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Coexpression cluster:C286: Difference between revisions

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|full_id=C286_cerebellum_occipital_optic_parietal_globus_caudate_medial
|full_id=C286_cerebellum_occipital_optic_parietal_globus_caudate_medial
|id=C286
|id=C286
|ontology_enrichment_celltype=CL:0000055!3.36e-14!180;CL:0000136!3.63e-08!15;CL:0000393!1.56e-07!60;CL:0000211!1.56e-07!60;CL:0000680!1.83e-07!57;CL:0000056!1.83e-07!57;CL:0000355!1.83e-07!57;CL:0000187!8.80e-07!54
|ontology_enrichment_celltype=CL:0000136!2.59e-10!15
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!8.52e-33!115;UBERON:0001049!1.33e-29!57;UBERON:0005068!1.33e-29!57;UBERON:0006241!1.33e-29!57;UBERON:0007135!1.33e-29!57;UBERON:0001017!4.40e-29!82;UBERON:0000073!5.39e-29!94;UBERON:0001016!5.39e-29!94;UBERON:0005743!6.20e-29!86;UBERON:0002616!7.61e-28!59;UBERON:0002346!2.28e-26!90;UBERON:0003075!1.25e-25!86;UBERON:0007284!1.25e-25!86;UBERON:0000955!2.01e-25!69;UBERON:0006238!2.01e-25!69;UBERON:0003080!2.99e-23!42;UBERON:0002780!9.64e-23!41;UBERON:0001890!9.64e-23!41;UBERON:0006240!9.64e-23!41;UBERON:0000924!5.89e-21!173;UBERON:0006601!5.89e-21!173;UBERON:0000475!1.83e-20!365;UBERON:0004121!3.80e-20!169;UBERON:0002020!6.36e-20!34;UBERON:0003528!6.36e-20!34;UBERON:0001893!8.13e-20!34;UBERON:0000153!1.12e-19!129;UBERON:0007811!1.12e-19!129;UBERON:0002791!3.09e-19!33;UBERON:0000033!5.65e-19!123;UBERON:0001869!1.38e-18!32;UBERON:0003056!1.94e-18!61;UBERON:0002619!3.30e-15!22;UBERON:0000481!1.39e-14!347;UBERON:0000956!2.93e-14!25;UBERON:0000203!2.93e-14!25;UBERON:0001950!5.51e-14!20;UBERON:0000025!7.71e-13!194;UBERON:0000483!1.25e-12!309;UBERON:0000119!1.29e-12!312;UBERON:0000477!3.38e-12!286;UBERON:0004111!1.19e-11!241;UBERON:0000914!1.87e-09!83;UBERON:0002329!1.87e-09!83;UBERON:0003077!1.87e-09!83;UBERON:0003059!1.87e-09!83;UBERON:0007282!1.87e-09!83;UBERON:0009618!1.87e-09!83;UBERON:0007285!1.87e-09!83;UBERON:0004290!5.22e-09!70;UBERON:0002385!6.58e-09!63;UBERON:0001015!6.58e-09!63;UBERON:0000383!6.58e-09!63;UBERON:0001134!1.11e-08!61;UBERON:0002036!1.11e-08!61;UBERON:0003082!1.11e-08!61;UBERON:0000468!4.19e-08!659;UBERON:0003076!1.56e-07!15;UBERON:0003057!1.56e-07!15;UBERON:0002308!3.47e-07!9;UBERON:0000125!3.47e-07!9;UBERON:0002420!4.66e-07!9;UBERON:0007245!4.66e-07!9;UBERON:0010009!4.66e-07!9;UBERON:0010011!4.66e-07!9;UBERON:0000454!4.66e-07!9
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9006,0.965491,0.528559,0.944097,0.821517,0.39618,0.998393,0.717666,0.453405,0.602475,0.987787,0.312436,0.250455,0.52162,0.831507,0.352925,0.979092,0.903886,0.448073,0.746581,0.572157,0.903039,0.278281,0.0130814,0.957646,0.622362,0.999455,0.912681,0.993742,0.695066,0.31698,0.722347,0.804739,0.94321,0.90903,0.898519,0.935793,0.66292,0.752789,0.974688,0.96207,0.516585,0.775826,0.998583,0.630255,0.701504,0.823499,0.154642,0.879245,0.999869,0.99343,0.549973,0.209024,0.536976,0.616089,0.692023,0.771215,0.676816,0.404995,0.685302,0.863697,0.999777,0.999905,0.881446,0.963509,0.851048,0.398977,0.947114,0.978434,0.589106,0.51877,0.99944,0.61016,0.944501,0.782278,0.670404,0.892757,0.888262,0.419274,0.866461,0.327533,1,1,0.968841,0.311274,0.820755,0.648608,7.39627e-32,0.532349,0.779396,0.670753,0.692366,0.503879,0.256467,0.664795,0.738463,0.712524,0.438028,0.881656,0.498779,0.564532,0.837922,0.768563,0.775453,0.810449,0.724349,0.586463,0.908746,0.694371,0.993725,0.916232,0.409169,0.97512,0.799554,0.98176,4.98953e-26,0.434428,0.705652,0.621246,0.958645,0.694303,0.999693,1.33403e-08,0.673421,0.764495,0.606202,0.20834,0.913612,0.784941,0.920087,0.530614,0.832496,0.890728,0.744459,0.930644,0.962722,0.850577,0.731321,0.720219,0.834884,0.833498,0.815115,0.943949,0.775693,0.989943,0.98638,0.662554,0.793338,0.822786,0.806339,0.537109,0.321807,0.761537,0.759622,0.99911,0.935444,0.820246,0.720124,0.953465,0.921815,0.810044,0.994101,0.598957,0.797805,0.564906,0.975101,0.904032,0.996537,0.999685,0.42379,0.999654,0.622383,0.486494,0.633427,0.999703,0.999005,8.54438e-07,0.984515,0.90459,0.991291,0.991988,0.262082,0.96621,0.999868,0.963119,0.0844641,0.990753,0.984099,0.974458,0.996335,0.999405,0.0900399,0.999968,0.862256,0.99952,0.947062,0.772717,0.998887,0.999991,1,0.53955,0.999793,0.998686,0.976899,5.77692e-06,0.824589,0.997782,0.999659,0.751111,0.932148,0.99991,0.993858,0.995751,0.639086,0.86155,0.959206,0.937919,0.993106,0.920975,0.99999,0.863382,0.999923,0.999435,0.928914,0.999567,0.999424,0.0181958,0.999955,0.919053,0.999993,0.996554,0.999971,0.998583,1,0.967005,0.651774,0.968323,0.0013352,0.988287,0.989348,0.988156,2.39834e-05,0.921597,0.400071,0.996882,0.780486,0.97686,0.959215,0.748386,0.980392,0.572287,0.99337,0.998315,0.996526,0.0841881,0.958731,0.999991,0.988683,0.671021,0.960198,0.692086,0.996024,0.985632,0.75127,0.741471,0.985798,0.999878,0.999244,0.72559,0.0187197,0.987032,0.995177,0.999165,0.996239,0.967863,0.993935,0.655709,0.999952,0.758349,0.963357,0.729103,0.923601,0.967314,0.551534,0.983697,0.992803,0.995521,0.984963,0.966162,0.989086,0.978726,0.964763,0.982368,0.967046,0.70435,0.971867,0.279308,0.998476,0.992021,0.657376,6.01061e-05,1.77852e-06,0.916351,0.189715,0.995616,0.991551,0.933877,0.999722,0.148351,0.99929,0.998955,0.979446,0.97604,0.981177,0.962767,0.958784,4.00329e-13,0.99989,0.995946,0.952472,0.993261,0.964178,0.999933,0.995888,0.0102446,0.991935,0.953268,0.994304,0.11799,0.229784,0.867898,0.96334,0.99991,0.977147,0.997687,0.791259,0.780437,0.933067,0.26496,0.787139,0.703746,0.0594852,0.00900709,0.0946107,0.0419092,0.825674,0.956225,0.673576,0.944441,0.277378,0.393043,3.99081e-125,0.975667,0.863917,0.757284,0.777616,0.755852,1.38825e-05,0.924811,0.159582,0.0644437,0.39823,0.948492,0.960349,0.721991,0.977275,1.12663e-47,0.484845,0.882761,0.424338,0.955029,0.861137,5.94299e-17,0.391666,0.769924,0.590378,0.347109,0.897577,5.48666e-10,0.73859,0.622496,0.969951,0.257877,0.976993,0.0888783,0.86483,0.188609,0.834736,0.905779,3.68732e-06,0.929607,0.000739079,0.301913,0.445024,0.641483,0.552533,0.503081,0.990858,0.965858,0.0652991,0.91996,0.853516,0.00533691,0.821312,0.601935,0.973979,0.924842,0.97608,0.632021,0.863234,3.24419e-87,0.995998,0.799031,0.926703,0.936963,0.443487,0.974561,0.589761,0.952922,0.811731,0.675728,0.938203,0.941447,0.663759,0.875149,0.14101,0.899233,0.959927,0.986394,0.842607,0.89389,0.985557,0.94214,0.431835,0.895503,0.84056,0.779782,0.723271,0.162788,0.936618,0.977196,0.774574,2.49016e-06,0.783335,0.851707,0.916136,0.230141,0.311159,0.72397,0.966154,0.816059,0.562393,0.563559,0.703918,0.344017,0.464008,0.563295,0.684879,0.83214,0.286147,0.0963719,0.907781,0.610128,0.363136,0.203554,0.630062,0.857745,0.628428,0.493384,0.642785,0.695701,0.873454,0.517253,0.491702,0.0877048,0.755421,0.429683,0.886378,0.261361,0.994803,0.880928,3.81667e-06,0.0295758,0.942813,1.43517e-28,0.964885,0.979176,0.439176,0.987544,0.790788,0.993288,0.944,0.879888,0.927709,0.968714,0.964311,0.572012,0.768693,0.839547,0.84219,0.882836,0.892687,0.548156,0.228953,0.958382,0.958327,0.959395,0.804435,0.751041,0.0405667,2.4218e-05,0.000160086,0.190083,0.273415,0.446124,0.740157,0.821594,0.536578,0.925334,0.991321,0.669282,0.69549,0.797586,0.180911,0.78582,0.923211,0.878623,0.811415,0.859738,6.53083e-51
}}
}}

Revision as of 14:30, 19 October 2012


Full id: C286_cerebellum_occipital_optic_parietal_globus_caudate_medial



Phase1 CAGE Peaks

Hg19::chr12:2944396..2944456,-p2@NRIP2
Hg19::chr15:31770272..31770297,-p1@LOC283713
Hg19::chr15:41576157..41576168,+p1@ENST00000558457
p1@ENST00000558945
Hg19::chr15:68871151..68871206,+p4@CORO2B
Hg19::chr15:83349215..83349224,-p6@AP3B2
Hg19::chr17:77086942..77086969,-p@chr17:77086942..77086969
-
Hg19::chr19:35630530..35630544,+p8@FXYD1
Hg19::chr19:6496061..6496072,-p@chr19:6496061..6496072
-
Hg19::chr2:39944930..39944941,+p@chr2:39944930..39944941
+
Hg19::chr7:127807707..127807735,+p@chr7:127807707..127807735
+
Hg19::chr7:78995180..78995184,-p@chr7:78995180..78995184
-
Hg19::chrX:139865330..139865375,+p3@AK054921
Hg19::chrX:139865378..139865502,+p2@AK054921
Hg19::chrX:139865504..139865511,+p9@AK054921
Hg19::chrX:139865512..139865534,+p5@AK054921
Hg19::chrX:139865537..139865548,+p8@AK054921
Hg19::chrX:139865549..139865571,+p4@AK054921
Hg19::chrX:139865584..139865721,+p1@AK054921
Hg19::chrX:139865729..139865742,+p7@AK054921
Hg19::chrX:139865777..139865788,+p10@AK054921
Hg19::chrX:139865816..139865840,+p6@AK054921
Hg19::chrX:139865845..139865894,+p@chrX:139865845..139865894
+
Hg19::chrX:139865901..139865949,+p@chrX:139865901..139865949
+
Hg19::chrX:139865951..139865954,+p@chrX:139865951..139865954
+
Hg19::chrX:139865977..139866003,+p@chrX:139865977..139866003
+
Hg19::chrX:139866014..139866036,+p@chrX:139866014..139866036
+
Hg19::chrX:139866041..139866089,+p@chrX:139866041..139866089
+
Hg19::chrX:139866092..139866140,+p@chrX:139866092..139866140
+
Hg19::chrX:139866145..139866181,+p@chrX:139866145..139866181
+
Hg19::chrX:139866182..139866193,+p@chrX:139866182..139866193
+
Hg19::chrX:139866201..139866208,+p@chrX:139866201..139866208
+
Hg19::chrX:139866235..139866251,+p@chrX:139866235..139866251
+
Hg19::chrX:139866285..139866318,+p@chrX:139866285..139866318
+
Hg19::chrX:139866325..139866336,+p@chrX:139866325..139866336
+
Hg19::chrX:139866361..139866428,+p@chrX:139866361..139866428
+
Hg19::chrX:139866444..139866469,+p@chrX:139866444..139866469
+
Hg19::chrX:139866474..139866484,+p@chrX:139866474..139866484
+
Hg19::chrX:139866489..139866516,+p@chrX:139866489..139866516
+
Hg19::chrX:139866541..139866552,+p@chrX:139866541..139866552
+
Hg19::chrX:139866560..139866578,+p@chrX:139866560..139866578
+
Hg19::chrX:139866580..139866589,+p@chrX:139866580..139866589
+
Hg19::chrX:139866595..139866724,+p@chrX:139866595..139866724
+
Hg19::chrX:139866734..139866760,+p@chrX:139866734..139866760
+
Hg19::chrX:139866762..139866765,+p@chrX:139866762..139866765
+
Hg19::chrX:139866776..139866793,+p@chrX:139866776..139866793
+


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
fat cell2.59e-1015
Uber Anatomy
Ontology termp-valuen
adult organism2.09e-42114
neural tube3.90e-3956
neural rod3.90e-3956
future spinal cord3.90e-3956
neural keel3.90e-3956
regional part of nervous system1.75e-3653
regional part of brain1.75e-3653
neurectoderm5.83e-3486
central nervous system1.97e-3381
neural plate5.01e-3382
presumptive neural plate5.01e-3382
nervous system4.58e-3289
regional part of forebrain3.12e-3141
forebrain3.12e-3141
anterior neural tube3.12e-3141
future forebrain3.12e-3141
brain6.71e-2968
future brain6.71e-2968
brain grey matter3.77e-2834
gray matter3.77e-2834
telencephalon5.63e-2834
structure with developmental contribution from neural crest2.27e-26132
regional part of telencephalon3.16e-2632
cerebral hemisphere4.15e-2632
ecto-epithelium8.48e-24104
pre-chordal neural plate1.11e-2361
regional part of cerebral cortex4.18e-2222
ectoderm-derived structure2.63e-20171
ectoderm2.63e-20171
presumptive ectoderm2.63e-20171
neocortex2.74e-2020
cerebral cortex1.33e-1925
pallium1.33e-1925
organ system subdivision4.71e-18223
multi-tissue structure3.66e-14342
anatomical cluster3.95e-13373
tube8.78e-11192
epithelium1.47e-10306
anatomical conduit1.92e-10240
cell layer3.83e-10309
neural nucleus4.39e-109
nucleus of brain4.39e-109
multi-cellular organism5.35e-10656
basal ganglion7.10e-109
nuclear complex of neuraxis7.10e-109
aggregate regional part of brain7.10e-109
collection of basal ganglia7.10e-109
cerebral subcortex7.10e-109
posterior neural tube4.72e-0915
chordal neural plate4.72e-0915
organ part1.51e-08218
telencephalic nucleus3.37e-087
germ layer6.77e-08560
germ layer / neural crest6.77e-08560
embryonic tissue6.77e-08560
presumptive structure6.77e-08560
germ layer / neural crest derived structure6.77e-08560
epiblast (generic)6.77e-08560
embryonic structure6.88e-08564
segmental subdivision of nervous system1.36e-0713
temporal lobe1.39e-076
gyrus4.05e-076
brainstem6.04e-076


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

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