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Coexpression cluster:C3253: Difference between revisions

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|full_id=C3253_normal_pineal_insula_Mesothelial_Astrocyte_temporal_occipital
|full_id=C3253_normal_pineal_insula_Mesothelial_Astrocyte_temporal_occipital
|id=C3253
|id=C3253
|ontology_enrichment_celltype=CL:0000133!3.26e-14!59;CL:0000147!8.10e-14!14;CL:0000333!3.34e-12!41;CL:0000148!3.29e-11!10;CL:0000541!3.29e-11!10;CL:0000221!5.69e-10!71;CL:0002319!9.65e-10!25;CL:0000710!7.80e-08!20;CL:0000075!9.93e-08!27;CL:0000095!7.24e-07!17;CL:0000123!7.24e-07!17
|ontology_enrichment_celltype=CL:0000147!2.06e-15!14;CL:0000133!3.09e-15!59;CL:0000148!3.44e-14!10;CL:0000541!3.44e-14!10;CL:0000333!5.71e-14!41;CL:0000221!6.67e-11!72;CL:0000075!8.14e-11!27;CL:0000710!1.38e-10!20;CL:0002319!1.55e-10!25;CL:0000095!2.37e-09!17;CL:0000123!2.37e-09!17;CL:0000243!7.25e-08!15;CL:0000125!7.25e-08!15;CL:0000030!7.25e-08!15;CL:0000339!7.25e-08!15;CL:0000128!9.64e-08!7;CL:0000126!9.64e-08!7;CL:0000127!9.64e-08!7;CL:0002453!9.64e-08!7;CL:0002322!1.24e-07!5
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.47e-55!94;UBERON:0001016!1.47e-55!94;UBERON:0005743!5.08e-55!86;UBERON:0001017!5.35e-52!82;UBERON:0003075!8.65e-50!86;UBERON:0007284!8.65e-50!86;UBERON:0003056!1.41e-48!61;UBERON:0002616!4.81e-47!59;UBERON:0002346!2.23e-46!90;UBERON:0001049!3.36e-46!57;UBERON:0005068!3.36e-46!57;UBERON:0006241!3.36e-46!57;UBERON:0007135!3.36e-46!57;UBERON:0000955!6.46e-45!69;UBERON:0006238!6.46e-45!69;UBERON:0002780!2.24e-42!41;UBERON:0001890!2.24e-42!41;UBERON:0006240!2.24e-42!41;UBERON:0003080!5.63e-41!42;UBERON:0004121!6.07e-38!169;UBERON:0000033!6.56e-38!123;UBERON:0001893!1.23e-36!34;UBERON:0000924!2.72e-36!173;UBERON:0006601!2.72e-36!173;UBERON:0002020!2.85e-36!34;UBERON:0003528!2.85e-36!34;UBERON:0000153!8.74e-36!129;UBERON:0007811!8.74e-36!129;UBERON:0002791!1.78e-35!33;UBERON:0001869!2.09e-35!32;UBERON:0000956!1.39e-28!25;UBERON:0000203!1.39e-28!25;UBERON:0002619!3.80e-25!22;UBERON:0001950!8.97e-24!20;UBERON:0007023!1.02e-13!115;UBERON:0000475!3.80e-11!365;UBERON:0000119!7.68e-11!312;UBERON:0002104!1.07e-10!21;UBERON:0002200!5.67e-10!11;UBERON:0006876!5.67e-10!11;UBERON:0000970!5.99e-10!20;UBERON:0000483!6.34e-10!309;UBERON:0001871!6.87e-10!7;UBERON:0002420!8.93e-10!9;UBERON:0007245!8.93e-10!9;UBERON:0010009!8.93e-10!9;UBERON:0010011!8.93e-10!9;UBERON:0000454!8.93e-10!9;UBERON:0001456!9.50e-10!21;UBERON:0000064!1.60e-09!219;UBERON:0000019!1.79e-09!19;UBERON:0000047!1.79e-09!19;UBERON:0004088!1.79e-09!19;UBERON:0003072!1.79e-09!19;UBERON:0003071!1.79e-09!19;UBERON:0004128!1.79e-09!19;UBERON:0002308!4.20e-09!9;UBERON:0000125!4.20e-09!9;UBERON:0007625!1.03e-08!11;UBERON:0001032!1.03e-08!24;UBERON:0004456!1.03e-08!24;UBERON:0000200!2.65e-08!6;UBERON:0000020!4.98e-08!23;UBERON:0009663!1.13e-07!7;UBERON:0000025!1.52e-07!194;UBERON:0003076!2.53e-07!15;UBERON:0003057!2.53e-07!15;UBERON:0002203!3.05e-07!6;UBERON:0001768!3.05e-07!6;UBERON:0001894!4.15e-07!7;UBERON:0006222!4.15e-07!7;UBERON:0002021!6.53e-07!5;UBERON:0001872!9.80e-07!5
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0.0974211,0.160149,0.123526,0.0906475,0.0558058,0.28262,0.0377931,0.137332,0.0145999,0.0656973,0.211746,0.220538,0.0801488,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.0388736,0.254674,0.170307,0.201033,0.0488949,0.174921,0.370421,0.0330727,0.00956472,0.219556,0.0394698,0.0596469,0.419264,0.122476,0.108872,0.00628729,0.26144,0.0286025,0.000180779,0.144567,0.038848,0.0874516,0.0550279,0.144067,0.0353101,0.217069,0.190048,0.131088,0.0144628,0.237101,0.0458068,0.0761239,0.172491,0.0818785,0.182701,0.335058,0.147698,0.141463,0.167267,0.140622,0.0889592,0.309588,0.28711,0.0473033,0.094881,0.445524,0.132886,0.0774373,0.109194,0.000391885,0.00904548,0.687347,0.00327218,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.0425274,0.389379,0.655293,0.21727,0.289306,0.119215,0.192475,0.177967,0.0088427,0.057571,0.047591,0.392974,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,0.175094,0.0987169,3.18684e-05,0.206454,0.00206897,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.110216,0.070276,0.226171,0.153469,0.0376916,0.13262,0.0450031,0.0539144,0.114242,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.286863,0.152372,0.194941,0.00207136,0.101607,0.327067,0.172982,0.340936,0.151597,0.0626744,0.191335,0.148574,0.504592,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.15503,0.0154015,0.0200941,0.137219,0.228144,0.251466,0.288096,0.11903,0.0838874,0.331451,0.113145,0.112651,0.186638,0.174776,0.0948451,0.264079,0.249049,0.140533,0.0997756,0.257598,0.00556936,0.113069,0.025556,0.16791,0.09066,0.585505,0.166967,0.188651,0.0813902,0.184948,0.156261,0.311847,0.000874248,0.0590944,0.247324,0.178389,0.218229,0.231073,0.407281,0.252227,0.0360851,0.0998546,0.131093,0.0434602,0.133616,0.418146,0.0785808,0.449036,0.0973145,0.231447,0.544776,0.43956,0.37006,0.42622,0.448797,0.197484,0.396996,0.36145,0.406019,0.381071,0.216033,0.0210246,0.432035,0.138468,0.390366,0.48809,0.153829,0.443185,0.0391928,0.158867,0.151996,0.227104,0.0380245,0.250246,0.38649,0.284625,0.0344717,0.55194,0.00228337,0.000430404,0.164197,0.462688,0.287881,0.000261949,0.478174,0.336276,0.468444,0.258219,0.446557,0.243383,0.191695,5.84379e-08,0.382874,0.683217,0.161598,0.00310283,0.00422412,0.150692,0.0239796,0.37357,0.200632,0.0282154,0.0201095,0.0508568,0.771991,0.20342,0.200493,0.20558,0.300504,0.25656,0.425963,0.349197,0.383291,0.156104,0.141318,0.411941,0.0961477,0.314438,0.354789,0.163828,0.230581,0.120226,0.00486063,0.562405,0.314429,0.181415,0.282286,0.0192486,0.00047615,0.408413,0.165147,0.0586066,0.656109,0.0655189,0.243065,0.387276,0.522605,0.0248202,0.537348,0.0267088,0.416621,0.416292,0.128937,0.0457685,0.000280804,0.204817,0.452428,0.138871,0.308032,0.166905,0.19783,0.0833851,0.316453,0.48065,0.175199,0.332919,0.373557,0.523625,0.408861,5.37852e-07,0.534741,0.00169836,0.363192,0.236011,0.203486,0.273398,0.375787,0.4466,0.351067,0.275347,0.000640194,0.305885,0.241132,0.371414,0.30666,0.303709,0.495883,0.386538,0.508064,0.250964,0.383276,0.457886,0.504711,0.220231,0.509064,0.196976,0.191517,0.463751,0.601877,0.307334,0.459728,0.283463,0.0517073,0.472935,0.399569,0.273281,0.0114705,0.275089,0.384593,0.47795,0.359231,0.339729,0.197805,0.0690807,0.387069,0.332774,0.52832,0.299887,0.634365,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.00358475,0.188263,0.0719199,0.00386277,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.00321654,0.179412,0.193601,0.220904,0.222977,0.341681,0.310674,0.21801,0.198614,0.186804,0.123324,0.199468,0.0325925,0.0933115,0.12405,0.179889,0.226869,0.27872,0.0855609,0.131118,0.20837,0.247588,0.222339,0.0673329,0.20847,0.266544,0.000263373,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.268741,0.201602,0.350452,0.154941,0.120196,0.0986735,0.108462,0.0595618,0.21593,0.158479,0.220319,0.195218,0.124213,0.259632,0.30793,0.180606,0.159884,0.257294,0.150733,0.217112,0.123917,0.184317,0.185335,0.0723291,0.258496,0.261744,0.203781,0.21382,0.00176424,0.141867,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.240478,0.156465,0.13108,0.256963,0.222798,0.172134,0.176789,0.0969345,0.202137,0.310405,0.280943,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.15113,0.078016,0.0407233,0.0537355,0.319922,0.261724,0.211332,0.187731,0.233626,0.0192232,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.204393,0.00553696,0.286691,0.347036,0.141729,0.0381402,0.0359756,0.200105,0.227491,0.29837,0.0352561,0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.0457735,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.0203812,0.190993,0.281727,0.283218,0.249955,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.000158246,0.0859274,0.3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}}
}}

Revision as of 14:56, 19 October 2012


Full id: C3253_normal_pineal_insula_Mesothelial_Astrocyte_temporal_occipital



Phase1 CAGE Peaks

Hg19::chr12:130388539..130388557,-p2@TMEM132D
Hg19::chr12:130388563..130388592,-p1@TMEM132D
Hg19::chr12:130388744..130388782,-p@chr12:130388744..130388782
-


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 plate7.89e-5982
presumptive neural plate7.89e-5982
pre-chordal neural plate1.42e-5761
neurectoderm4.31e-5586
central nervous system6.16e-5481
nervous system8.12e-5489
neural tube1.46e-5356
neural rod1.46e-5356
future spinal cord1.46e-5356
neural keel1.46e-5356
regional part of nervous system1.53e-5253
regional part of brain1.53e-5253
regional part of forebrain5.88e-5041
forebrain5.88e-5041
anterior neural tube5.88e-5041
future forebrain5.88e-5041
brain7.51e-5068
future brain7.51e-5068
telencephalon7.49e-4534
ecto-epithelium8.77e-45104
brain grey matter1.75e-4434
gray matter1.75e-4434
cerebral hemisphere3.28e-4332
regional part of telencephalon1.65e-4232
structure with developmental contribution from neural crest1.48e-39132
ectoderm-derived structure6.81e-38171
ectoderm6.81e-38171
presumptive ectoderm6.81e-38171
cerebral cortex3.10e-3425
pallium3.10e-3425
neocortex1.42e-3020
regional part of cerebral cortex5.14e-3022
organ system subdivision8.29e-16223
adult organism3.10e-13114
basal ganglion2.04e-129
nuclear complex of neuraxis2.04e-129
aggregate regional part of brain2.04e-129
collection of basal ganglia2.04e-129
cerebral subcortex2.04e-129
neural nucleus1.52e-119
nucleus of brain1.52e-119
temporal lobe3.63e-116
cell layer4.23e-11309
face9.21e-1122
gyrus2.06e-106
anatomical cluster2.22e-10373
camera-type eye2.82e-1020
simple eye2.82e-1020
immature eye2.82e-1020
ocular region2.82e-1020
eyeball of camera-type eye2.82e-1020
optic cup2.82e-1020
optic vesicle2.82e-1020
eye primordium2.82e-1020
epithelium5.12e-10306
organ part5.34e-10218
telencephalic nucleus1.19e-097
eye1.31e-0921
visual system1.31e-0921
pigment epithelium of eye2.48e-0911
multi-tissue structure9.60e-09342
vasculature of organ1.00e-0811
vasculature of eye1.03e-086
uvea1.03e-086
vasculature of head1.03e-086
occipital lobe1.57e-085
anterior segment of eyeball1.96e-0814
parietal lobe4.03e-085
sense organ5.86e-0824
sensory system5.86e-0824
entire sense organ system5.86e-0824
tube5.87e-08192
corpus striatum5.72e-074
striatum5.72e-074
ventral part of telencephalon5.72e-074
future corpus striatum5.72e-074
atypical epithelium7.05e-074
posterior neural tube7.40e-0715
chordal neural plate7.40e-0715


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.

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