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|full_id=C3010_caudate_putamen_argyrophil_temporal_parietal_globus_duodenum
|full_id=C3010_caudate_putamen_argyrophil_temporal_parietal_globus_duodenum
|id=C3010
|id=C3010
|ontology_enrichment_celltype=CL:0000047!2.07e-15!8;CL:0000540!6.68e-12!6;CL:0000031!6.68e-12!6;CL:0000404!6.68e-12!6;CL:0002322!1.88e-10!5
|ontology_enrichment_celltype=CL:0002322!2.16e-12!5
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!3.69e-83!82;UBERON:0005743!3.79e-81!86;UBERON:0001049!1.43e-77!57;UBERON:0005068!1.43e-77!57;UBERON:0006241!1.43e-77!57;UBERON:0007135!1.43e-77!57;UBERON:0000073!7.67e-72!94;UBERON:0001016!7.67e-72!94;UBERON:0002616!4.11e-65!59;UBERON:0000955!6.16e-61!69;UBERON:0006238!6.16e-61!69;UBERON:0002780!1.01e-60!41;UBERON:0001890!1.01e-60!41;UBERON:0006240!1.01e-60!41;UBERON:0003075!1.21e-59!86;UBERON:0007284!1.21e-59!86;UBERON:0003080!5.05e-59!42;UBERON:0002346!2.86e-56!90;UBERON:0001869!9.19e-56!32;UBERON:0002020!1.99e-55!34;UBERON:0003528!1.99e-55!34;UBERON:0001893!2.40e-55!34;UBERON:0002791!1.72e-53!33;UBERON:0003056!3.98e-46!61;UBERON:0002619!2.68e-44!22;UBERON:0000956!1.05e-41!25;UBERON:0000203!1.05e-41!25;UBERON:0001950!6.77e-41!20;UBERON:0004121!6.11e-39!169;UBERON:0000924!1.30e-37!173;UBERON:0006601!1.30e-37!173;UBERON:0000033!1.09e-36!123;UBERON:0007023!1.90e-35!115;UBERON:0000153!3.02e-34!129;UBERON:0007811!3.02e-34!129;UBERON:0003076!9.76e-19!15;UBERON:0003057!9.76e-19!15;UBERON:0001871!3.68e-16!7;UBERON:0000025!1.10e-15!194;UBERON:0002308!7.17e-15!9;UBERON:0000125!7.17e-15!9;UBERON:0002420!7.99e-15!9;UBERON:0007245!7.99e-15!9;UBERON:0010009!7.99e-15!9;UBERON:0010011!7.99e-15!9;UBERON:0000454!7.99e-15!9;UBERON:0004733!4.65e-14!12;UBERON:0002028!4.65e-14!12;UBERON:0007277!4.65e-14!12;UBERON:0004732!8.34e-13!13;UBERON:0000200!1.18e-12!6;UBERON:0009663!1.47e-11!7;UBERON:0001872!2.60e-11!5;UBERON:0002021!6.44e-11!5;UBERON:0000349!2.96e-10!5;UBERON:0000369!5.99e-10!4;UBERON:0002435!5.99e-10!4;UBERON:0000204!5.99e-10!4;UBERON:0010082!5.99e-10!4;UBERON:0004111!6.27e-10!241;UBERON:0000922!8.47e-10!612;UBERON:0002680!1.40e-09!9;UBERON:0001895!1.40e-09!9;UBERON:0010092!1.40e-09!9;UBERON:0000483!3.59e-09!309;UBERON:0000064!5.29e-09!219;UBERON:0000119!6.11e-09!312;UBERON:0000477!2.70e-08!286;UBERON:0000473!2.90e-08!8;UBERON:0002298!3.61e-08!8;UBERON:0005383!5.78e-08!3;UBERON:0005382!5.78e-08!3;UBERON:0000468!2.14e-07!659;UBERON:0001894!3.27e-07!7;UBERON:0006222!3.27e-07!7;UBERON:0002771!5.52e-07!3;UBERON:0000923!6.77e-07!604;UBERON:0005291!6.77e-07!604;UBERON:0006598!6.77e-07!604;UBERON:0002532!6.77e-07!604;UBERON:0000475!6.96e-07!365;UBERON:0002050!7.55e-07!605;UBERON:0005423!7.55e-07!605
|ontology_enrichment_uberon=UBERON:0001049!1.50e-87!56;UBERON:0005068!1.50e-87!56;UBERON:0006241!1.50e-87!56;UBERON:0007135!1.50e-87!56;UBERON:0001017!2.57e-81!81;UBERON:0000073!8.48e-81!53;UBERON:0002616!8.48e-81!53;UBERON:0001016!6.18e-72!89;UBERON:0000955!3.66e-69!68;UBERON:0006238!3.66e-69!68;UBERON:0001869!3.09e-67!32;UBERON:0001893!4.81e-67!34;UBERON:0003528!4.92e-67!34;UBERON:0002020!4.92e-67!34;UBERON:0002780!1.16e-66!41;UBERON:0001890!1.16e-66!41;UBERON:0003080!1.16e-66!41;UBERON:0006240!1.16e-66!41;UBERON:0003075!4.00e-64!82;UBERON:0007284!4.00e-64!82;UBERON:0002791!1.27e-62!32;UBERON:0002346!1.49e-60!86;UBERON:0002619!1.26e-56!22;UBERON:0001950!6.32e-52!20;UBERON:0010371!5.55e-50!104;UBERON:0003056!6.87e-50!61;UBERON:0000956!2.72e-49!25;UBERON:0000203!2.72e-49!25;UBERON:0007023!1.69e-38!114;UBERON:0004121!4.48e-37!171;UBERON:0000924!4.48e-37!171;UBERON:0006601!4.48e-37!171;UBERON:0010314!8.07e-37!132;UBERON:0011216!2.23e-26!223;UBERON:0003076!6.33e-21!15;UBERON:0003057!6.33e-21!15;UBERON:0002420!5.86e-19!9;UBERON:0007245!5.86e-19!9;UBERON:0010009!5.86e-19!9;UBERON:0010011!5.86e-19!9;UBERON:0000454!5.86e-19!9;UBERON:0000125!9.58e-19!9;UBERON:0002308!9.58e-19!9;UBERON:0001871!2.86e-18!6;UBERON:0000025!6.00e-18!192;UBERON:0000200!1.21e-15!6;UBERON:0004733!7.35e-15!12;UBERON:0002028!7.35e-15!12;UBERON:0007277!7.35e-15!12;UBERON:0009663!1.60e-14!7;UBERON:0002298!8.08e-14!6;UBERON:0001872!8.12e-14!5;UBERON:0004732!1.39e-13!13;UBERON:0002021!1.57e-13!5;UBERON:0000349!2.70e-13!5;UBERON:0000477!1.15e-12!373;UBERON:0000064!1.66e-12!218;UBERON:0000369!2.64e-12!4;UBERON:0002435!2.64e-12!4;UBERON:0000204!2.64e-12!4;UBERON:0010082!2.64e-12!4;UBERON:0004111!5.39e-12!240;UBERON:0000483!6.18e-10!306;UBERON:0005383!9.30e-10!3;UBERON:0005382!9.30e-10!3;UBERON:0000119!1.01e-09!309;UBERON:0002680!2.27e-09!9;UBERON:0001895!2.27e-09!9;UBERON:0010092!2.27e-09!9;UBERON:0000922!2.54e-09!592;UBERON:0001870!8.40e-09!3;UBERON:0002240!3.84e-08!3;UBERON:0005174!3.84e-08!3;UBERON:0001137!3.84e-08!3;UBERON:0000062!6.20e-08!503;UBERON:0000988!8.30e-08!3;UBERON:0001896!1.11e-07!3;UBERON:0005290!1.11e-07!3;UBERON:0010096!1.11e-07!3;UBERON:0000481!1.41e-07!342;UBERON:0000473!1.67e-07!8;UBERON:0000468!2.80e-07!656;UBERON:0001873!4.76e-07!2;UBERON:0010122!4.76e-07!2;UBERON:0000923!9.70e-07!560;UBERON:0010316!9.70e-07!560;UBERON:0005291!9.70e-07!560;UBERON:0006598!9.70e-07!560;UBERON:0010317!9.70e-07!560;UBERON:0002532!9.70e-07!560
|tf_chipseq_enrich=CTBP2#1488;3:62.7170003393281:4.049570681927e-06:0.000128943022088346!CTCF#10664;3:5.36025637307503:0.006492509252767:0.0278171633512362!EGR1#1958;3:4.98817909481014:0.00805648813738344:0.0318897693606287!REST#5978;3:9.65002871612802:0.00111263624711459:0.00765094923705561!TCF12#6938;3:10.6344649021864:0.000831352399020207:0.0062753406476779
|tf_chipseq_enrich=CTBP2#1488;3:62.7170003393281:4.049570681927e-06:0.000128943022088346!CTCF#10664;3:5.36025637307503:0.006492509252767:0.0278171633512362!EGR1#1958;3:4.98817909481014:0.00805648813738344:0.0318897693606287!REST#5978;3:9.65002871612802:0.00111263624711459:0.00765094923705561!TCF12#6938;3:10.6344649021864:0.000831352399020207:0.0062753406476779
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0.361435
}}
}}

Revision as of 14:42, 19 October 2012


Full id: C3010_caudate_putamen_argyrophil_temporal_parietal_globus_duodenum



Phase1 CAGE Peaks

Hg19::chr10:26505179..26505186,+p13@GAD2
Hg19::chr10:26505290..26505312,+p4@GAD2
Hg19::chr10:26505329..26505346,+p6@GAD2


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
embryonic stem cell2.16e-125
Uber Anatomy
Ontology termp-valuen
neural tube1.50e-8756
neural rod1.50e-8756
future spinal cord1.50e-8756
neural keel1.50e-8756
central nervous system2.57e-8181
regional part of nervous system8.48e-8153
regional part of brain8.48e-8153
nervous system6.18e-7289
brain3.66e-6968
future brain3.66e-6968
cerebral hemisphere3.09e-6732
telencephalon4.81e-6734
brain grey matter4.92e-6734
gray matter4.92e-6734
regional part of forebrain1.16e-6641
forebrain1.16e-6641
anterior neural tube1.16e-6641
future forebrain1.16e-6641
neural plate4.00e-6482
presumptive neural plate4.00e-6482
regional part of telencephalon1.27e-6232
neurectoderm1.49e-6086
regional part of cerebral cortex1.26e-5622
neocortex6.32e-5220
ecto-epithelium5.55e-50104
pre-chordal neural plate6.87e-5061
cerebral cortex2.72e-4925
pallium2.72e-4925
adult organism1.69e-38114
ectoderm-derived structure4.48e-37171
ectoderm4.48e-37171
presumptive ectoderm4.48e-37171
structure with developmental contribution from neural crest8.07e-37132
organ system subdivision2.23e-26223
posterior neural tube6.33e-2115
chordal neural plate6.33e-2115
basal ganglion5.86e-199
nuclear complex of neuraxis5.86e-199
aggregate regional part of brain5.86e-199
collection of basal ganglia5.86e-199
cerebral subcortex5.86e-199
neural nucleus9.58e-199
nucleus of brain9.58e-199
temporal lobe2.86e-186
tube6.00e-18192
gyrus1.21e-156
segmental subdivision of hindbrain7.35e-1512
hindbrain7.35e-1512
presumptive hindbrain7.35e-1512
telencephalic nucleus1.60e-147
brainstem8.08e-146
parietal lobe8.12e-145
segmental subdivision of nervous system1.39e-1313
occipital lobe1.57e-135
limbic system2.70e-135
anatomical cluster1.15e-12373
organ part1.66e-12218
corpus striatum2.64e-124
striatum2.64e-124
ventral part of telencephalon2.64e-124
future corpus striatum2.64e-124
anatomical conduit5.39e-12240
epithelium6.18e-10306
caudate-putamen9.30e-103
dorsal striatum9.30e-103
cell layer1.01e-09309
regional part of metencephalon2.27e-099
metencephalon2.27e-099
future metencephalon2.27e-099
embryo2.54e-09592
frontal cortex8.40e-093
spinal cord3.84e-083
dorsal region element3.84e-083
dorsum3.84e-083
organ6.20e-08503
pons8.30e-083
medulla oblongata1.11e-073
myelencephalon1.11e-073
future myelencephalon1.11e-073
multi-tissue structure1.41e-07342
testis1.67e-078
multi-cellular organism2.80e-07656
caudate nucleus4.76e-072
future caudate nucleus4.76e-072
germ layer9.70e-07560
germ layer / neural crest9.70e-07560
embryonic tissue9.70e-07560
presumptive structure9.70e-07560
germ layer / neural crest derived structure9.70e-07560
epiblast (generic)9.70e-07560


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
CTBP2#1488362.71700033932814.049570681927e-060.000128943022088346
CTCF#1066435.360256373075030.0064925092527670.0278171633512362
EGR1#195834.988179094810140.008056488137383440.0318897693606287
REST#597839.650028716128020.001112636247114590.00765094923705561
TCF12#6938310.63446490218640.0008313523990202070.0062753406476779



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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