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Coexpression cluster:C1242: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0007274!neuromuscular synaptic transmission!0.0445020006415389!1960$GO:0007422!peripheral nervous system development!0.0477843731091476!1960$GO:0007623!circadian rhythm!0.0477843731091476!1960
|gostat_on_coexpression_clusters=GO:0007274!neuromuscular synaptic transmission!0.0445020006415389!1960$GO:0007422!peripheral nervous system development!0.0477843731091476!1960$GO:0007623!circadian rhythm!0.0477843731091476!1960
|id=C1242
|id=C1242
|ontology_enrichment_celltype=CL:0002057!1.26e-07!42
|ontology_enrichment_celltype=CL:0002274!8.53e-07!5;CL:0000457!8.53e-07!5;CL:0002191!8.53e-07!5;CL:0000097!8.53e-07!5;CL:0000831!8.53e-07!5;CL:0002028!8.53e-07!5
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!1.29e-22!57;UBERON:0005068!1.29e-22!57;UBERON:0006241!1.29e-22!57;UBERON:0007135!1.29e-22!57;UBERON:0003080!6.11e-22!42;UBERON:0002780!1.15e-21!41;UBERON:0001890!1.15e-21!41;UBERON:0006240!1.15e-21!41;UBERON:0007023!6.91e-21!115;UBERON:0001017!9.18e-20!82;UBERON:0001893!1.37e-19!34;UBERON:0002020!2.69e-19!34;UBERON:0003528!2.69e-19!34;UBERON:0002791!7.57e-19!33;UBERON:0001869!1.04e-18!32;UBERON:0002616!1.83e-18!59;UBERON:0005743!4.08e-18!86;UBERON:0000955!1.57e-16!69;UBERON:0006238!1.57e-16!69;UBERON:0000073!2.25e-16!94;UBERON:0001016!2.25e-16!94;UBERON:0002619!3.94e-16!22;UBERON:0001950!1.05e-14!20;UBERON:0003075!1.81e-14!86;UBERON:0007284!1.81e-14!86;UBERON:0000956!1.06e-13!25;UBERON:0000203!1.06e-13!25;UBERON:0002346!1.28e-13!90;UBERON:0003056!5.23e-12!61;UBERON:0002420!1.41e-07!9;UBERON:0007245!1.41e-07!9;UBERON:0010009!1.41e-07!9;UBERON:0010011!1.41e-07!9;UBERON:0000454!1.41e-07!9;UBERON:0002308!3.90e-07!9;UBERON:0000125!3.90e-07!9
|ontology_enrichment_uberon=UBERON:0001893!9.04e-85!34;UBERON:0001869!1.12e-84!32;UBERON:0002780!4.48e-79!41;UBERON:0001890!4.48e-79!41;UBERON:0003080!4.48e-79!41;UBERON:0006240!4.48e-79!41;UBERON:0002791!1.18e-78!32;UBERON:0003528!1.02e-73!34;UBERON:0002020!1.02e-73!34;UBERON:0002619!3.83e-70!22;UBERON:0000073!2.89e-67!53;UBERON:0002616!2.89e-67!53;UBERON:0001950!1.31e-63!20;UBERON:0001049!2.98e-63!56;UBERON:0005068!2.98e-63!56;UBERON:0006241!2.98e-63!56;UBERON:0007135!2.98e-63!56;UBERON:0000956!2.39e-61!25;UBERON:0000203!2.39e-61!25;UBERON:0000955!3.24e-53!68;UBERON:0006238!3.24e-53!68;UBERON:0003056!8.47e-51!61;UBERON:0001017!5.24e-49!81;UBERON:0001016!7.83e-46!89;UBERON:0003075!1.24e-40!82;UBERON:0007284!1.24e-40!82;UBERON:0002346!2.34e-38!86;UBERON:0007023!7.79e-35!114;UBERON:0010371!2.36e-32!104;UBERON:0010314!1.31e-28!132;UBERON:0002420!1.27e-24!9;UBERON:0007245!1.27e-24!9;UBERON:0010009!1.27e-24!9;UBERON:0010011!1.27e-24!9;UBERON:0000454!1.27e-24!9;UBERON:0004121!2.04e-22!171;UBERON:0000924!2.04e-22!171;UBERON:0006601!2.04e-22!171;UBERON:0000200!1.31e-21!6;UBERON:0011216!3.06e-19!223;UBERON:0009663!2.42e-18!7;UBERON:0001872!3.96e-18!5;UBERON:0001871!5.73e-18!6;UBERON:0000349!5.81e-18!5;UBERON:0002021!1.20e-17!5;UBERON:0000025!1.16e-15!192;UBERON:0000369!1.54e-15!4;UBERON:0002435!1.54e-15!4;UBERON:0000204!1.54e-15!4;UBERON:0010082!1.54e-15!4;UBERON:0000125!4.22e-14!9;UBERON:0002308!4.22e-14!9;UBERON:0004111!1.86e-12!240;UBERON:0005383!4.78e-12!3;UBERON:0005382!4.78e-12!3;UBERON:0001870!1.49e-11!3;UBERON:0000477!1.95e-09!373;UBERON:0000481!4.08e-09!342;UBERON:0001873!1.43e-08!2;UBERON:0010122!1.43e-08!2;UBERON:0000064!1.61e-08!218;UBERON:0000483!1.66e-08!306;UBERON:0002771!2.05e-08!2;UBERON:0000119!2.46e-08!309;UBERON:0002702!2.82e-08!2;UBERON:0001954!4.31e-08!2;UBERON:0003022!4.31e-08!2;UBERON:0002421!4.31e-08!2;UBERON:0002600!4.31e-08!2;UBERON:0001876!4.46e-08!2;UBERON:0001875!1.02e-07!2;UBERON:0006514!1.02e-07!2;UBERON:0002360!1.53e-07!2;UBERON:0000094!1.53e-07!2;UBERON:0010743!1.53e-07!2
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15,0.334514,0.264825,0.19886,0.125399,0.00815454,0.0934171,0.291561,0.0337354,0.146629,0.426032,0.440859,0.177111,0.167984,0.337564,0.0904963,0.123448,0.17256,0.126216,0.0947479,0.0787488,0.0883646,0.496336,0.0713533,0.407665,0.11039,0.361507,0.00503291,0.0754745,0.632378,0.114847,0.0896836,0.133679,0.00966143,0.262768,0.235824,0.23812,0.506939,0.0654706,0.0408918,0.305348,0.0883079,0.192275,0.123717,0.3044,0.494788,0.0203465,0.388488,0.27954,0.326131,0.0263379,0.187355,0.168686,0.35711,0.180717,0.0814673,0.246637,0.311267,0.299453,0.347601,0.297851,0.0204686,0.578705,0.187498,0.106912,0.0232022,0.160742,0.283013,0.17144,0.236468,0.0417384,0.280244,1.93391e-07,0.000596365,0.1168,0.216736,0.112879,0.138362,0.1674,0.205022,0.304414,0.0775871,0.1646,0.175877,1.16884e-09,0.106845,0.435374,0.190081,0.25636,0.392755,0.366993,0.00300176,0.12921,0.107541,4.62997e-08,0.136306,0.362226,0.0104549,0.158567,0.446426,0.551931,0.0810658,0.268889,0.361819,2.68559e-05,0.000377936,0.417001,0.113527,0.234633,0.150144,0.235575,0.111506,0.209512,0.101765,0.167545,0.1033,0.238509,0.156356,0.450242,0.322099,0.0857464,0.282499,0.000190759,0.121306,0.0332472,0.203595,0.356991,0.0282156,0.44271,0.128341,0.463619,0.168391,0.187208,0.320047,0.397073,0.0028809,0.221207,0.236405,0.358,0.254254,0.318595,0.140173,0.390753,0.312917,0.226734,0.00767371,0.15977,0.201434,0.134947,0.304849,0.316782,0.212636,0.325012,0.071344,0.394821,0.291345,0.453507,0.491263,0.188656,0.255995,0.184894,0.00281387,0.244347,0.0323585,0.382464,0.361244,0.207462,0.161202,0.487422,0.29768,0.217499,0.154075,0.225368,0.244195,0.0586175,0.348776,0.198885,0.152926,0.347052,0.0865271,0.0172108,0.379465,0.327304,0.058337,0.00171731,0.132491,0.000616953,0.367752,0.113563,0.458334,0.12497,3.44219e-10,0.0821811,0.35171,0.279549,0.0984834,0.284421,0.134585,0.00495141,0.751141,0.704995,0.0245454,0.0390861,0.391162,0.659829,0.0105398,0.40466,0.401507,0.116263,0.281389,0.34295,0.308086,0.00119131,0.0117977,0.0113238,0.00370923,0.684866,0.0216683,0.0248044,0.744931,0.0972319,5.25713e-08,1.74386e-07,0.451787,0.000396324,0.0774016,0.107763,0.542303,0.00676969,0.120762,0.0129706,0.189803,0.341975,0.000760489,0.547149,0.00107812,0.0678774,0.24821,0.000839504,0.501908,0.401378,0.478352,3.6594e-08,0.32181,9.59122e-05,0.000476818,0.0645985,0.000147015,0.000211566,0.0786619,9.41013e-06,0.664234,9.61565e-09,4.43971e-06,1.19858e-06,3.17739e-05,1.58992e-05,0.0996414,0.00204669,0.415502,0.565657,0.499305,0.726141,0.000601199,0.311148,0.327011,0.299176,0.000303533,0.210121,0.585578,0.640275,0.341296,0.12574,0.258349,0.0446309,0.0141165,0.585566,0.373172,0.0081158,0.000313932,0.000525821,0.706206,0.505417,0.596462,0.10758,0.619962,0.000467929,0.681127,0.0312505,0.32842,0.00255765,0.443364,0.715629,0.357569,0.425138,0.00463368,1.51759e-06,2.05841e-05,0.167778,0.294507,0.0054737,0.346938,0.40211,0.183851,0.0608535,0.0693025,0.0752761,0.243885,0.000929559,0.00867351,0.34698,0.0919405,0.10637,0.321679,0.283731,0.466416,0.099702,0.171664,0.300829,0.748565,0.635414,0.528332,0.21448,0.209988,0.474724,0.0245282,0.210935,0.0540539,0.216179,0.68023,0.231021,0.490466,0.311129,0.0154144,0.487711,0.115502,0.00164237,0.400622,0.391073,0.426674,8.35051e-05,0.575489,0.175413,0.540565,0.131293,0.000165327,0.333846,0.525188,0.0938213,0.52794,0.67786,0.00469564,0.646027,0.620377,0.0945637,0.00190336,0.680876,0.00287299,0.256934,0.0521131,0.0894143,0.415214,0.364157,0.172412,0.53064,0.415017,0.0769041,0.0136926,0.155446,0.0861933,0.159832,0.162096,0.338978,0.0885946,0.339879,0.00294285,0.103879,0.197678,0.208523,0.34551,0.4924,0.304359,0.497662,0.103429,0.749185,0.369586,0.394729,0.0214171,0.444932,0.622992,0.580249,0.436618,0.0952884,0.0849422,0.0385292,0.0960556,0.0744027,9.47811e-05,0.0389664,0.370442,0.451398,0.533438,0.188364,0.279598,0.420279,0.485091,0.0218266,0.150111,0.420451,0.0370381,0.244241,0.307495,0.00352111,0.3382,0.454846,0.350305,0.0875262,0.147486,0.117583,0.00550491,0.166405,0.0979857,0.634608,0.324846,0.0366694,0.215261,0.235004,0.133496,0.433115,0.331422,0.0212514,0.397558,0.266168,0.504119,0.00191803,0.371725,0.334024,0.500457,0.316975,0.112486,0.000295923,0.0125891,0.380153,0.160696,0.155054,0.0351325,0.0999718,0.42955,0.103456,0.0504066,0.393729,0.487504,0.249956,0.447581,0.482721,0.0735224,0.406625,0.296254,0.00191132,0.135855,0.0607565,0.279523,0.153383,0.444635,0.0728075,0.011135,0.211724,0.409573,0.0575627,0.536787,0.436872,0.181464,0.40945,0.0291553,0.120636,0.121001,0.00701126,0.015845,0.0924531,0.120918,0.593272,0.507382,0.106985,0.384398,0.128819,0.387627,0.0171689,0.214126,0.143317,0.261663,0.14273,0.0280364,0.147968,0.168955,0.0418456,0.236422,0.0999117,0.149301,0.196723,0.0836477,0.287028,0.413461,0.050072,0.187007,0.630108,0.299959,0.160183,0.0329198,0.406059,0.452427,0.56256,0.0320119,0.366448,0.0443628,0.0361842,0.043754,0.335456,0.0175128,0.404559,0.545676,0.467154,0.233968,0.0341371,0.113392,0.119023,0.248584,0.397145,0.390152,0.537963,0.182951,0.488863,0.342785,0.447064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}}
}}

Revision as of 11:02, 19 October 2012


Full id: C1242_Mast_anaplastic_putamen_caudate_nucleus_occipital_insula



Phase1 CAGE Peaks

Hg19::chr19:47105424..47105433,+p32@CALM3
Hg19::chr3:171178035..171178046,-p7@TNIK
Hg19::chr3:71181437..71181451,-p@chr3:71181437..71181451
-
Hg19::chr8:22550045..22550063,-p8@EGR3
Hg19::chr8:22550509..22550526,-p6@EGR3
Hg19::chr8:22550530..22550609,-p2@EGR3
Hg19::chr8:22550700..22550717,-p4@EGR3


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:0007274neuromuscular synaptic transmission0.0445020006415389
GO:0007422peripheral nervous system development0.0477843731091476
GO:0007623circadian rhythm0.0477843731091476



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
telencephalon9.04e-8534
cerebral hemisphere1.12e-8432
regional part of forebrain4.48e-7941
forebrain4.48e-7941
anterior neural tube4.48e-7941
future forebrain4.48e-7941
regional part of telencephalon1.18e-7832
brain grey matter1.02e-7334
gray matter1.02e-7334
regional part of cerebral cortex3.83e-7022
regional part of nervous system2.89e-6753
regional part of brain2.89e-6753
neocortex1.31e-6320
neural tube2.98e-6356
neural rod2.98e-6356
future spinal cord2.98e-6356
neural keel2.98e-6356
cerebral cortex2.39e-6125
pallium2.39e-6125
brain3.24e-5368
future brain3.24e-5368
pre-chordal neural plate8.47e-5161
central nervous system5.24e-4981
nervous system7.83e-4689
neural plate1.24e-4082
presumptive neural plate1.24e-4082
neurectoderm2.34e-3886
adult organism7.79e-35114
ecto-epithelium2.36e-32104
structure with developmental contribution from neural crest1.31e-28132
basal ganglion1.27e-249
nuclear complex of neuraxis1.27e-249
aggregate regional part of brain1.27e-249
collection of basal ganglia1.27e-249
cerebral subcortex1.27e-249
ectoderm-derived structure2.04e-22171
ectoderm2.04e-22171
presumptive ectoderm2.04e-22171
gyrus1.31e-216
organ system subdivision3.06e-19223
telencephalic nucleus2.42e-187
parietal lobe3.96e-185
temporal lobe5.73e-186
limbic system5.81e-185
occipital lobe1.20e-175
tube1.16e-15192
corpus striatum1.54e-154
striatum1.54e-154
ventral part of telencephalon1.54e-154
future corpus striatum1.54e-154
neural nucleus4.22e-149
nucleus of brain4.22e-149
anatomical conduit1.86e-12240
caudate-putamen4.78e-123
dorsal striatum4.78e-123
frontal cortex1.49e-113
anatomical cluster1.95e-09373
multi-tissue structure4.08e-09342
caudate nucleus1.43e-082
future caudate nucleus1.43e-082
organ part1.61e-08218
epithelium1.66e-08306
middle temporal gyrus2.05e-082
cell layer2.46e-08309
middle frontal gyrus2.82e-082
Ammon's horn4.31e-082
lobe parts of cerebral cortex4.31e-082
hippocampal formation4.31e-082
limbic lobe4.31e-082
amygdala4.46e-082
globus pallidus1.02e-072
pallidum1.02e-072
meninx1.53e-072
membrane organ1.53e-072
meningeal cluster1.53e-072


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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