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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!3.64e-35!115;UBERON:0005743!4.91e-32!86;UBERON:0001017!7.61e-32!82;UBERON:0000073!1.15e-30!94;UBERON:0001016!1.15e-30!94;UBERON:0001049!8.71e-30!57;UBERON:0005068!8.71e-30!57;UBERON:0006241!8.71e-30!57;UBERON:0007135!8.71e-30!57;UBERON:0002616!5.43e-28!59;UBERON:0000955!5.21e-27!69;UBERON:0006238!5.21e-27!69;UBERON:0002346!4.92e-24!90;UBERON:0003080!5.03e-24!42;UBERON:0003075!8.33e-24!86;UBERON:0007284!8.33e-24!86;UBERON:0002780!2.27e-23!41;UBERON:0001890!2.27e-23!41;UBERON:0006240!2.27e-23!41;UBERON:0002020!3.89e-20!34;UBERON:0003528!3.89e-20!34;UBERON:0001893!6.23e-20!34;UBERON:0003056!7.34e-20!61;UBERON:0000033!1.04e-19!123;UBERON:0000153!1.56e-19!129;UBERON:0007811!1.56e-19!129;UBERON:0002791!2.10e-19!33;UBERON:0000924!3.58e-19!173;UBERON:0006601!3.58e-19!173;UBERON:0001869!5.36e-19!32;UBERON:0004121!9.91e-19!169;UBERON:0000956!1.52e-15!25;UBERON:0000203!1.52e-15!25;UBERON:0002619!7.57e-14!22;UBERON:0001950!1.51e-12!20;UBERON:0000922!8.33e-12!612;UBERON:0000481!1.13e-11!347;UBERON:0000477!1.44e-11!286;UBERON:0002050!2.71e-10!605;UBERON:0005423!2.71e-10!605;UBERON:0000923!6.18e-10!604;UBERON:0005291!6.18e-10!604;UBERON:0006598!6.18e-10!604;UBERON:0002532!6.18e-10!604;UBERON:0004111!3.67e-09!241;UBERON:0000468!2.31e-08!659;UBERON:0000483!3.22e-08!309;UBERON:0000119!6.12e-08!312;UBERON:0000025!9.27e-08!194;UBERON:0000475!1.63e-07!365;UBERON:0003076!4.99e-07!15;UBERON:0003057!4.99e-07!15;UBERON:0000062!6.68e-07!511
|ontology_enrichment_uberon=UBERON:0007023!3.64e-35!115;UBERON:0005743!4.91e-32!86;UBERON:0001017!7.61e-32!82;UBERON:0000073!1.15e-30!94;UBERON:0001016!1.15e-30!94;UBERON:0001049!8.71e-30!57;UBERON:0005068!8.71e-30!57;UBERON:0006241!8.71e-30!57;UBERON:0007135!8.71e-30!57;UBERON:0002616!5.43e-28!59;UBERON:0000955!5.21e-27!69;UBERON:0006238!5.21e-27!69;UBERON:0002346!4.92e-24!90;UBERON:0003080!5.03e-24!42;UBERON:0003075!8.33e-24!86;UBERON:0007284!8.33e-24!86;UBERON:0002780!2.27e-23!41;UBERON:0001890!2.27e-23!41;UBERON:0006240!2.27e-23!41;UBERON:0002020!3.89e-20!34;UBERON:0003528!3.89e-20!34;UBERON:0001893!6.23e-20!34;UBERON:0003056!7.34e-20!61;UBERON:0000033!1.04e-19!123;UBERON:0000153!1.56e-19!129;UBERON:0007811!1.56e-19!129;UBERON:0002791!2.10e-19!33;UBERON:0000924!3.58e-19!173;UBERON:0006601!3.58e-19!173;UBERON:0001869!5.36e-19!32;UBERON:0004121!9.91e-19!169;UBERON:0000956!1.52e-15!25;UBERON:0000203!1.52e-15!25;UBERON:0002619!7.57e-14!22;UBERON:0001950!1.51e-12!20;UBERON:0000922!8.33e-12!612;UBERON:0000481!1.13e-11!347;UBERON:0000477!1.44e-11!286;UBERON:0002050!2.71e-10!605;UBERON:0005423!2.71e-10!605;UBERON:0000923!6.18e-10!604;UBERON:0005291!6.18e-10!604;UBERON:0006598!6.18e-10!604;UBERON:0002532!6.18e-10!604;UBERON:0004111!3.67e-09!241;UBERON:0000468!2.31e-08!659;UBERON:0000483!3.22e-08!309;UBERON:0000119!6.12e-08!312;UBERON:0000025!9.27e-08!194;UBERON:0000475!1.63e-07!365;UBERON:0003076!4.99e-07!15;UBERON:0003057!4.99e-07!15;UBERON:0000062!6.68e-07!511
|tf_chipseq_enrich=CTBP2#1488;2:41.8113335595521:0.000754340825991485:0.00593331838573013!SUZ12#23512;2:33.4105206073753:0.0011782676453603:0.00799591258049278
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0952322,0.0112557,0.222432,0.107043,0.0043762,0.00481323,0.173708,0.141119,0.211595,0.0300692,0.131551,0.0445237,0.052362,0.208866,0.153187,0.0797897,0.0974211,0.0135691,0.123526,0.0906475,0.0558058,0.28262,0.000112257,0.137332,0.0145999,0.0656973,0.211746,0.220538,0.0801488,0.0757897,0.000803238,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.0388736,0.00340073,0.170307,0.201033,0.0488949,0.174921,0.00132287,0.0330727,0.348757,0.219556,0.0394698,0.0596469,0.0178982,0.122476,0.108872,0.11002,0.26144,0.0286025,0.001389,0.0109933,0.038848,0.0874516,0.0550279,0.144067,0.253693,0.217069,0.019326,0.131088,0.0144628,0.0027004,0.286988,0.0761239,0.000982125,0.0818785,0.182701,0.000835367,0.011488,0.000527702,0.167267,0.140622,0.0889592,0.0538132,0.28711,0.0473033,0.094881,0.118532,0.00924871,0.0774373,0.109194,0.128564,0.131452,2.96714e-05,0.448776,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.277091,0.047822,1.60279e-05,0.000123443,2.91589e-05,0.119215,0.192475,0.177967,0.547859,0.057571,0.047591,0.392974,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,1.64175e-09,0.00352878,0.00217769,0.206454,0.218192,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.110216,0.070276,0.226171,0.153469,0.0376916,0.13262,1.57209e-05,0.0539144,0.000271748,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.0457643,0.152372,0.194941,0.218271,0.101607,2.14872e-07,0.172982,0.340936,0.151597,0.0626744,0.0195983,0.148574,0.000797393,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.0119616,0.0973823,0.15503,1.61793e-06,0.193653,0.00987736,3.35636e-07,0.251466,0.0050797,0.11903,0.0838874,0.331451,0.113145,0.000260208,0.186638,0.174776,0.0948451,0.264079,0.0339656,0.140533,0.0997756,0.257598,0.103667,0.00664782,0.025556,0.16791,0.09066,0.0597157,0.166967,0.188651,0.00340589,0.00122372,0.000720136,0.311847,0.0062542,0.0590944,0.0334734,0.178389,0.218229,0.231073,0.0020598,0.00318326,0.0360851,0.412187,1.45218e-05,0.0434602,0.133616,0.418146,0.36927,0.00328135,0.407369,0.00249898,0.000168888,0.43956,0.37006,0.42622,0.448797,0.197484,0.00182638,0.36145,0.406019,0.0129,0.580441,0.276075,0.11074,0.000369536,0.390366,0.48809,0.153829,0.0217093,0.522904,0.0608227,0.00516504,0.00235168,0.166658,6.55614e-05,0.0135352,0.284625,0.156746,0.0091887,0.000415039,0.28907,0.164197,0.462688,0.287881,0.0556235,0.478174,0.336276,0.468444,0.258219,0.119142,0.243383,0.0186777,0.390974,7.41696e-05,0.00120937,0.161598,0.013901,0.021206,0.150692,0.21803,0.37357,0.0203982,0.477353,0.199161,0.0132585,3.61308e-06,0.20342,0.200493,0.20558,0.300504,0.0361545,0.425963,0.349197,0.383291,0.156104,0.141318,0.00217346,0.0961477,0.314438,0.0101316,0.163828,0.230581,0.120226,0.28424,0.20075,0.00677385,0.181415,0.282286,0.0674279,0.24884,0.408413,0.165147,0.322213,0.656109,4.95344e-06,0.0700181,0.387276,0.522605,0.802166,0.537348,0.0267088,0.416621,0.416292,0.462712,7.37404e-05,0.215157,0.204817,0.452428,0.138871,2.27405e-05,0.166905,0.19783,0.0833851,0.00691922,0.00457272,0.175199,0.332919,0.0805711,0.0393909,0.0980968,0.0111982,0.534741,0.39088,0.363192,0.000176604,0.0222706,0.0413386,0.0123025,0.4466,0.351067,0.275347,0.00388821,0.000553931,0.241132,0.371414,0.30666,0.303709,0.495883,0.386538,0.508064,0.250964,0.383276,0.457886,0.504711,0.220231,0.0355483,0.00149391,0.191517,0.000467747,0.0663581,0.307334,0.459728,0.0048173,0.563586,0.472935,0.0932845,0.00427533,0.000116083,0.0418805,0.000150309,0.00444763,0.359231,0.0656472,0.197805,0.00278185,0.387069,0.0627969,0.52832,0.299887,0.0193657,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.258854,0.188263,0.0719199,0.264884,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.447185,0.179412,0.193601,0.220904,0.222977,0.341681,0.00651011,0.21801,0.198614,0.186804,0.123324,0.199468,0.0325925,0.0933115,0.12405,0.179889,0.226869,0.00455899,0.00376943,0.131118,0.00178627,0.247588,0.00219731,0.0673329,0.20847,0.266544,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,9.99207e-07,0.201602,0.00972162,0.154941,0.000318033,0.0986735,0.108462,0.0595618,5.79916e-06,0.158479,0.220319,0.195218,0.124213,0.259632,0.30793,0.180606,0.159884,0.257294,0.150733,0.0254879,0.123917,0.0181384,0.0183464,0.0723291,0.258496,0.00371613,0.203781,0.21382,0.207559,0.010576,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.00282612,0.0129343,0.13108,0.256963,0.222798,0.0157468,0.176789,0.0969345,0.202137,0.310405,0.00467879,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.000648679,0.078016,0.0407233,0.0537355,0.0577193,0.000277451,0.00186843,0.187731,0.0297055,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.00168003,0.295769,0.286691,0.0687209,0.141729,0.0037817,0.255956,0.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}}
}}

Revision as of 13:43, 5 September 2012


Full id: C3268_parietal_temporal_pineal_occipital_gastrointestinal_mature_extraskeletal



Phase1 CAGE Peaks

Hg19::chr12:24715342..24715354,-p4@SOX5
Hg19::chr12:24715376..24715432,-p1@SOX5
Hg19::chr12:24715495..24715532,-p2@ENST00000540811


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism3.64e-35115
central nervous system7.61e-3282
regional part of nervous system1.15e-3094
nervous system1.15e-3094
neural tube8.71e-3057
neural rod8.71e-3057
future spinal cord8.71e-3057
neural keel8.71e-3057
regional part of brain5.43e-2859
brain5.21e-2769
future brain5.21e-2769
neurectoderm4.92e-2490
anterior neural tube5.03e-2442
neural plate8.33e-2486
presumptive neural plate8.33e-2486
regional part of forebrain2.27e-2341
forebrain2.27e-2341
future forebrain2.27e-2341
gray matter3.89e-2034
brain grey matter3.89e-2034
telencephalon6.23e-2034
pre-chordal neural plate7.34e-2061
head1.04e-19123
anterior region of body1.56e-19129
craniocervical region1.56e-19129
regional part of telencephalon2.10e-1933
ectoderm3.58e-19173
presumptive ectoderm3.58e-19173
cerebral hemisphere5.36e-1932
ectoderm-derived structure9.91e-19169
cerebral cortex1.52e-1525
pallium1.52e-1525
regional part of cerebral cortex7.57e-1422
neocortex1.51e-1220
embryo8.33e-12612
multi-tissue structure1.13e-11347
anatomical cluster1.44e-11286
embryonic structure2.71e-10605
developing anatomical structure2.71e-10605
germ layer6.18e-10604
embryonic tissue6.18e-10604
presumptive structure6.18e-10604
epiblast (generic)6.18e-10604
anatomical conduit3.67e-09241
multi-cellular organism2.31e-08659
epithelium3.22e-08309
cell layer6.12e-08312
tube9.27e-08194
organism subdivision1.63e-07365
posterior neural tube4.99e-0715
chordal neural plate4.99e-0715
organ6.68e-07511


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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTBP2#1488241.81133355955210.0007543408259914850.00593331838573013
SUZ12#23512233.41052060737530.00117826764536030.00799591258049278



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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