
intermediate monocyte5.14e-119
CD14-positive, CD16-positive monocyte5.14e-119
granulocyte1.56e-088
mesenchymal cell2.05e-08354
connective tissue cell8.55e-08361
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.18e-4198
blood island1.18e-4198
bone marrow2.17e-3876
hemolymphoid system8.81e-37108
bone element1.00e-3682
immune system1.35e-3393
skeletal element1.13e-3190
skeletal system1.09e-27100
lateral plate mesoderm2.15e-14203
adult organism6.01e-12114
musculoskeletal system5.60e-10167
connective tissue2.57e-07371
neural tube4.38e-0756
neural rod4.38e-0756
future spinal cord4.38e-0756
neural keel4.38e-0756


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)

{{{tfbs_overrepresentation_jaspar}}}



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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