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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005743!1.48e-37!86;UBERON:0001017!3.68e-37!82;UBERON:0000073!4.81e-37!94;UBERON:0001016!4.81e-37!94;UBERON:0001049!1.06e-33!57;UBERON:0005068!1.06e-33!57;UBERON:0006241!1.06e-33!57;UBERON:0007135!1.06e-33!57;UBERON:0000955!6.16e-32!69;UBERON:0006238!6.16e-32!69;UBERON:0007023!2.91e-31!115;UBERON:0003075!3.55e-30!86;UBERON:0007284!3.55e-30!86;UBERON:0002616!6.11e-28!59;UBERON:0002346!1.08e-27!90;UBERON:0004111!1.01e-25!241;UBERON:0000025!1.35e-25!194;UBERON:0003080!2.92e-24!42;UBERON:0002780!8.61e-24!41;UBERON:0001890!8.61e-24!41;UBERON:0006240!8.61e-24!41;UBERON:0003056!6.95e-23!61;UBERON:0000483!1.28e-21!309;UBERON:0000119!3.90e-21!312;UBERON:0004121!9.84e-21!169;UBERON:0000153!1.05e-20!129;UBERON:0007811!1.05e-20!129;UBERON:0000033!1.31e-20!123;UBERON:0000477!3.27e-20!286;UBERON:0002020!7.79e-20!34;UBERON:0003528!7.79e-20!34;UBERON:0001893!1.30e-19!34;UBERON:0000924!1.54e-19!173;UBERON:0006601!1.54e-19!173;UBERON:0000481!1.58e-19!347;UBERON:0002791!3.79e-19!33;UBERON:0001869!3.84e-18!32;UBERON:0000475!4.13e-18!365;UBERON:0000064!3.23e-16!219;UBERON:0000468!1.30e-15!659;UBERON:0000467!1.07e-14!625;UBERON:0000956!1.33e-14!25;UBERON:0000203!1.33e-14!25;UBERON:0000480!1.68e-14!626;UBERON:0002619!1.44e-13!22;UBERON:0000922!4.60e-13!612;UBERON:0001950!1.27e-12!20;UBERON:0000062!1.88e-12!511;UBERON:0005177!1.16e-11!107;UBERON:0002050!6.83e-11!605;UBERON:0005423!6.83e-11!605;UBERON:0000923!1.68e-10!604;UBERON:0005291!1.68e-10!604;UBERON:0006598!1.68e-10!604;UBERON:0002532!1.68e-10!604;UBERON:0003076!1.75e-10!15;UBERON:0003057!1.75e-10!15;UBERON:0000489!7.20e-10!32;UBERON:0005409!4.62e-09!35;UBERON:0004732!6.10e-09!13;UBERON:0004733!2.97e-08!12;UBERON:0002028!2.97e-08!12;UBERON:0007277!2.97e-08!12;UBERON:0000160!3.64e-08!27;UBERON:0002113!1.07e-07!27;UBERON:0003918!1.07e-07!27;UBERON:0005095!1.07e-07!27;UBERON:0007687!1.07e-07!27;UBERON:0005172!1.25e-07!55;UBERON:0005173!1.25e-07!55;UBERON:0003103!2.55e-07!69;UBERON:0001008!2.80e-07!45;UBERON:0006554!3.35e-07!44;UBERON:0000466!4.10e-07!126;UBERON:0004921!5.95e-07!129;UBERON:0004185!5.95e-07!129;UBERON:0000063!6.19e-07!97;UBERON:0002298!9.13e-07!8
|ontology_enrichment_uberon=UBERON:0005743!1.48e-37!86;UBERON:0001017!3.68e-37!82;UBERON:0000073!4.81e-37!94;UBERON:0001016!4.81e-37!94;UBERON:0001049!1.06e-33!57;UBERON:0005068!1.06e-33!57;UBERON:0006241!1.06e-33!57;UBERON:0007135!1.06e-33!57;UBERON:0000955!6.16e-32!69;UBERON:0006238!6.16e-32!69;UBERON:0007023!2.91e-31!115;UBERON:0003075!3.55e-30!86;UBERON:0007284!3.55e-30!86;UBERON:0002616!6.11e-28!59;UBERON:0002346!1.08e-27!90;UBERON:0004111!1.01e-25!241;UBERON:0000025!1.35e-25!194;UBERON:0003080!2.92e-24!42;UBERON:0002780!8.61e-24!41;UBERON:0001890!8.61e-24!41;UBERON:0006240!8.61e-24!41;UBERON:0003056!6.95e-23!61;UBERON:0000483!1.28e-21!309;UBERON:0000119!3.90e-21!312;UBERON:0004121!9.84e-21!169;UBERON:0000153!1.05e-20!129;UBERON:0007811!1.05e-20!129;UBERON:0000033!1.31e-20!123;UBERON:0000477!3.27e-20!286;UBERON:0002020!7.79e-20!34;UBERON:0003528!7.79e-20!34;UBERON:0001893!1.30e-19!34;UBERON:0000924!1.54e-19!173;UBERON:0006601!1.54e-19!173;UBERON:0000481!1.58e-19!347;UBERON:0002791!3.79e-19!33;UBERON:0001869!3.84e-18!32;UBERON:0000475!4.13e-18!365;UBERON:0000064!3.23e-16!219;UBERON:0000468!1.30e-15!659;UBERON:0000467!1.07e-14!625;UBERON:0000956!1.33e-14!25;UBERON:0000203!1.33e-14!25;UBERON:0000480!1.68e-14!626;UBERON:0002619!1.44e-13!22;UBERON:0000922!4.60e-13!612;UBERON:0001950!1.27e-12!20;UBERON:0000062!1.88e-12!511;UBERON:0005177!1.16e-11!107;UBERON:0002050!6.83e-11!605;UBERON:0005423!6.83e-11!605;UBERON:0000923!1.68e-10!604;UBERON:0005291!1.68e-10!604;UBERON:0006598!1.68e-10!604;UBERON:0002532!1.68e-10!604;UBERON:0003076!1.75e-10!15;UBERON:0003057!1.75e-10!15;UBERON:0000489!7.20e-10!32;UBERON:0005409!4.62e-09!35;UBERON:0004732!6.10e-09!13;UBERON:0004733!2.97e-08!12;UBERON:0002028!2.97e-08!12;UBERON:0007277!2.97e-08!12;UBERON:0000160!3.64e-08!27;UBERON:0002113!1.07e-07!27;UBERON:0003918!1.07e-07!27;UBERON:0005095!1.07e-07!27;UBERON:0007687!1.07e-07!27;UBERON:0005172!1.25e-07!55;UBERON:0005173!1.25e-07!55;UBERON:0003103!2.55e-07!69;UBERON:0001008!2.80e-07!45;UBERON:0006554!3.35e-07!44;UBERON:0000466!4.10e-07!126;UBERON:0004921!5.95e-07!129;UBERON:0004185!5.95e-07!129;UBERON:0000063!6.19e-07!97;UBERON:0002298!9.13e-07!8
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06475,0.0558058,0.0443426,0.517717,0.137332,0.0145999,4.97064e-05,0.0241929,0.220538,0.0801488,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.0388736,0.254674,0.170307,0.201033,0.0488949,0.174921,0.370421,0.0330727,0.348757,0.219556,0.0394698,0.0596469,0.419264,0.122476,0.108872,0.11002,0.26144,0.0286025,0.190156,0.144567,0.038848,0.0874516,0.0550279,0.144067,0.253693,0.217069,0.190048,0.131088,0.394069,0.0306378,0.286988,0.0761239,0.172491,0.0818785,0.182701,0.335058,0.147698,0.141463,0.167267,0.140622,0.0889592,0.309588,0.28711,0.0473033,0.094881,0.445524,0.132886,0.0774373,0.109194,0.128564,0.131452,0.687347,0.448776,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.277091,0.739716,0.655293,0.21727,0.289306,0.119215,0.192475,0.177967,0.547859,0.057571,0.047591,0.392974,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,0.00102956,0.696435,0.936279,0.206454,0.218192,0.000230242,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.110216,0.070276,0.226171,0.153469,0.0376916,0.13262,0.0450031,0.0539144,0.114242,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.286863,0.152372,0.194941,0.218271,0.101607,0.327067,0.172982,0.340936,0.151597,0.0626744,0.191335,0.148574,0.504592,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.15503,0.170295,0.193653,0.137219,0.228144,0.251466,0.288096,0.11903,0.0838874,0.331451,0.113145,0.112651,0.186638,0.174776,0.0948451,0.264079,0.249049,0.140533,0.0997756,0.257598,0.103667,0.113069,0.025556,0.16791,0.09066,0.220462,4.0114e-05,0.188651,0.0813902,0.184948,0.156261,0.311847,0.511859,0.0590944,0.247324,0.178389,0.218229,0.231073,0.407281,0.619906,0.0360851,0.412187,0.131093,0.0434602,0.133616,0.418146,0.36927,0.120614,0.407369,0.231447,0.544776,0.43956,0.37006,0.42622,0.448797,0.197484,0.0919774,0.36145,0.406019,0.381071,0.057779,0.0210246,0.432035,0.138468,0.0886602,0.48809,0.50058,0.443185,0.169835,0.875915,0.871256,7.63295e-06,0.00667974,0.0734371,0.0867545,0.284625,0.504757,0.04783,0.375373,0.0465139,0.164197,0.462688,0.287881,0.574635,0.478174,0.336276,0.468444,0.0366482,0.446557,0.243383,0.442897,0.0889613,0.73485,0.683217,0.161598,0.164332,0.644754,0.496032,0.21803,0.0805771,0.454657,0.477353,0.78384,0.399222,0.43491,0.20342,0.200493,0.0227499,0.300504,0.00348292,0.425963,1.96404e-08,0.0851996,0.156104,0.141318,0.411941,0.0961477,0.314438,0.354789,0.0142192,0.0289012,0.120226,0.28424,0.562405,0.0556238,0.181415,0.0442318,0.194707,0.616388,0.408413,0.516511,0.322213,0.28903,0.33942,0.61031,0.387276,0.0391112,0.802166,0.180745,0.222037,0.416621,0.416292,0.462712,0.734551,0.579431,0.204817,0.452428,0.138871,0.673493,0.166905,0.19783,0.0833851,0.056391,0.48065,0.175199,0.332919,0.373557,0.170369,0.408861,0.365487,1.48056e-06,0.39088,0.0109626,0.236011,0.0222706,0.273398,0.375787,0.4466,0.351067,0.275347,0.269604,3.99422e-05,0.241132,0.0795725,0.30666,0.303709,0.495883,0.386538,0.508064,0.250964,0.0851927,0.125961,0.504711,0.220231,0.0355483,0.196976,0.191517,0.463751,0.235208,0.307334,0.459728,0.283463,0.563586,0.472935,0.399569,0.273281,0.368095,0.00436817,0.384593,0.0283414,0.359231,0.339729,0.197805,0.0690807,0.387069,0.332774,0.173874,0.299887,0.634365,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.0192444,0.258854,0.188263,0.0719199,0.0386691,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.447185,0.179412,0.193601,0.220904,0.222977,0.00893033,0.310674,0.21801,0.0211771,0.186804,0.123324,0.199468,0.0325925,0.0933115,0.12405,0.179889,0.226869,0.27872,0.000111542,0.131118,0.20837,0.247588,0.222339,0.0673329,0.20847,0.266544,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.268741,0.201602,0.350452,0.154941,0.120196,0.0986735,0.00610703,0.0595618,0.21593,0.158479,0.220319,0.195218,0.124213,0.0370716,0.0532009,0.00113527,0.159884,0.257294,0.150733,0.217112,0.123917,0.184317,0.185335,0.0723291,0.258496,0.261744,0.203781,0.21382,0.207559,0.141867,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.000508432,0.197112,0.240478,0.156465,0.13108,0.256963,0.222798,0.172134,0.176789,0.0969345,0.202137,0.310405,0.280943,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.15113,0.078016,0.0407233,0.0537355,0.319922,0.261724,0.211332,0.187731,0.233626,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.00954842,0.204393,0.295769,0.286691,0.347036,0.141729,0.263159,0.255956,0.200105,0.227491,0.29837,0.253509,0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.0032012,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.0268373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}}
}}

Revision as of 12:36, 5 September 2012


Full id: C4234_occipital_colon_parietal_duodenum_brain_temporal_spinal



Phase1 CAGE Peaks

Hg19::chr2:47572119..47572151,-p1@ENST00000413185
p1@ENST00000448713
p1@ENST00000450550
Hg19::chr2:47572187..47572202,-p2@ENST00000441997
Hg19::chr2:47572207..47572229,-p1@ENST00000441997


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
neural cell6.25e-0725
Uber Anatomy
Ontology termp-valuen
central nervous system3.68e-3782
regional part of nervous system4.81e-3794
nervous system4.81e-3794
neural tube1.06e-3357
neural rod1.06e-3357
future spinal cord1.06e-3357
neural keel1.06e-3357
brain6.16e-3269
future brain6.16e-3269
adult organism2.91e-31115
neural plate3.55e-3086
presumptive neural plate3.55e-3086
regional part of brain6.11e-2859
neurectoderm1.08e-2790
anatomical conduit1.01e-25241
tube1.35e-25194
anterior neural tube2.92e-2442
regional part of forebrain8.61e-2441
forebrain8.61e-2441
future forebrain8.61e-2441
pre-chordal neural plate6.95e-2361
epithelium1.28e-21309
cell layer3.90e-21312
ectoderm-derived structure9.84e-21169
anterior region of body1.05e-20129
craniocervical region1.05e-20129
head1.31e-20123
anatomical cluster3.27e-20286
gray matter7.79e-2034
brain grey matter7.79e-2034
telencephalon1.30e-1934
ectoderm1.54e-19173
presumptive ectoderm1.54e-19173
multi-tissue structure1.58e-19347
regional part of telencephalon3.79e-1933
cerebral hemisphere3.84e-1832
organism subdivision4.13e-18365
organ part3.23e-16219
multi-cellular organism1.30e-15659
anatomical system1.07e-14625
cerebral cortex1.33e-1425
pallium1.33e-1425
anatomical group1.68e-14626
regional part of cerebral cortex1.44e-1322
embryo4.60e-13612
neocortex1.27e-1220
organ1.88e-12511
trunk region element1.16e-11107
embryonic structure6.83e-11605
developing anatomical structure6.83e-11605
germ layer1.68e-10604
embryonic tissue1.68e-10604
presumptive structure1.68e-10604
epiblast (generic)1.68e-10604
posterior neural tube1.75e-1015
chordal neural plate1.75e-1015
cavitated compound organ7.20e-1032
gastrointestinal system4.62e-0935
segmental subdivision of nervous system6.10e-0913
segmental subdivision of hindbrain2.97e-0812
hindbrain2.97e-0812
presumptive hindbrain2.97e-0812
intestine3.64e-0827
kidney1.07e-0727
kidney mesenchyme1.07e-0727
kidney rudiment1.07e-0727
kidney field1.07e-0727
abdomen element1.25e-0755
abdominal segment element1.25e-0755
compound organ2.55e-0769
renal system2.80e-0745
urinary system structure3.35e-0744
immaterial anatomical entity4.10e-07126
subdivision of digestive tract5.95e-07129
endodermal part of digestive tract5.95e-07129
organ segment6.19e-0797
brainstem9.13e-078


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
ATF3#467322.46317452600878.81932387510763e-050.00129821193261785
BHLHE40#8553344.87181354697741.10603738662898e-050.000285147960064537
CEBPB#105137.971147625824820.001974187055288560.0115514662931975
CTCF#1066435.360256373075030.0064925092527670.0280252603368354
EBF1#187938.9064668465690.00141523283560980.0091724898919109
ELF1#199734.258097958807540.01295179875054610.0463593429881515
EP300#203336.77394172622320.003216880500103790.0167857997776837
FOSL2#2355316.93020060456170.0002060162053171620.00243560408276195
FOXA1#3169311.08141974938550.000734755275698670.00582489040828096
FOXA2#3170324.63046375266526.68983856509345e-050.00107390109114632
HDAC2#3066313.41562023662630.0004140761399857210.00392286810449644
HNF4A#3172323.13229036295378.07584663437677e-050.00123075054231384
HNF4G#3174328.75342252644684.20470658818262e-050.000758306598796762
MAFK#7975327.10073313782995.02195559325033e-050.00085840919836902
MAX#414936.452555509007120.003721913834265510.0187016097636207
MYC#460935.22228187160940.007020843755740150.0295260490056272
REST#597839.650028716128020.001112636247114590.00769400893944254
RFX5#5993312.04791082719510.0005717246050312580.00485607888946483
RXRA#6256320.07461713913330.0001235730348432220.00165523203616664
SIN3A#2594235.408884726815140.006318961977991520.0277544818748194
SP1#666735.69838137814090.005403962701712170.0247135990105582
TCF7L2#6934310.77017656313730.0008003181298398380.00615451182993468
TRIM28#10155318.59052504526250.0001555969297255280.00197477065786904
USF1#739136.361499277207960.00388404057290560.0190802122950935
USF2#7392312.99219738506960.0004558979393427810.00422367824776197
YY1#752834.911170749853860.008441455341808260.0330193690802664



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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