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Coexpression cluster:C242: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0043303!mast cell degranulation!0.0426517274003166!7462$GO:0002448!mast cell mediated immunity!0.0426517274003166!7462$GO:0045576!mast cell activation!0.0426517274003166!7462$GO:0043299!leukocyte degranulation!0.0426517274003166!7462$GO:0002444!myeloid leukocyte mediated immunity!0.0426517274003166!7462$GO:0050853!B cell receptor signaling pathway!0.0426517274003166!7462$GO:0043285!biopolymer catabolic process!0.0426517274003166!255967;5657$GO:0042169!SH2 domain binding!0.0426517274003166!7462$GO:0030178!negative regulation of Wnt receptor signaling pathway!0.0426517274003166!56033$GO:0030574!collagen catabolic process!0.0426517274003166!5657$GO:0044259!multicellular organismal macromolecule metabolic process!0.0426517274003166!5657$GO:0044268!multicellular organismal protein metabolic process!0.0426517274003166!5657$GO:0044256!protein digestion!0.0426517274003166!5657$GO:0044254!multicellular organismal protein catabolic process!0.0426517274003166!5657$GO:0044266!multicellular organismal macromolecule catabolic process!0.0426517274003166!5657$GO:0000184!mRNA catabolic process, nonsense-mediated decay!0.0426517274003166!255967$GO:0044243!multicellular organismal catabolic process!0.0426517274003166!5657$GO:0032963!collagen metabolic process!0.0426517274003166!5657$GO:0044236!multicellular organismal metabolic process!0.0426517274003166!5657$GO:0005694!chromosome!0.0426517274003166!56033;9425$GO:0004468!lysine N-acetyltransferase activity!0.0426517274003166!9425$GO:0004402!histone acetyltransferase activity!0.0426517274003166!9425$GO:0030111!regulation of Wnt receptor signaling pathway!0.0426517274003166!56033$GO:0002274!myeloid leukocyte activation!0.0426517274003166!7462$GO:0050851!antigen receptor-mediated signaling pathway!0.0426517274003166!7462$GO:0006402!mRNA catabolic process!0.0426517274003166!255967$GO:0002429!immune response-activating cell surface receptor signaling pathway!0.0426517274003166!7462$GO:0002768!immune response-regulating cell surface receptor signaling pathway!0.0426517274003166!7462$GO:0002757!immune response-activating signal transduction!0.0426517274003166!7462$GO:0009057!macromolecule catabolic process!0.0426517274003166!255967;5657$GO:0002764!immune response-regulating signal transduction!0.0426517274003166!7462$GO:0030855!epithelial cell differentiation!0.0449074914160441!56033$GO:0019722!calcium-mediated signaling!0.0449074914160441!7462
|gostat_on_coexpression_clusters=GO:0043303!mast cell degranulation!0.0426517274003166!7462$GO:0002448!mast cell mediated immunity!0.0426517274003166!7462$GO:0045576!mast cell activation!0.0426517274003166!7462$GO:0043299!leukocyte degranulation!0.0426517274003166!7462$GO:0002444!myeloid leukocyte mediated immunity!0.0426517274003166!7462$GO:0050853!B cell receptor signaling pathway!0.0426517274003166!7462$GO:0043285!biopolymer catabolic process!0.0426517274003166!255967;5657$GO:0042169!SH2 domain binding!0.0426517274003166!7462$GO:0030178!negative regulation of Wnt receptor signaling pathway!0.0426517274003166!56033$GO:0030574!collagen catabolic process!0.0426517274003166!5657$GO:0044259!multicellular organismal macromolecule metabolic process!0.0426517274003166!5657$GO:0044268!multicellular organismal protein metabolic process!0.0426517274003166!5657$GO:0044256!protein digestion!0.0426517274003166!5657$GO:0044254!multicellular organismal protein catabolic process!0.0426517274003166!5657$GO:0044266!multicellular organismal macromolecule catabolic process!0.0426517274003166!5657$GO:0000184!mRNA catabolic process, nonsense-mediated decay!0.0426517274003166!255967$GO:0044243!multicellular organismal catabolic process!0.0426517274003166!5657$GO:0032963!collagen metabolic process!0.0426517274003166!5657$GO:0044236!multicellular organismal metabolic process!0.0426517274003166!5657$GO:0005694!chromosome!0.0426517274003166!56033;9425$GO:0004468!lysine N-acetyltransferase activity!0.0426517274003166!9425$GO:0004402!histone acetyltransferase activity!0.0426517274003166!9425$GO:0030111!regulation of Wnt receptor signaling pathway!0.0426517274003166!56033$GO:0002274!myeloid leukocyte activation!0.0426517274003166!7462$GO:0050851!antigen receptor-mediated signaling pathway!0.0426517274003166!7462$GO:0006402!mRNA catabolic process!0.0426517274003166!255967$GO:0002429!immune response-activating cell surface receptor signaling pathway!0.0426517274003166!7462$GO:0002768!immune response-regulating cell surface receptor signaling pathway!0.0426517274003166!7462$GO:0002757!immune response-activating signal transduction!0.0426517274003166!7462$GO:0009057!macromolecule catabolic process!0.0426517274003166!255967;5657$GO:0002764!immune response-regulating signal transduction!0.0426517274003166!7462$GO:0030855!epithelial cell differentiation!0.0449074914160441!56033$GO:0019722!calcium-mediated signaling!0.0449074914160441!7462
|id=C242
|id=C242
|ontology_enrichment_celltype=CL:0000763!1.34e-20!112;CL:0000049!1.34e-20!112;CL:0000037!7.56e-20!172;CL:0000566!7.56e-20!172;CL:0002032!4.19e-18!165;CL:0000837!4.19e-18!165;CL:0000988!5.57e-18!182;CL:0002009!5.75e-15!65;CL:0002194!1.24e-14!63;CL:0000576!1.24e-14!63;CL:0000040!1.24e-14!63;CL:0000559!1.24e-14!63;CL:0000557!1.58e-14!71;CL:0000839!1.18e-13!70;CL:0000766!1.60e-12!76;CL:0000738!4.25e-12!140;CL:0002087!1.85e-11!119;CL:0002057!2.10e-11!42;CL:0002031!2.35e-11!124;CL:0000860!2.82e-11!45
|ontology_enrichment_celltype=
|ontology_enrichment_disease=DOID:2531!6.25e-12!51;DOID:0060083!6.25e-12!51;DOID:1240!1.12e-11!39;DOID:8692!4.89e-10!31;DOID:0050686!6.94e-09!137
|ontology_enrichment_disease=DOID:8692!7.41e-08!31
|ontology_enrichment_uberon=UBERON:0004765!1.05e-16!101;UBERON:0001434!1.05e-16!101;UBERON:0001474!4.74e-13!86;UBERON:0002371!7.51e-13!80;UBERON:0002390!1.45e-11!102;UBERON:0003061!1.45e-11!102;UBERON:0002405!6.25e-09!115;UBERON:0002193!1.51e-08!112
|ontology_enrichment_uberon=
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66234,0.95778,0.990219,0.528438,0.682728,0.973366,0.912737,0.633491,0.639474,0.976747,0.41824,0.999767,0.945783,0.522706,0.81882,0.65234,0.945188,0.90926,0.98962,0.903508,0.487309,0.999101,0.993602,0.986758,0.771901,0.867688,0.797012,0.889694,0.981488,0.94937,0.941991,0.967183,0.314493,0.824327,0.992145,0.998195,0.595281,0.555025,0.995115,0.930163,0.777879,0.884491,0.726527,0.927975,0.968216,0.99982,0.629768,0.858335,0.248865,0.696193,0.769065,0.84047,0.786048,0.137302,0.762777,0.0450122,0.999931,0.999722,0.98967,0.998296,0.906481,0.981511,0.879916,0.999994,0.669396,0.597556,0.983069,0.690343,0.972626,0.990304,0.748722,0.991181,0.998375,0.491518,0.918366,0.972486,1,1,0.986654,0.943466,0.630363,0.727878,0.883405,0.611638,0.847538,0.986426,0.769385,0.582,0.886938,0.394348,0.991656,0.9554,0.511872,0.743216,0.576646,0.644613,0.896117,0.275057,0.685173,0.873767,0.990696,0.666747,0.993149,0.771254,0.950548,0.954309,0.982537,0.989914,0.864676,0.999385,0.971141,0.999583,0.953523,0.701263,0.981018,0.950333,0.999038,0.82377,0.75158,0.834618,0.686426,0.94547,0.952524,0.569797,0.956911,0.96934,0.982008,0.936397,0.953588,0.787489,0.998241,0.906112,0.805145,0.869103,0.893688,0.892576,0.978851,0.972287,0.554811,0.996733,0.901654,0.773468,0.859434,0.974755,0.870353,0.893517,0.383222,0.967652,0.830348,0.982739,0.966961,0.979807,0.794988,0.978015,0.958067,0.969836,0.99984,0.679231,0.995026,0.880817,0.989904,0.992589,0.999381,0.99721,0.496435,0.997039,0.927417,0.563695,0.931252,0.997467,0.754639,0.995533,0.965999,0.992656,0.996541,0.99858,0.85967,0.997956,0.995506,0.777122,0.601022,0.967135,0.999358,0.789146,0.991203,0.992386,0.979723,0.909948,0.952556,0.930151,0.744902,0.918453,0.984066,0.999936,1,0.952611,0.99937,0.999665,0.948945,0.94839,0.975834,0.999134,0.997973,0.998286,0.847159,0.996872,0.876471,0.999903,0.957651,0.98197,0.901215,0.654164,0.995241,0.994517,0.999449,0.98231,0.999327,0.997903,0.63859,0.985602,0.998774,0.999962,0.999062,0.992271,0.999135,0.981038,0.999981,0.999856,0.999999,0.418972,0.129903,0.428791,0.990283,0.647765,0.586361,0.98644,0.885679,0.824607,0.941807,0.12911,0.292772,0.992999,0.824644,0.964558,0.00462539,0.908463,0.746072,0.994191,0.920638,0.72072,0.86508,0.999518,0.999647,0.966708,0.999329,0.999297,0.999181,0.884475,0.996249,0.994447,0.983953,0.999994,0.998645,0.846363,0.785117,0.784185,0.942787,0.999993,0.996412,0.618891,0.999011,0.938632,0.999964,0.443538,0.588628,0.803141,0.836105,0.99957,0.873863,0.943037,0.974346,0.993849,0.988154,0.969712,0.998536,0.982273,0.466425,0.563902,0.254543,0.845346,0.998519,0.985343,0.815265,0.716526,0.999992,0.908097,0.964353,0.998335,0.998926,0.964441,0.998757,0.891475,0.563264,0.786006,0.993878,0.999155,0.990045,0.990376,0.999825,0.584848,0.906083,0.999888,0.998188,0.998945,0.999199,0.947237,0.999974,0.992156,0.960293,0.982024,0.971283,0.938262,0.979686,0.916154,0.965641,0.885043,0.588517,0.999528,0.980742,0.980552,0.998231,0.793139,0.999394,0.801649,0.973282,0.779953,0.997645,0.986287,0.472801,0.98027,0.486736,0.900299,0.751728,0.824474,0.963548,0.905253,0.844138,0.944821,0.931132,0.828292,0.846005,0.966331,0.995593,0.993107,0.995945,0.986988,0.995317,0.975054,0.764324,0.99053,0.848633,0.999592,0.992344,0.943263,0.983966,0.978931,0.103135,0.919005,0.461263,0.839349,0.915611,0.975323,0.952388,0.997755,0.497263,0.927457,0.987243,0.995059,0.99085,0.727794,0.931732,0.927795,0.655137,0.947109,0.992288,0.420177,0.992199,0.968255,0.519423,0.720995,0.632386,0.581164,0.980145,0.985046,0.997123,0.82115,0.908405,0.856186,0.631337,0.682192,0.940908,0.960078,0.990396,0.982649,0.915904,0.975828,0.991831,0.975723,0.835464,0.974591,0.952631,0.83403,0.706386,0.527121,0.337264,0.753763,0.996238,0.976898,0.925341,0.938431,0.93053,0.320529,0.762399,0.969791,0.89984,0.950153,0.896564,0.868929,0.984631,0.770737,0.775917,0.99411,0.392181,0.736975,0.99609,0.948372,0.970584,0.877372,0.850918,0.413141,0.968935,0.99788,0.989888,0.798488,0.985207,0.8784,0.642439,0.643625,0.809422,0.780465,0.539794,0.275651,0.974466,0.996532,0.988105,0.979375,0.958443,0.980224,0.794564,0.854513,0.350882,0.911684,0.708296,0.610632,0.722255,0.772492,0.727251,0.884435,0.569195,0.725712,0.826651,0.502836,0.287344,0.985992,0.98916,0.986668,0.996861,0.777782,0.977591,0.973857,0.91997,0.952976,0.895792,0.995736,0.974043,0.998025,0.99676,0.928452,0.961964,0.986587,0.918657,0.602982,0.993501,0.977119,0.89951,0.485151,0.510901,0.898365,0.575972,0.905172,0.737923,0.86703,0.903176,0.652079,0.949844,0.840227,0.937236,0.991571,0.808594,0.847621,0.813087,0.567015,0.970283,0.832543,0.99728,0.747657,0.838711,0.863021,0.690161,0.875496,0.958997,0.663647,0.99566,0.803247,0.967125
}}
}}

Revision as of 14:00, 19 October 2012


Full id: C242_acute_Chondrocyte_myelodysplastic_granulocyte_biphenotypic_Fibroblast_stomach



Phase1 CAGE Peaks

Hg19::chr10:11894144..11894162,+p@chr10:11894144..11894162
+
Hg19::chr10:134257886..134257894,+p5@C10orf91
Hg19::chr10:91731546..91731549,+p@chr10:91731546..91731549
+
Hg19::chr11:86133182..86133185,+p@chr11:86133182..86133185
+
Hg19::chr12:117102463..117102470,+p@chr12:117102463..117102470
+
Hg19::chr13:28620069..28620072,-p@chr13:28620069..28620072
-
Hg19::chr13:28813645..28813656,+p25@PAN3
Hg19::chr13:51484041..51484052,+p8@RNASEH2B
Hg19::chr15:99819658..99819672,+p@chr15:99819658..99819672
+
Hg19::chr16:61278581..61278587,-p@chr16:61278581..61278587
-
Hg19::chr16:85887504..85887515,+p@chr16:85887504..85887515
+
Hg19::chr16:85887549..85887557,+p@chr16:85887549..85887557
+
Hg19::chr17:37865499..37865505,+p@chr17:37865499..37865505
+
Hg19::chr17:37865552..37865557,+p@chr17:37865552..37865557
+
Hg19::chr17:67044013..67044015,+p@chr17:67044013..67044015
+
Hg19::chr17:80626054..80626077,-p@chr17:80626054..80626077
-
Hg19::chr18:74846147..74846167,-p@chr18:74846147..74846167
-
Hg19::chr19:843314..843331,+p4@PRTN3
Hg19::chr1:108093162..108093168,-p@chr1:108093162..108093168
-
Hg19::chr1:72566627..72566642,-p10@NEGR1
Hg19::chr1:91123303..91123309,+p1@ENST00000362796
Hg19::chr20:9491247..9491276,+p@chr20:9491247..9491276
+
Hg19::chr20:9491287..9491294,+p@chr20:9491287..9491294
+
Hg19::chr2:22534257..22534264,+p@chr2:22534257..22534264
+
Hg19::chr2:22534265..22534281,+p@chr2:22534265..22534281
+
Hg19::chr2:22534311..22534316,+p@chr2:22534311..22534316
+
Hg19::chr2:22534322..22534329,+p@chr2:22534322..22534329
+
Hg19::chr3:128578615..128578626,-p@chr3:128578615..128578626
-
Hg19::chr3:18020939..18020953,+p@chr3:18020939..18020953
+
Hg19::chr3:18020966..18020978,+p@chr3:18020966..18020978
+
Hg19::chr3:18020982..18021001,+p@chr3:18020982..18021001
+
Hg19::chr3:18021007..18021028,+p@chr3:18021007..18021028
+
Hg19::chr3:18110143..18110146,+p@chr3:18110143..18110146
+
Hg19::chr3:18178615..18178618,+p@chr3:18178615..18178618
+
Hg19::chr3:18344317..18344322,+p@chr3:18344317..18344322
+
Hg19::chr4:47432804..47432808,-p@chr4:47432804..47432808
-
Hg19::chr4:47443248..47443256,-p@chr4:47443248..47443256
-
Hg19::chr4:47445162..47445167,-p@chr4:47445162..47445167
-
Hg19::chr4:47445183..47445188,-p@chr4:47445183..47445188
-
Hg19::chr4:47445237..47445246,-p@chr4:47445237..47445246
-
Hg19::chr5:120617659..120617660,+p@chr5:120617659..120617660
+
Hg19::chr5:164566956..164566970,+p@chr5:164566956..164566970
+
Hg19::chr6:14657070..14657092,-p@chr6:14657070..14657092
-
Hg19::chr6:4890245..4890276,+p18@CDYL
Hg19::chr6:5034746..5034769,-p@chr6:5034746..5034769
-
Hg19::chr7:1548199..1548208,-p@chr7:1548199..1548208
-
Hg19::chr7:1548370..1548414,-p@chr7:1548370..1548414
-
Hg19::chr7:43150627..43150647,+p@chr7:43150627..43150647
+
Hg19::chr7:73634762..73634776,+p5@LAT2
Hg19::chr8:121737322..121737328,+p@chr8:121737322..121737328
+
Hg19::chr8:143591583..143591596,+p@chr8:143591583..143591596
+
Hg19::chr8:144488686..144488699,+p@chr8:144488686..144488699
+
Hg19::chr8:144488798..144488834,+p@chr8:144488798..144488834
+
Hg19::chr9:139927093..139927113,+p7@C9orf139
Hg19::chr9:214096..214121,+p@chr9:214096..214121
+
Hg19::chr9:96717629..96717644,-p1@BARX1


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:0043303mast cell degranulation0.0426517274003166
GO:0002448mast cell mediated immunity0.0426517274003166
GO:0045576mast cell activation0.0426517274003166
GO:0043299leukocyte degranulation0.0426517274003166
GO:0002444myeloid leukocyte mediated immunity0.0426517274003166
GO:0050853B cell receptor signaling pathway0.0426517274003166
GO:0043285biopolymer catabolic process0.0426517274003166
GO:0042169SH2 domain binding0.0426517274003166
GO:0030178negative regulation of Wnt receptor signaling pathway0.0426517274003166
GO:0030574collagen catabolic process0.0426517274003166
GO:0044259multicellular organismal macromolecule metabolic process0.0426517274003166
GO:0044268multicellular organismal protein metabolic process0.0426517274003166
GO:0044256protein digestion0.0426517274003166
GO:0044254multicellular organismal protein catabolic process0.0426517274003166
GO:0044266multicellular organismal macromolecule catabolic process0.0426517274003166
GO:0000184mRNA catabolic process, nonsense-mediated decay0.0426517274003166
GO:0044243multicellular organismal catabolic process0.0426517274003166
GO:0032963collagen metabolic process0.0426517274003166
GO:0044236multicellular organismal metabolic process0.0426517274003166
GO:0005694chromosome0.0426517274003166
GO:0004468lysine N-acetyltransferase activity0.0426517274003166
GO:0004402histone acetyltransferase activity0.0426517274003166
GO:0030111regulation of Wnt receptor signaling pathway0.0426517274003166
GO:0002274myeloid leukocyte activation0.0426517274003166
GO:0050851antigen receptor-mediated signaling pathway0.0426517274003166
GO:0006402mRNA catabolic process0.0426517274003166
GO:0002429immune response-activating cell surface receptor signaling pathway0.0426517274003166
GO:0002768immune response-regulating cell surface receptor signaling pathway0.0426517274003166
GO:0002757immune response-activating signal transduction0.0426517274003166
GO:0009057macromolecule catabolic process0.0426517274003166
GO:0002764immune response-regulating signal transduction0.0426517274003166
GO:0030855epithelial cell differentiation0.0449074914160441
GO:0019722calcium-mediated signaling0.0449074914160441



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><br><br>disease_data<br>

Disease
Ontology termp-valuen
myeloid leukemia7.41e-0831


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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