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Difference between revisions of "Coexpression cluster:C762"

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|ontology_enrichment_disease=DOID:0060058!3.84e-07!10
 
|ontology_enrichment_disease=DOID:0060058!3.84e-07!10
 
|ontology_enrichment_uberon=UBERON:0002390!8.39e-24!102;UBERON:0003061!8.39e-24!102;UBERON:0002193!7.79e-22!112;UBERON:0000178!4.57e-12!15;UBERON:0000179!4.57e-12!15;UBERON:0000463!4.57e-12!15;UBERON:0002371!6.57e-12!80;UBERON:0002405!1.21e-10!115;UBERON:0001474!6.56e-10!86;UBERON:0004765!2.61e-07!101;UBERON:0001434!2.61e-07!101
 
|ontology_enrichment_uberon=UBERON:0002390!8.39e-24!102;UBERON:0003061!8.39e-24!102;UBERON:0002193!7.79e-22!112;UBERON:0000178!4.57e-12!15;UBERON:0000179!4.57e-12!15;UBERON:0000463!4.57e-12!15;UBERON:0002371!6.57e-12!80;UBERON:0002405!1.21e-10!115;UBERON:0001474!6.56e-10!86;UBERON:0004765!2.61e-07!101;UBERON:0001434!2.61e-07!101
 +
|tfbs_overrepresentation=0.00034939,0.0212258,0.678769,0.000839907,2.37057e-05,6.48191e-06,0.148866,0.00410631,0.114834,0.0910695,5.91013e-17,0.607941,0.535635,0.389645,0.00316838,0.208873,0.427193,0.000636104,0.18053,0.00900123,0.0427233,0.406374,0.000314067,2.42679e-06,0.144176,0.0129654,0.213463,0.294404,0.0201662,3.70898e-05,0.568706,0.358533,0.0645414,1.47215e-10,0.22308,0.27646,0.424317,0.000617123,0.375114,0.0271096,0.310651,0.0873213,0.424883,0.00103797,0.376586,1.2553e-05,0.132477,0.167851,0.0704946,0.377325,0.0244706,0.184735,0.000170573,0.0506323,0.0492566,0.133797,0.0661185,0.583934,0.258483,0.00084322,0.103745,3.65612e-05,0.0674176,6.39884e-07,0.185966,0.17301,1.28503e-07,0.203008,0.281086,4.12117e-08,0.000461957,0.226592,0.0466942,0.000124655,0.0271401,0.061346,4.36378e-05,0.151104,0.129938,0.0263365,0.308268,0.243526,0.14721,0.360655,0.000339808,0.0231529,0.216394,1.01637e-11,0.00893448,0.00187284,0.280176,0.170129,0.307577,0.163018,0.279113,0.000103811,0.831875,0.457518,0.300148,0.328225,0.195136,0.00737034,0.42937,0.00874911,0.596161,0.142067,0.0022662,0.0191942,0.0203511,0.00121476,0.522549,0.119112,0.00324039,0.00204924,0.323822,0.118294,0.0725753,0.192532,0.422384,0.0417313,4.04378e-08,0.587795,0.425091,0.0435595,2.14412e-07,0.00615626,1.84974e-06,0.0531813,0.276136,9.85806e-08,0.201666,0.248139,0.194292,0.0810426,0.00166394,0.00901152,0.218,0.188384,0.115907,0.0144263,0.0810077,0.393804,0.000233202,0.000463416,0.120557,0.231566,0.317183,0.275751,1.66897e-05,0.0818921,0.00158055,0.0201387,1.05709e-06,0.0940631,0.147891,0.367785,0.247914,0.0029579,0.176866,0.00030197,0.244933,0.00627949,0.365399,0.44366,0.690084,0.00114743,0.139123,0.393199,0.140181,0.746324,0.0374143,0.41919,0.00249802,0.0181951,0.263218,8.72944e-08,0.425607,0.000117801,0.5136,0.124572,0.469669,0.00150044,0.0968728,0.36258,0.244826,0.0117997,0.0070047,0.0102312,0.0408317,0.502906,0.00878614,0.00764395,0.0844894,0.000462273,0.0101398,3.53537e-05,0.00355875,0.203869,0.226506,0.346847,2.97602e-05,0.204217,0.108482,0.204856,0.416037,0.00545834,4.02688e-06,0.000406146,0.208257,0.513405,0.158153,0.332433,1.01655e-10,0.072377,0.0132626,0.492899,0.141238,0.323054,0.0243136,0.00784741,0.429507,0.818848,0.0038151,0.00430083,0.000208664,0.0891062,0.421968,0.2808,0.204388,0.202657,0.0140222,0.00989696,0.145054,0.0351361,0.309085,0.0508342,0.0139909,0.103518,0.0288534,0.060681,6.82708e-09,0.466585,0.0562207,0.272453,0.0763786,6.58e-09,0.267841,0.0709176,4.29096e-09,0.0772704,0.0267308,1.06567e-07,1.07952e-13,0.314975,0.0558945,0.134523,0.340283,0.00162743,0.232372,0.219719,0.208939,0.157827,0.480071,0.395051,0.120836,0.266546,0.266828,0.298221,0.369172,0.250169,0.697638,0.000113709,0.659808,1.51562e-09,0.044329,0.132574,0.0018993,0.0460942,0.0440693,6.91163e-06,0.0354388,1.01864e-10,0.452036,0.00925497,0.000919709,3.19754e-07,0.101962,0.000422561,0.000411531,0.156089,0.237993,0.184224,1.71817e-12,0.0614542,4.39528e-13,0.000294122,2.98727e-05,0.000346677,1.65546e-08,0.00304058,3.6948e-11,4.69589e-05,0.0418749,0.0862023,1.10581e-06,6.64245e-11,0.347693,0.770836,4.43632e-05,0.00124895,0.0318698,2.14321e-08,0.00604815,0.000584775,2.61834e-05,0.0929931,4.9966e-13,0.000937963,0.000127525,5.65232e-08,0.0448293,0.00342438,0.000105173,0.000402123,2.27116e-09,0.000217112,0.125658,0.0137032,0.0157577,0.00955775,1.18853e-08,4.3457e-08,4.23252e-05,0.7193,0.0109996,0.626288,5.17091e-13,0.000115269,0.00893794,0.16921,0.466447,0.443754,0.00076917,0.1164,0.00056203,0.529074,1.02608e-07,0.533484,0.0012597,0.000101559,0.472504,0.00166647,4.96675e-09,0.0220845,0.702563,0.0103107,5.71549e-06,0.224681,0.242937,0.0403929,0.000184914,0.000126654,9.32305e-09,0.000199307,2.39051e-12,4.46402e-07,5.24727e-07,0.000438748,0.229186,2.38191e-07,9.41506e-12,0.155695,0.0336359,6.21243e-05,0.536938,3.72997e-07,0.0459616,0.0100321,0.000203875,7.74664e-06,0.0384268,0.0164332,0.413014,0.697166,0.00384753,9.39545e-12,0.0712132,0.0187239,0.0484844,0.00383856,5.13814e-09,4.04246e-09,0.000212763,1.3736e-06,8.7979e-07,0.92699,6.65505e-08,0.436494,0.438255,0.000103387,0.00206814,0.0018404,0.00232171,0.288416,3.56847e-06,0.16043,0.000246082,0.000149046,0.0168363,0.0564179,2.09997e-09,9.87082e-07,0.0362471,5.26987e-06,0.388091,0.0025706,1.24537e-05,3.12599e-06,1.08628e-10,0.70717,2.39638e-10,2.64586e-11,0.000432456,0.0135179,7.53405e-06,5.92701e-05,6.57567e-12,0.000298762,0.0543893,0.141992,0.0176187,1.34144e-05,0.000194657,0.196075,0.175879,0.0080566,0.429088,0.652229,0.0563309,0.00415867,0.00365155,0.0300896,0.0747017,1.55712e-06,0.28989,0.201618,0.0591398,0.00126964,0.207465,0.0688725,0.211193,7.25936e-06,3.05842e-05,0.00534734,2.90239e-05,0.164945,0.232932,0.189479,1.82883e-05,0.257522,0.195392,0.112606,5.21484e-05,2.57204e-07,0.00654535,0.0658979,0.00126892,0.352901,8.42648e-07,0.150597,0.0456643,0.390925,0.412061,0.000884911,0.689846,0.211628,0.828128,0.0641185,0.1495,5.91188e-07,2.07653e-05,0.000777725,0.0319243,0.359958,0.062882,0.292218,0.282885,0.471945,0.339928,0.1516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}}
 
}}

Revision as of 11:47, 8 August 2012


Full id: C762_splenic_migratory_b_B_cord_CD14_mycosis



Phase1 CAGE Peaks

Hg19::chr17:38710881..38710891,-p@chr17:38710881..38710891
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Hg19::chr17:38710907..38710919,-p@chr17:38710907..38710919
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Hg19::chr17:38711015..38711026,-p@chr17:38711015..38711026
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Hg19::chr17:38711096..38711107,-p@chr17:38711096..38711107
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Hg19::chr17:38711280..38711293,-p@chr17:38711280..38711293
-
Hg19::chr17:38711427..38711449,-p@chr17:38711427..38711449
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Hg19::chr17:38711462..38711487,-p@chr17:38711462..38711487
-
Hg19::chr17:38711642..38711651,-p@chr17:38711642..38711651
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Hg19::chr17:38711909..38711920,-p@chr17:38711909..38711920
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Hg19::chr17:38721717..38721730,-p1@CCR7
Hg19::chr5:68728816..68728820,+p@chr5:68728816..68728820
+


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>disease_data<br>


Cell Type
Ontology termp-valuen
leukocyte1.49e-55140
hematopoietic stem cell3.58e-51172
angioblastic mesenchymal cell3.58e-51172
hematopoietic cell1.33e-49182
nongranular leukocyte1.84e-47119
hematopoietic oligopotent progenitor cell4.01e-47165
hematopoietic multipotent progenitor cell4.01e-47165
hematopoietic lineage restricted progenitor cell1.01e-45124
lymphocyte2.70e-3553
common lymphoid progenitor2.70e-3553
lymphoid lineage restricted progenitor cell1.32e-3452
T cell7.43e-1825
pro-T cell7.43e-1825
myeloid cell4.57e-16112
common myeloid progenitor4.57e-16112
lymphocyte of B lineage8.22e-1624
pro-B cell8.22e-1624
myeloid leukocyte3.65e-1576
CD14-positive, CD16-negative classical monocyte1.66e-1442
classical monocyte4.64e-1445
macrophage dendritic cell progenitor6.52e-1465
mature alpha-beta T cell7.77e-1418
alpha-beta T cell7.77e-1418
immature T cell7.77e-1418
mature T cell7.77e-1418
immature alpha-beta T cell7.77e-1418
granulocyte monocyte progenitor cell2.66e-1371
myeloid lineage restricted progenitor cell3.65e-1370
monopoietic cell6.18e-1363
monocyte6.18e-1363
monoblast6.18e-1363
promonocyte6.18e-1363
CD8-positive, alpha-beta T cell1.28e-0911
B cell2.48e-0914
dendritic cell5.43e-0810
mesenchymal cell1.24e-07358
connective tissue cell2.68e-07365
conventional dendritic cell3.32e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.39e-24102
blood island8.39e-24102
hemolymphoid system7.79e-22112
blood4.57e-1215
haemolymphatic fluid4.57e-1215
organism substance4.57e-1215
bone marrow6.57e-1280
immune system1.21e-10115
bone element6.56e-1086
skeletal element2.61e-07101
skeletal system2.61e-07101
Disease
Ontology termp-valuen
lymphoma3.84e-0710


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


This analysis result is provided for C0 - C305 clusters.