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|full_id=C3350_small_smallcell_nonsmall_pituitary_rhabdomyosarcoma_occipital_argyrophil
|full_id=C3350_small_smallcell_nonsmall_pituitary_rhabdomyosarcoma_occipital_argyrophil
|id=C3350
|id=C3350
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!1.86e-73!57;UBERON:0005068!1.86e-73!57;UBERON:0006241!1.86e-73!57;UBERON:0007135!1.86e-73!57;UBERON:0001017!4.33e-65!82;UBERON:0005743!8.18e-64!86;UBERON:0002616!5.34e-61!59;UBERON:0000073!1.71e-58!94;UBERON:0001016!1.71e-58!94;UBERON:0002780!7.95e-58!41;UBERON:0001890!7.95e-58!41;UBERON:0006240!7.95e-58!41;UBERON:0000955!1.66e-57!69;UBERON:0006238!1.66e-57!69;UBERON:0003080!3.29e-56!42;UBERON:0002020!2.82e-52!34;UBERON:0003528!2.82e-52!34;UBERON:0001869!3.60e-52!32;UBERON:0001893!6.46e-52!34;UBERON:0007023!4.82e-51!115;UBERON:0002791!4.65e-50!33;UBERON:0003075!3.46e-48!86;UBERON:0007284!3.46e-48!86;UBERON:0002346!2.13e-45!90;UBERON:0002619!4.59e-45!22;UBERON:0001950!5.24e-41!20;UBERON:0000956!5.26e-39!25;UBERON:0000203!5.26e-39!25;UBERON:0003056!1.26e-37!61;UBERON:0000033!1.47e-30!123;UBERON:0000153!7.25e-30!129;UBERON:0007811!7.25e-30!129;UBERON:0004121!3.53e-29!169;UBERON:0000924!3.97e-28!173;UBERON:0006601!3.97e-28!173;UBERON:0000025!3.53e-20!194;UBERON:0003076!1.49e-17!15;UBERON:0003057!1.49e-17!15;UBERON:0001871!6.46e-17!7;UBERON:0002420!7.77e-15!9;UBERON:0007245!7.77e-15!9;UBERON:0010009!7.77e-15!9;UBERON:0010011!7.77e-15!9;UBERON:0000454!7.77e-15!9;UBERON:0004111!1.13e-14!241;UBERON:0002308!1.90e-14!9;UBERON:0000125!1.90e-14!9;UBERON:0000064!1.47e-13!219;UBERON:0004733!1.66e-12!12;UBERON:0002028!1.66e-12!12;UBERON:0007277!1.66e-12!12;UBERON:0000200!1.99e-12!6;UBERON:0000475!2.00e-12!365;UBERON:0000349!9.21e-12!5;UBERON:0004732!2.14e-11!13;UBERON:0000477!3.10e-11!286;UBERON:0001872!6.35e-11!5;UBERON:0009663!8.05e-11!7;UBERON:0002021!1.06e-10!5;UBERON:0000481!1.32e-10!347;UBERON:0000483!5.20e-10!309;UBERON:0000062!8.18e-10!511;UBERON:0000119!9.05e-10!312;UBERON:0000369!1.07e-09!4;UBERON:0002435!1.07e-09!4;UBERON:0000204!1.07e-09!4;UBERON:0010082!1.07e-09!4;UBERON:0002298!3.22e-09!8;UBERON:0000922!6.24e-08!612;UBERON:0005383!9.78e-08!3;UBERON:0005382!9.78e-08!3;UBERON:0002680!1.03e-07!9;UBERON:0001895!1.03e-07!9;UBERON:0010092!1.03e-07!9;UBERON:0001894!1.57e-07!7;UBERON:0006222!1.57e-07!7;UBERON:0000923!2.76e-07!604;UBERON:0005291!2.76e-07!604;UBERON:0006598!2.76e-07!604;UBERON:0002532!2.76e-07!604;UBERON:0002050!3.08e-07!605;UBERON:0005423!3.08e-07!605;UBERON:0000988!3.25e-07!3;UBERON:0002240!4.73e-07!3;UBERON:0001896!5.04e-07!3;UBERON:0005290!5.04e-07!3;UBERON:0010096!5.04e-07!3;UBERON:0002771!7.59e-07!3;UBERON:0000467!8.16e-07!625;UBERON:0000480!9.06e-07!626
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Revision as of 14:35, 21 May 2012


Full id: C3350_small_smallcell_nonsmall_pituitary_rhabdomyosarcoma_occipital_argyrophil



Phase1 CAGE Peaks

Hg19::chr13:102569851..102569860,-p@chr13:102569851..102569860
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Hg19::chr13:102569895..102569908,-p@chr13:102569895..102569908
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Hg19::chr13:102569922..102569927,-p@chr13:102569922..102569927
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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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
neural tube1.86e-7357
neural rod1.86e-7357
future spinal cord1.86e-7357
neural keel1.86e-7357
central nervous system4.33e-6582
regional part of brain5.34e-6159
regional part of nervous system1.71e-5894
nervous system1.71e-5894
regional part of forebrain7.95e-5841
forebrain7.95e-5841
future forebrain7.95e-5841
brain1.66e-5769
future brain1.66e-5769
anterior neural tube3.29e-5642
gray matter2.82e-5234
brain grey matter2.82e-5234
cerebral hemisphere3.60e-5232
telencephalon6.46e-5234
adult organism4.82e-51115
regional part of telencephalon4.65e-5033
neural plate3.46e-4886
presumptive neural plate3.46e-4886
neurectoderm2.13e-4590
regional part of cerebral cortex4.59e-4522
neocortex5.24e-4120
cerebral cortex5.26e-3925
pallium5.26e-3925
pre-chordal neural plate1.26e-3761
head1.47e-30123
anterior region of body7.25e-30129
craniocervical region7.25e-30129
ectoderm-derived structure3.53e-29169
ectoderm3.97e-28173
presumptive ectoderm3.97e-28173
tube3.53e-20194
posterior neural tube1.49e-1715
chordal neural plate1.49e-1715
temporal lobe6.46e-177
basal ganglion7.77e-159
nuclear complex of neuraxis7.77e-159
aggregate regional part of brain7.77e-159
collection of basal ganglia7.77e-159
cerebral subcortex7.77e-159
anatomical conduit1.13e-14241
nucleus of brain1.90e-149
neural nucleus1.90e-149
organ part1.47e-13219
segmental subdivision of hindbrain1.66e-1212
hindbrain1.66e-1212
presumptive hindbrain1.66e-1212
gyrus1.99e-126
organism subdivision2.00e-12365
limbic system9.21e-125
segmental subdivision of nervous system2.14e-1113
anatomical cluster3.10e-11286
parietal lobe6.35e-115
telencephalic nucleus8.05e-117
occipital lobe1.06e-105
multi-tissue structure1.32e-10347
epithelium5.20e-10309
organ8.18e-10511
cell layer9.05e-10312
corpus striatum1.07e-094
striatum1.07e-094
ventral part of telencephalon1.07e-094
future corpus striatum1.07e-094
brainstem3.22e-098
embryo6.24e-08612
caudate-putamen9.78e-083
dorsal striatum9.78e-083
regional part of metencephalon1.03e-079
metencephalon1.03e-079
future metencephalon1.03e-079
diencephalon1.57e-077
future diencephalon1.57e-077
germ layer2.76e-07604
embryonic tissue2.76e-07604
presumptive structure2.76e-07604
epiblast (generic)2.76e-07604
embryonic structure3.08e-07605
developing anatomical structure3.08e-07605
pons3.25e-073
spinal cord4.73e-073
medulla oblongata5.04e-073
myelencephalon5.04e-073
future myelencephalon5.04e-073
middle temporal gyrus7.59e-073
anatomical system8.16e-07625
anatomical group9.06e-07626


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.