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Coexpression cluster:C2607: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0001049!7.19e-14!56;UBERON:0005068!7.19e-14!56;UBERON:0006241!7.19e-14!56;UBERON:0007135!7.19e-14!56;UBERON:0002193!3.87e-13!108;UBERON:0002371!4.64e-13!76;UBERON:0000073!5.04e-13!53;UBERON:0002616!5.04e-13!53;UBERON:0000468!7.24e-13!656;UBERON:0002405!1.45e-12!93;UBERON:0000467!2.04e-12!624;UBERON:0000480!2.78e-12!625;UBERON:0001893!3.52e-12!34;UBERON:0003528!6.79e-12!34;UBERON:0002020!6.79e-12!34;UBERON:0002390!8.52e-12!98;UBERON:0003061!8.52e-12!98;UBERON:0007023!9.98e-12!114;UBERON:0002780!1.29e-11!41;UBERON:0001890!1.29e-11!41;UBERON:0003080!1.29e-11!41;UBERON:0006240!1.29e-11!41;UBERON:0001869!1.63e-11!32;UBERON:0002791!2.23e-11!32;UBERON:0001474!6.03e-11!82;UBERON:0004765!6.14e-11!90;UBERON:0001434!2.19e-10!100;UBERON:0005423!2.64e-10!581;UBERON:0002619!1.98e-09!22;UBERON:0000922!2.30e-09!592;UBERON:0002050!5.11e-09!564;UBERON:0000956!5.19e-09!25;UBERON:0000203!5.19e-09!25;UBERON:0002346!7.33e-09!86;UBERON:0000923!8.87e-09!560;UBERON:0010316!8.87e-09!560;UBERON:0005291!8.87e-09!560;UBERON:0006598!8.87e-09!560;UBERON:0010317!8.87e-09!560;UBERON:0002532!8.87e-09!560;UBERON:0000955!9.63e-09!68;UBERON:0006238!9.63e-09!68;UBERON:0001950!1.48e-08!20;UBERON:0003075!2.35e-08!82;UBERON:0007284!2.35e-08!82;UBERON:0001017!2.82e-08!81;UBERON:0002204!3.93e-08!167;UBERON:0000062!4.84e-08!503;UBERON:0010371!1.76e-07!104;UBERON:0003081!2.24e-07!203;UBERON:0004111!7.42e-07!240;UBERON:0000479!9.04e-07!773
|ontology_enrichment_uberon=UBERON:0001049!7.19e-14!56;UBERON:0005068!7.19e-14!56;UBERON:0006241!7.19e-14!56;UBERON:0007135!7.19e-14!56;UBERON:0002193!3.87e-13!108;UBERON:0002371!4.64e-13!76;UBERON:0000073!5.04e-13!53;UBERON:0002616!5.04e-13!53;UBERON:0000468!7.24e-13!656;UBERON:0002405!1.45e-12!93;UBERON:0000467!2.04e-12!624;UBERON:0000480!2.78e-12!625;UBERON:0001893!3.52e-12!34;UBERON:0003528!6.79e-12!34;UBERON:0002020!6.79e-12!34;UBERON:0002390!8.52e-12!98;UBERON:0003061!8.52e-12!98;UBERON:0007023!9.98e-12!114;UBERON:0002780!1.29e-11!41;UBERON:0001890!1.29e-11!41;UBERON:0003080!1.29e-11!41;UBERON:0006240!1.29e-11!41;UBERON:0001869!1.63e-11!32;UBERON:0002791!2.23e-11!32;UBERON:0001474!6.03e-11!82;UBERON:0004765!6.14e-11!90;UBERON:0001434!2.19e-10!100;UBERON:0005423!2.64e-10!581;UBERON:0002619!1.98e-09!22;UBERON:0000922!2.30e-09!592;UBERON:0002050!5.11e-09!564;UBERON:0000956!5.19e-09!25;UBERON:0000203!5.19e-09!25;UBERON:0002346!7.33e-09!86;UBERON:0000923!8.87e-09!560;UBERON:0010316!8.87e-09!560;UBERON:0005291!8.87e-09!560;UBERON:0006598!8.87e-09!560;UBERON:0010317!8.87e-09!560;UBERON:0002532!8.87e-09!560;UBERON:0000955!9.63e-09!68;UBERON:0006238!9.63e-09!68;UBERON:0001950!1.48e-08!20;UBERON:0003075!2.35e-08!82;UBERON:0007284!2.35e-08!82;UBERON:0001017!2.82e-08!81;UBERON:0002204!3.93e-08!167;UBERON:0000062!4.84e-08!503;UBERON:0010371!1.76e-07!104;UBERON:0003081!2.24e-07!203;UBERON:0004111!7.42e-07!240;UBERON:0000479!9.04e-07!773
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2,0.0339332,0.0725263,0.102587,0.0742013,0.0552936,0.0457886,0.0514927,0.324236,0.220368,0.258624,0.064656,0.226143,0.460406,0.0438521,0.112715,0.281453,0.0522771,0.0787278,0.515487,0.159873,0.142462,0.143935,0.332403,0.0379537,0.287316,0.187953,0.051459,0.114868,0.0726892,0.18732,0.32305,0.278397,0.245002,0.170848,0.487259,0.302909,0.363016,0.100188,0.223102,0.107653,0.235857,0.419621,0.191914,0.184022,0.216557,0.182956,0.116818,0.389792,0.36316,0.0625685,0.124464,0.186295,0.173134,0.101893,0.142875,0.167635,0.171311,0.787798,0.548036,0.0685131,0.130287,0.0661526,0.0815772,0.0993937,0.122878,0.187329,0.0451012,0.0976639,0.351199,0.535567,0.758305,0.278645,0.365775,0.155708,0.248017,0.22995,0.652972,0.0760151,0.0629459,0.486024,0.0803251,0.0278785,0.379174,0.0939463,0.286748,0.0779623,0.0471607,0.163865,0.226359,0.832679,0.974549,0.265324,0.279778,0.141699,0.0887743,0.142302,0.0653269,0.125712,0.264432,0.0994829,0.0604041,0.144185,0.0925862,0.0466818,0.199201,0.049937,0.172796,0.0595495,0.071232,0.149346,0.121978,0.22302,0.137423,0.284016,0.0754883,0.0501465,0.100006,0.362866,0.197817,0.251078,0.279874,0.133127,0.410303,0.223717,0.107609,0.196838,0.0826805,0.246601,0.193021,0.608002,0.202165,0.0946865,0.120618,0.079499,0.18762,0.195618,0.127688,0.201169,0.220353,0.24948,0.178639,0.291976,0.320355,0.364334,0.15547,0.110256,0.415419,0.14794,0.147307,0.240761,0.225961,0.124417,0.335582,0.317428,0.182843,0.130771,0.327768,0.135777,0.147842,0.0339286,0.217363,0.119015,0.690952,0.21618,0.243266,0.107021,0.238657,0.20272,0.392453,0.61565,0.0780061,0.315336,0.230477,0.279823,0.295555,0.502112,0.724669,0.0478217,0.507599,0.170854,0.0575231,0.174063,0.514243,0.459091,0.54832,0.154964,0.296013,0.282366,0.0434876,0.459994,0.523209,0.548059,0.25423,0.490559,0.45013,0.500698,0.135135,0.111549,0.747471,0.529642,0.818701,0.483077,0.224887,0.603763,0.541914,0.627201,0.765905,0.757308,0.290703,0.622694,0.722684,0.478691,0.360199,0.608176,0.290133,0.519564,0.365494,0.212703,0.0515679,0.364079,0.680099,0.579886,0.421038,0.206595,0.328518,0.545608,0.310552,0.594773,0.483764,0.261345,0.784052,0.209437,0.843495,0.401218,0.598945,0.882403,0.464001,0.60737,0.579004,0.870272,0.546688,0.860705,0.261575,0.257956,0.264245,0.0831707,0.326516,0.522925,0.436016,0.475063,0.202522,0.0180408,0.507324,0.126097,0.3955,0.116739,0.212239,0.294954,0.156999,0.35974,0.301684,0.39549,0.234254,0.073225,0.86719,0.137737,0.15578,0.252827,0.404625,0.416164,0.424691,0.715362,0.479581,0.259048,0.884725,0.642173,0.284496,0.16228,0.512178,0.563206,0.829402,0.684899,0.263302,0.552023,0.180735,0.775168,0.216102,0.254659,0.109605,0.397869,0.582542,0.226491,0.417131,0.463987,0.260097,0.503881,0.454761,0.639483,0.142363,0.452129,0.0508933,0.261657,0.0686105,0.131322,0.0458396,0.438176,0.349112,0.391754,0.385425,0.0531591,0.461541,0.386339,0.382854,0.598787,0.478745,0.611661,0.319747,0.0277333,0.197104,0.608127,0.282281,0.612712,0.2536,0.246827,0.0103145,0.70712,0.387134,0.559969,0.358813,0.668972,0.574252,0.148933,0.346636,0.457747,0.348802,0.476541,0.579645,0.119749,0.106831,0.254628,0.713293,0.139532,0.416962,0.632833,0.378333,0.387805,0.264038,0.22798,0.102495,0.350933,0.263896,0.0446972,0.0326819,0.329284,0.242783,0.0947248,0.336551,0.210656,0.246234,0.211271,0.0439036,0.267248,0.118257,0.125087,0.215123,0.321224,0.133173,0.0597961,0.266651,0.546295,0.231754,0.249415,0.283107,0.285648,0.0191181,0.391071,0.279553,0.25563,0.240967,0.160955,0.256687,0.0432189,0.122439,0.16188,0.23235,0.290415,0.0713545,0.112422,0.170886,0.267687,0.315656,0.284866,0.0887542,0.267811,0.0651578,0.147872,0.189388,0.293546,0.210125,0.0478543,0.218414,0.0509944,0.0871471,0.0689852,0.0602698,0.341188,0.259328,0.437467,0.201057,0.15696,0.129351,0.141936,0.0786166,0.276997,0.205513,0.282389,0.251421,0.162089,0.00796989,0.387837,0.233244,0.207281,0.327401,0.195748,0.27845,0.161712,0.237871,0.239139,0.095257,0.328852,0.332769,0.262022,0.274403,0.266687,0.184534,0.248707,0.31749,0.15156,0.287598,0.313858,0.223773,0.25788,0.181895,0.253768,0.30702,0.202977,0.170837,0.0604859,0.28543,0.222656,0.228479,0.127111,0.259989,0.390754,0.355805,0.279739,0.108118,0.259901,0.139723,0.0708274,0.0710478,0.196248,0.102645,0.0539258,0.0709978,0.401939,0.332746,0.271338,0.032013,0.298673,0.244395,0.106889,0.128632,0.0845989,0.159153,0.0842401,0.13698,0.0874421,0.100355,0.167854,0.142846,0.0583767,0.088258,0.117657,0.0486914,0.175784,0.262778,0.373453,0.362662,0.433518,0.184359,0.334474,0.0600054,0.257476,0.0472356,0.376537,0.322827,0.229571,0.359036,0.00844265,0.171704,0.208256,0.0387226,0.256405,0.362898,0.0510917,0.0976762,0.151361,0.279606,0.286696,0.150674,0.251128,0.246177,0.35674,0.35852,0.318525,0.213257,0.287217,0.122782,0.410951,0.289049,0.266974,0.125746,0.112897,0.398354,0.222091,0.0228412,0.0675312,0.0936726,0.343425,0.132374,0.045178,0.22741,0.203996,0.276721,0.321965,0.264707,0.450113
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}}
}}

Revision as of 15:36, 26 November 2012


Full id: C2607_Neutrophils_medial_Monocytederived_CD14_amygdala_renal_occipital



Phase1 CAGE Peaks

Hg19::chr20:1905446..1905489,+p@chr20:1905446..1905489
+
Hg19::chr20:1918006..1918018,+p@chr20:1918006..1918018
+
Hg19::chr20:1918344..1918376,+p9@SIRPA
Hg19::chr22:30939618..30939629,+p@chr22:30939618..30939629
+


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>

Uber Anatomy
Ontology termp-valuen
neural tube7.19e-1456
neural rod7.19e-1456
future spinal cord7.19e-1456
neural keel7.19e-1456
hemolymphoid system3.87e-13108
bone marrow4.64e-1376
regional part of nervous system5.04e-1353
regional part of brain5.04e-1353
multi-cellular organism7.24e-13656
immune system1.45e-1293
anatomical system2.04e-12624
anatomical group2.78e-12625
telencephalon3.52e-1234
brain grey matter6.79e-1234
gray matter6.79e-1234
hematopoietic system8.52e-1298
blood island8.52e-1298
adult organism9.98e-12114
regional part of forebrain1.29e-1141
forebrain1.29e-1141
anterior neural tube1.29e-1141
future forebrain1.29e-1141
cerebral hemisphere1.63e-1132
regional part of telencephalon2.23e-1132
bone element6.03e-1182
skeletal element6.14e-1190
skeletal system2.19e-10100
developing anatomical structure2.64e-10581
regional part of cerebral cortex1.98e-0922
embryo2.30e-09592
embryonic structure5.11e-09564
cerebral cortex5.19e-0925
pallium5.19e-0925
neurectoderm7.33e-0986
germ layer8.87e-09560
germ layer / neural crest8.87e-09560
embryonic tissue8.87e-09560
presumptive structure8.87e-09560
germ layer / neural crest derived structure8.87e-09560
epiblast (generic)8.87e-09560
brain9.63e-0968
future brain9.63e-0968
neocortex1.48e-0820
neural plate2.35e-0882
presumptive neural plate2.35e-0882
central nervous system2.82e-0881
musculoskeletal system3.93e-08167
organ4.84e-08503
ecto-epithelium1.76e-07104
lateral plate mesoderm2.24e-07203
anatomical conduit7.42e-07240
tissue9.04e-07773


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

This analysis result is provided for C0 - C305 clusters.

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