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Coexpression cluster:C719: Difference between revisions

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|full_id=C719_Neutrophils_CD14CD16_CD14_blood_Eosinophils_Peripheral_Monocytederived
|full_id=C719_Neutrophils_CD14CD16_CD14_blood_Eosinophils_Peripheral_Monocytederived
|id=C719
|id=C719
|ontology_enrichment_celltype=CL:0000738!7.51e-52!140;CL:0000037!1.90e-45!172;CL:0000566!1.90e-45!172;CL:0002032!2.17e-43!165;CL:0000837!2.17e-43!165;CL:0000988!6.17e-41!182;CL:0002087!9.13e-41!119;CL:0002031!2.35e-40!124;CL:0000766!3.41e-39!76;CL:0000557!4.79e-35!71;CL:0000763!2.07e-33!112;CL:0000049!2.07e-33!112;CL:0002009!6.90e-33!65;CL:0002194!1.03e-31!63;CL:0000576!1.03e-31!63;CL:0000040!1.03e-31!63;CL:0000559!1.03e-31!63;CL:0000839!2.99e-31!70;CL:0002057!2.20e-29!42;CL:0000860!3.93e-27!45;CL:0000134!1.92e-10!358;CL:0002320!1.23e-09!365;CL:0000838!2.92e-09!52;CL:0000542!3.62e-09!53;CL:0000051!3.62e-09!53;CL:0002393!5.41e-08!9;CL:0002397!5.41e-08!9;CL:0000219!3.22e-07!390;CL:0000094!4.06e-07!8
|ontology_enrichment_celltype=CL:0000860!5.47e-98!42;CL:0002057!5.47e-98!42;CL:0000473!5.81e-93!48;CL:0000234!5.81e-93!48;CL:0000766!3.62e-88!72;CL:0002009!8.47e-80!61;CL:0002194!3.95e-79!59;CL:0000576!3.95e-79!59;CL:0000040!3.95e-79!59;CL:0000559!3.95e-79!59;CL:0000557!1.17e-71!67;CL:0000839!1.40e-69!66;CL:0000763!2.17e-59!108;CL:0000049!2.17e-59!108;CL:0000738!9.32e-53!136;CL:0000325!5.52e-46!87;CL:0002087!3.95e-45!115;CL:0000037!9.46e-42!168;CL:0000566!9.46e-42!168;CL:0000988!6.67e-39!177;CL:0002032!1.30e-38!161;CL:0000837!1.30e-38!161;CL:0002031!1.96e-38!120;CL:0002393!7.21e-26!9;CL:0002397!7.21e-26!9;CL:0000094!2.82e-17!8;CL:0000134!2.30e-12!354;CL:0000081!3.11e-12!11;CL:0002320!7.40e-12!361;CL:0000875!4.19e-10!3;CL:0002396!4.19e-10!3;CL:0000219!4.45e-10!386;CL:0000775!5.14e-10!3;CL:0000226!3.34e-09!3;CL:0000842!3.34e-09!3;CL:0000767!5.80e-09!3;CL:0000048!6.28e-08!427;CL:0000723!1.23e-07!433;CL:0000034!2.94e-07!441
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!4.63e-39!102;UBERON:0003061!4.63e-39!102;UBERON:0002193!1.93e-36!112;UBERON:0002371!8.35e-32!80;UBERON:0001474!1.38e-27!86;UBERON:0002405!3.88e-24!115;UBERON:0004765!5.75e-21!101;UBERON:0001434!5.75e-21!101;UBERON:0007023!4.56e-14!115;UBERON:0002384!1.42e-08!375;UBERON:0003081!1.61e-08!216
|ontology_enrichment_uberon=UBERON:0002390!8.82e-87!98;UBERON:0003061!8.82e-87!98;UBERON:0002193!2.23e-80!108;UBERON:0002371!7.92e-62!76;UBERON:0002405!9.97e-61!93;UBERON:0001474!1.84e-56!82;UBERON:0004765!2.07e-50!90;UBERON:0001434!3.38e-44!100;UBERON:0003081!6.26e-36!203;UBERON:0002204!9.36e-22!167;UBERON:0000178!4.26e-20!15;UBERON:0000179!4.26e-20!15;UBERON:0000463!4.26e-20!15;UBERON:0000926!7.76e-19!315;UBERON:0004120!7.76e-19!315;UBERON:0006603!7.76e-19!315;UBERON:0002384!3.63e-11!371
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9,0.199473,0.167908,0.0347543,0.816691,0.116017,0.792481,0.230791,0.137272,0.201882,0.321342,0.380631,0.344691,0.347781,0.670834,0.100939,0.335433,0.112945,0.135223,0.285057,0.187413,0.4347,0.657997,0.592319,0.181487,0.402629,0.840699,0.629279,0.710696,0.251974,0.50054,0.268916,0.522767,0.776021,0.117309,0.428369,0.488883,0.426313,0.289378,0.742922,0.710877,0.162791,0.0525549,0.173295,0.097199,0.255865,0.345558,0.396241,0.403546,0.422419,0.372971,0.17731,0.318785,0.171564,0.208652,0.250155,0.302707,0.434718,0.119189,0.246188,0.695697,0.957334,0.547797,0.226864,0.356157,0.079915,0.543363,0.0364402,0.556453,0.195403,0.163718,0.113633,0.205682,0.158166,0.145413,0.237617,0.067764,0.359497,0.124403,0.388692,0.506277,0.662182,0.972498,0.208518,0.59446,0.343085,0.225589,0.0675836,0.169548,0.0535536,0.570254,0.25036,0.157465,0.348305,0.234465,0.609431,0.457137,0.131401,0.40648,0.155356,0.183897,0.0105473,0.300739,0.500395,0.334046,0.600989,0.0201991,0.256465,0.251557,0.129219,0.454553,0.548455,0.228581,0.324886,0.42612,0.501626,0.783196,0.452722,0.211264,0.540994,0.445539,0.47537,0.462646,0.239328,0.297755,0.203718,0.112581,0.450432,0.313173,0.460799,0.495664,0.545801,0.102939,0.245675,0.0920533,0.130633,0.371665,0.274764,0.185244,0.356138,0.0720858,0.176004,0.505578,0.306067,0.675126,0.282697,0.426094,0.0576827,0.664512,0.330545,0.355935,0.0905574,0.490328,0.29423,0.626159,0.14539,0.535384,0.267489,0.52756,0.0254494,0.745994,0.488965,0.200162,0.647172,0.51347,0.22851,0.250798,0.571287,0.283439,0.126073,0.309325,0.40264,0.150341,0.408977,0.590091,0.503606,0.177833,0.57144,0.619107,0.327144,0.356608,0.505038,0.60388,0.373009,0.193611,0.553243,0.489388,0.0448977,0.827807,0.0436946,0.523367,0.61371,0.947982,0.111069,0.102921,0.721972,0.363021,0.509669,0.878604,0.979997,0.611154,0.747766,0.469213,0.267073,0.126673,0.258914,0.564079,0.951847,0.0383621,0.0291939,0.196124,0.353527,0.0980585,0.218123,0.777522,0.408502,0.66554,0.369012,0.640351,0.643714,0.274278,0.715858,0.607363,0.476008,0.748777,0.331146,0.71527,0.838364,0.511387,0.66352,0.424824,0.660325,0.566266,0.789151,0.565648,0.559768,0.000244701,0.1453,0.66279,0.149288,0.210203,0.104301,0.129307,0.108479,0.857261,0.309722,0.749482,0.0797331,0.481099,0.0166955,0.374787,0.706587,0.0350623,0.749471,0.00677304,0.343212,0.804101,0.277034,0.573259,0.497681,0.417126,0.201564,0.448957,0.136559,0.10808,0.509109,0.935356,0.536766,0.0662933,0.587468,0.586901,0.398068,0.715247,0.215104,0.568435,0.379508,0.422014,0.915758,0.488066,0.554368,0.273305,0.1653,0.0961598,0.506508,0.43695,0.511365,0.139935,0.8545,0.0276219,0.309307,0.111571,0.808854,0.627335,0.56578,0.689958,0.515389,0.174678,0.0768357,0.692997,0.717955,0.737831,0.636412,0.50749,0.388284,0.0458672,0.459127,0.534679,0.732839,0.653388,0.528848,0.189571,0.0473096,0.0648658,0.734275,0.552624,0.541372,0.399956,0.126565,0.389534,0.19207,0.125361,0.585772,0.032644,0.557778,0.326669,0.501476,0.329984,0.531205,0.907755,0.224938,0.781736,0.194139,0.667069,0.107882,0.063605,0.145435,0.729428,0.0808527,0.206772,0.509116,0.257235,0.33325,0.569392,0.118164,0.537498,0.0992571,0.534569,0.239417,0.311331,0.478226,0.540379,0.479343,0.230569,0.211138,0.292558,0.307527,0.486305,0.655454,0.0324365,0.0959661,0.573809,0.886204,0.515687,0.545693,0.599595,0.0670435,0.453128,0.744402,0.594113,0.555962,0.531493,0.382823,0.196882,0.114406,0.301747,0.384693,0.51672,0.610721,0.12008,0.27961,0.0948926,0.575463,0.647625,0.602291,0.225542,0.575661,0.679099,0.355997,0.114519,0.615425,0.138174,0.247091,0.148085,0.134057,0.22178,0.178456,0.157134,0.68261,0.562004,0.212024,0.46059,0.374709,0.316768,0.343584,0.201618,0.0615366,0.468824,0.232103,0.0468982,0.385114,0.100033,0.154454,0.166426,0.134832,0.664008,0.450676,0.592401,0.384353,0.526219,0.173921,0.240646,0.299728,0.30562,0.0526713,0.0599404,0.573867,0.10923,0.186324,0.650216,0.363633,0.606456,0.645073,0.501724,0.198477,0.424261,0.552902,0.635262,0.464149,0.402607,0.296953,0.603153,0.49975,0.509988,0.311923,0.563078,0.744036,0.340739,0.228392,0.269963,0.0514835,0.338919,0.182919,0.0179625,0.0231923,0.257575,0.141393,0.183331,0.756752,0.671299,0.581258,0.177756,0.623052,0.537287,0.267192,0.315214,0.215792,0.379171,0.214946,0.333105,0.00220152,0.252354,0.396678,0.345496,0.152456,0.224382,0.291235,0.128266,0.412357,0.567591,0.368106,0.351331,0.790463,0.429017,0.673635,0.295133,0.558985,0.611867,0.727272,0.657687,0.511893,0.705698,0.310473,0.404324,0.473851,0.208157,0.557233,0.71055,0.260286,0.422565,0.363221,0.594194,0.238174,0.0751831,0.548539,0.183016,0.342181,0.344927,0.022521,0.482941,0.0150507,0.302498,0.766699,0.608655,0.574325,0.30896,0.280668,0.0534139,0.498751,0.469676,0.686624,0.236983,0.685564,0.323272,0.602683,0.508119,0.466029,0.224186,0.289432,0.0541993,0.0262248
}}
}}

Revision as of 16:37, 19 October 2012


Full id: C719_Neutrophils_CD14CD16_CD14_blood_Eosinophils_Peripheral_Monocytederived



Phase1 CAGE Peaks

Hg19::chr10:134401859..134401869,-p@chr10:134401859..134401869
-
Hg19::chr12:12871211..12871230,-p@chr12:12871211..12871230
-
Hg19::chr15:86098670..86098685,+p26@AKAP13
Hg19::chr17:2303981..2304001,+p@chr17:2303981..2304001
+
Hg19::chr19:10961109..10961114,+p@chr19:10961109..10961114
+
Hg19::chr19:18508474..18508483,-p2@LRRC25
Hg19::chr1:145439323..145439355,+p10@TXNIP
Hg19::chr20:30671781..30671788,+p@chr20:30671781..30671788
+
Hg19::chr3:195627582..195627593,-p@chr3:195627582..195627593
-
Hg19::chr6:31583295..31583313,+p9@AIF1
Hg19::chr7:76825469..76825505,-p@chr7:76825469..76825505
-


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 monocyte5.47e-9842
CD14-positive, CD16-negative classical monocyte5.47e-9842
defensive cell5.81e-9348
phagocyte5.81e-9348
myeloid leukocyte3.62e-8872
macrophage dendritic cell progenitor8.47e-8061
monopoietic cell3.95e-7959
monocyte3.95e-7959
monoblast3.95e-7959
promonocyte3.95e-7959
granulocyte monocyte progenitor cell1.17e-7167
myeloid lineage restricted progenitor cell1.40e-6966
myeloid cell2.17e-59108
common myeloid progenitor2.17e-59108
leukocyte9.32e-53136
stuff accumulating cell5.52e-4687
nongranular leukocyte3.95e-45115
hematopoietic stem cell9.46e-42168
angioblastic mesenchymal cell9.46e-42168
hematopoietic cell6.67e-39177
hematopoietic oligopotent progenitor cell1.30e-38161
hematopoietic multipotent progenitor cell1.30e-38161
hematopoietic lineage restricted progenitor cell1.96e-38120
intermediate monocyte7.21e-269
CD14-positive, CD16-positive monocyte7.21e-269
granulocyte2.82e-178
mesenchymal cell2.30e-12354
blood cell3.11e-1211
connective tissue cell7.40e-12361
non-classical monocyte4.19e-103
CD14-low, CD16-positive monocyte4.19e-103
motile cell4.45e-10386
neutrophil5.14e-103
single nucleate cell3.34e-093
mononuclear cell3.34e-093
basophil5.80e-093
multi fate stem cell6.28e-08427
somatic stem cell1.23e-07433
stem cell2.94e-07441
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.82e-8798
blood island8.82e-8798
hemolymphoid system2.23e-80108
bone marrow7.92e-6276
immune system9.97e-6193
bone element1.84e-5682
skeletal element2.07e-5090
skeletal system3.38e-44100
lateral plate mesoderm6.26e-36203
musculoskeletal system9.36e-22167
blood4.26e-2015
haemolymphatic fluid4.26e-2015
organism substance4.26e-2015
mesoderm7.76e-19315
mesoderm-derived structure7.76e-19315
presumptive mesoderm7.76e-19315
connective tissue3.63e-11371


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.