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Coexpression cluster:C2149: Difference between revisions

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|full_id=C2149_Pericytes_spinal_kidney_cerebral_temporal_duodenum_retina
|full_id=C2149_Pericytes_spinal_kidney_cerebral_temporal_duodenum_retina
|id=C2149
|id=C2149
|ontology_enrichment_celltype=CL:0002575!1.31e-07!2
|ontology_enrichment_celltype=CL:0002575!3.64e-09!2
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!2.21e-103!57;UBERON:0005068!2.21e-103!57;UBERON:0006241!2.21e-103!57;UBERON:0007135!2.21e-103!57;UBERON:0002616!4.92e-94!59;UBERON:0001017!4.67e-88!82;UBERON:0005743!3.69e-87!86;UBERON:0000955!2.39e-85!69;UBERON:0006238!2.39e-85!69;UBERON:0000073!6.73e-81!94;UBERON:0001016!6.73e-81!94;UBERON:0002780!2.13e-78!41;UBERON:0001890!2.13e-78!41;UBERON:0006240!2.13e-78!41;UBERON:0003080!2.43e-76!42;UBERON:0003075!9.13e-75!86;UBERON:0007284!9.13e-75!86;UBERON:0002346!6.64e-71!90;UBERON:0002020!2.43e-65!34;UBERON:0003528!2.43e-65!34;UBERON:0001893!7.76e-65!34;UBERON:0002791!3.09e-62!33;UBERON:0007023!2.52e-60!115;UBERON:0001869!5.89e-60!32;UBERON:0003056!3.03e-53!61;UBERON:0002619!1.39e-48!22;UBERON:0000033!1.80e-47!123;UBERON:0000153!1.15e-46!129;UBERON:0007811!1.15e-46!129;UBERON:0001950!9.56e-44!20;UBERON:0000956!2.66e-42!25;UBERON:0000203!2.66e-42!25;UBERON:0004121!1.28e-39!169;UBERON:0000924!2.10e-38!173;UBERON:0006601!2.10e-38!173;UBERON:0003076!1.58e-26!15;UBERON:0003057!1.58e-26!15;UBERON:0002308!7.45e-25!9;UBERON:0000125!7.45e-25!9;UBERON:0002420!6.34e-24!9;UBERON:0007245!6.34e-24!9;UBERON:0010009!6.34e-24!9;UBERON:0010011!6.34e-24!9;UBERON:0000454!6.34e-24!9;UBERON:0000025!5.09e-22!194;UBERON:0004732!5.19e-21!13;UBERON:0009663!2.93e-19!7;UBERON:0004733!8.58e-19!12;UBERON:0002028!8.58e-19!12;UBERON:0007277!8.58e-19!12;UBERON:0002298!5.56e-18!8;UBERON:0001871!3.11e-16!7;UBERON:0000200!6.75e-16!6;UBERON:0004111!2.04e-15!241;UBERON:0000477!4.23e-15!286;UBERON:0001894!1.69e-14!7;UBERON:0006222!1.69e-14!7;UBERON:0001872!5.15e-14!5;UBERON:0000349!1.18e-13!5;UBERON:0000483!2.75e-13!309;UBERON:0000119!4.88e-13!312;UBERON:0000475!7.95e-13!365;UBERON:0000064!4.27e-12!219;UBERON:0000369!8.47e-12!4;UBERON:0002435!8.47e-12!4;UBERON:0000204!8.47e-12!4;UBERON:0010082!8.47e-12!4;UBERON:0002680!2.28e-11!9;UBERON:0001895!2.28e-11!9;UBERON:0010092!2.28e-11!9;UBERON:0000988!3.91e-10!3;UBERON:0001896!5.60e-10!3;UBERON:0005290!5.60e-10!3;UBERON:0010096!5.60e-10!3;UBERON:0002240!6.50e-10!3;UBERON:0000062!7.81e-10!511;UBERON:0002021!1.12e-09!5;UBERON:0006331!1.20e-09!3;UBERON:0005383!2.78e-09!3;UBERON:0005382!2.78e-09!3;UBERON:0002771!1.56e-08!3;UBERON:0002360!2.43e-07!2;UBERON:0000094!2.43e-07!2;UBERON:0007645!2.43e-07!2;UBERON:0002148!2.66e-07!2;UBERON:0009662!2.66e-07!2;UBERON:0000481!3.29e-07!347;UBERON:0003296!5.36e-07!4;UBERON:0010133!5.36e-07!4;UBERON:0001897!6.32e-07!2;UBERON:0001875!8.22e-07!2;UBERON:0006514!8.22e-07!2;UBERON:0001873!8.96e-07!2;UBERON:0010122!8.96e-07!2
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00794117,0.118999,0.0737069,0.357807,0.0752771,0.178782,0.019419,0.00386504,0.271849,0.282657,0.105411,0.0997542,0.209692,0.248936,0.0725263,0.102587,0.00282365,0.0552936,0.0457886,0.0514927,0.324236,0.220368,0.258624,0.064656,0.226143,0.460406,0.0438521,0.435508,0.281453,0.0522771,0.0787278,0.515487,0.159873,0.142462,2.14704e-05,0.332403,0.0379537,0.6545,0.187953,0.051459,0.114868,0.0726892,0.0187556,0.32305,0.278397,0.245002,0.170848,0.487259,0.302909,0.363016,0.100188,0.223102,0.107653,0.235857,0.419621,0.191914,8.25648e-08,0.216557,0.182956,0.116818,0.389792,0.36316,0.0625685,0.124464,0.186295,0.173134,0.00537703,0.142875,0.167635,0.171311,0.458838,1.69874e-07,0.0685131,0.130287,0.0661526,0.0815772,0.0993937,0.122878,0.187329,0.0451012,0.0976639,0.0705088,0.833813,3.24841e-07,0.278645,0.365775,0.155708,0.248017,0.028736,0.652972,0.0760151,0.0629459,0.486024,0.0803251,0.226641,0.012683,0.0939463,0.286748,0.367925,0.0471607,0.163865,0.226359,0.108863,0.974549,0.265324,0.279778,0.141699,0.0887743,0.142302,0.0653269,0.125712,0.264432,0.0994829,0.0604041,0.144185,0.0925862,0.0466818,0.199201,0.049937,0.172796,0.0595495,0.071232,0.149346,0.121978,0.22302,0.137423,0.0448074,0.0754883,0.299492,0.100006,0.362866,0.197817,0.251078,0.279874,0.133127,0.410303,0.223717,0.426452,0.196838,0.0826805,0.246601,0.193021,0.608002,0.202165,0.0946865,0.120618,0.079499,0.18762,0.195618,0.127688,0.201169,0.220353,0.24948,0.178639,0.291976,0.00720587,0.364334,0.15547,0.110256,0.0173373,0.14794,0.147307,0.240761,0.225961,0.124417,0.00840896,0.317428,0.182843,0.130771,0.327768,0.135777,0.147842,0.0339286,0.217363,0.119015,0.00134589,0.21618,0.0323312,0.107021,0.238657,0.20272,0.0142611,0.248134,0.0780061,0.315336,0.230477,0.279823,0.295555,0.502112,0.724669,0.0478217,0.507599,0.170854,0.0575231,0.174063,0.514243,2.92607e-07,0.189333,0.0338476,0.296013,0.282366,0.181196,0.459994,0.523209,0.189126,0.00024426,0.000666016,0.45013,0.153911,0.472542,0.685908,0.399934,0.529642,0.0301009,0.483077,0.00226518,0.23695,0.541914,0.259354,0.765905,0.757308,0.290703,0.0757071,0.0101088,0.0284983,0.360199,0.608176,0.657141,0.0323345,0.0768516,0.212703,0.56318,0.364079,0.107716,0.579886,0.421038,0.569409,0.00783381,0.187186,0.310552,0.0529131,0.483764,0.103928,0.19941,0.209437,0.0118712,0.161672,0.0651244,0.0016718,0.464001,0.0572812,0.579004,0.870272,0.839946,0.860705,0.000276758,0.257956,0.0384726,0.379063,0.326516,0.0069676,0.436016,0.475063,0.202522,0.183837,9.5659e-05,0.126097,1.47028e-05,0.442469,0.212239,0.294954,3.09341e-05,0.35974,0.301684,0.39549,0.234254,0.0103854,0.146291,0.365184,0.00575146,0.252827,0.0958848,0.0151906,0.424691,0.357704,0.479581,0.000552112,0.0682871,0.0854676,0.284496,0.0364381,0.512178,0.563206,0.829402,0.0299859,0.0381838,0.00018807,0.0174164,0.775168,0.216102,0.254659,0.109605,0.0149457,0.0121932,0.226491,0.417131,0.129731,0.627953,0.503881,0.124057,0.639483,0.142363,0.00339209,0.301581,0.261657,0.346776,0.466529,1.89949e-05,0.0208637,0.0696091,0.391754,0.385425,0.307816,0.461541,0.0866806,0.0131065,0.00249494,0.00448414,0.611661,0.319747,0.475047,0.557967,5.19113e-09,0.282281,0.0710918,0.2536,0.0333324,0.202347,0.347466,0.0870695,0.559969,9.99722e-05,0.303004,0.574252,0.148933,0.346636,0.457747,0.0694762,0.476541,0.215342,0.0032303,0.0187686,0.0355841,0.713293,0.0286377,0.102411,0.264955,0.0828233,0.0120675,0.0384092,0.22798,0.102495,0.0703938,0.263896,0.0446972,0.24452,0.0613938,0.242783,0.0947248,0.336551,0.210656,0.246234,0.211271,0.281295,0.267248,0.118257,1.19425e-05,0.215123,0.321224,0.469461,0.00757805,0.266651,0.0460393,0.231754,0.0340704,0.283107,0.285648,0.0025865,0.0890097,0.00037101,0.000250206,0.240967,0.160955,0.256687,0.0432189,0.122439,0.16188,0.23235,0.0469743,0.353147,0.112422,0.170886,0.039537,0.315656,0.284866,0.0887542,0.267811,0.338547,0.147872,0.189388,0.293546,0.210125,0.292967,0.218414,0.0509944,0.0871471,0.0689852,0.0602698,0.341188,0.259328,0.0207461,0.201057,0.15696,0.129351,0.141936,0.0786166,0.276997,0.205513,0.282389,0.00326229,0.162089,0.00796989,0.387837,0.233244,0.207281,0.00774558,0.195748,0.27845,0.161712,0.237871,0.239139,0.095257,0.328852,0.332769,0.262022,0.274403,0.266687,0.184534,0.248707,0.0567862,0.15156,0.287598,0.313858,0.0271466,0.25788,0.181895,0.253768,0.00626086,0.202977,0.170837,0.00771419,0.28543,0.222656,0.228479,0.127111,0.259989,0.390754,0.355805,0.279739,0.108118,0.259901,0.139723,0.0708274,0.0710478,0.196248,0.102645,0.0539258,0.0709978,0.401939,0.00817441,0.271338,0.242121,0.298673,0.00297709,0.106889,0.128632,0.0845989,0.159153,0.0842401,0.13698,0.0874421,0.100355,0.167854,0.142846,0.0583767,0.088258,0.117657,0.0486914,0.175784,0.262778,0.373453,0.0109087,0.433518,0.184359,0.0634867,0.325785,0.257476,0.291176,0.00142707,0.322827,0.000156623,0.359036,0.335984,0.171704,0.208256,0.265058,0.256405,0.0756763,0.302133,0.40806,0.151361,0.000371318,0.286696,0.150674,0.000231487,0.246177,0.35674,0.0737175,0.318525,0.213257,0.0458843,0.122782,0.410951,0.289049,0.26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}}
}}

Revision as of 12:07, 19 October 2012


Full id: C2149_Pericytes_spinal_kidney_cerebral_temporal_duodenum_retina



Phase1 CAGE Peaks

Hg19::chr11:62752220..62752231,-p4@SLC22A6
Hg19::chr11:62752254..62752272,-p2@SLC22A6
Hg19::chr11:62752284..62752304,-p3@SLC22A6
Hg19::chr11:62752310..62752313,-p7@SLC22A6


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
central nervous system pericyte3.64e-092
Uber Anatomy
Ontology termp-valuen
neural tube2.72e-10756
neural rod2.72e-10756
future spinal cord2.72e-10756
neural keel2.72e-10756
regional part of nervous system5.86e-9753
regional part of brain5.86e-9753
central nervous system2.82e-8681
brain7.07e-8168
future brain7.07e-8168
nervous system7.98e-7789
neural plate1.88e-7482
presumptive neural plate1.88e-7482
regional part of forebrain2.77e-7341
forebrain2.77e-7341
anterior neural tube2.77e-7341
future forebrain2.77e-7341
neurectoderm1.44e-7086
brain grey matter5.81e-6234
gray matter5.81e-6234
telencephalon2.18e-6134
ecto-epithelium9.59e-57104
cerebral hemisphere1.33e-5532
regional part of telencephalon2.46e-5532
adult organism2.26e-54114
pre-chordal neural plate9.88e-5161
structure with developmental contribution from neural crest1.97e-47132
regional part of cerebral cortex2.03e-4022
neocortex3.01e-3920
ectoderm-derived structure1.05e-37171
ectoderm1.05e-37171
presumptive ectoderm1.05e-37171
cerebral cortex2.88e-3525
pallium2.88e-3525
posterior neural tube1.38e-3315
chordal neural plate1.38e-3315
neural nucleus1.61e-309
nucleus of brain1.61e-309
basal ganglion1.98e-299
nuclear complex of neuraxis1.98e-299
aggregate regional part of brain1.98e-299
collection of basal ganglia1.98e-299
cerebral subcortex1.98e-299
organ system subdivision6.27e-28223
tube1.10e-24192
segmental subdivision of hindbrain1.14e-2312
hindbrain1.14e-2312
presumptive hindbrain1.14e-2312
telencephalic nucleus2.05e-237
brainstem7.69e-236
segmental subdivision of nervous system1.02e-2113
anatomical conduit8.51e-18240
anatomical cluster2.15e-15373
regional part of metencephalon3.05e-149
metencephalon3.05e-149
future metencephalon3.05e-149
corpus striatum4.20e-144
striatum4.20e-144
ventral part of telencephalon4.20e-144
future corpus striatum4.20e-144
diencephalon6.67e-137
future diencephalon6.67e-137
epithelium8.60e-13306
cell layer1.43e-12309
temporal lobe1.57e-126
pons2.12e-123
spinal cord3.09e-123
dorsal region element3.09e-123
dorsum3.09e-123
medulla oblongata3.45e-123
myelencephalon3.45e-123
future myelencephalon3.45e-123
occipital lobe8.27e-125
organ part1.27e-11218
parietal lobe1.42e-115
limbic system1.73e-115
multi-tissue structure3.40e-11342
caudate-putamen6.77e-113
dorsal striatum6.77e-113
gyrus1.99e-096
regional part of diencephalon7.12e-094
locus ceruleus7.58e-092
brainstem nucleus7.58e-092
hindbrain nucleus7.58e-092
meninx7.87e-092
membrane organ7.87e-092
meningeal cluster7.87e-092
organ1.45e-08503
dorsal plus ventral thalamus2.01e-082
thalamic complex2.01e-082
globus pallidus4.51e-082
pallidum4.51e-082
caudate nucleus8.58e-082
future caudate nucleus8.58e-082
amygdala1.02e-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)

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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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