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|gostat_on_coexpression_clusters=GO:0030308!negative regulation of cell growth!0.039468234767104!58189$GO:0045792!negative regulation of cell size!0.039468234767104!58189$GO:0045926!negative regulation of growth!0.039468234767104!58189$GO:0001558!regulation of cell growth!0.0498755484983084!58189$GO:0004867!serine-type endopeptidase inhibitor activity!0.0498755484983084!58189$GO:0016049!cell growth!0.0498755484983084!58189$GO:0040008!regulation of growth!0.0498755484983084!58189$GO:0008361!regulation of cell size!0.0498755484983084!58189
|gostat_on_coexpression_clusters=GO:0030308!negative regulation of cell growth!0.039468234767104!58189$GO:0045792!negative regulation of cell size!0.039468234767104!58189$GO:0045926!negative regulation of growth!0.039468234767104!58189$GO:0001558!regulation of cell growth!0.0498755484983084!58189$GO:0004867!serine-type endopeptidase inhibitor activity!0.0498755484983084!58189$GO:0016049!cell growth!0.0498755484983084!58189$GO:0040008!regulation of growth!0.0498755484983084!58189$GO:0008361!regulation of cell size!0.0498755484983084!58189
|id=C418
|id=C418
|ontology_enrichment_celltype=CL:0000055!5.65e-11!180;CL:0000057!1.37e-07!75;CL:0000147!9.77e-07!14
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!6.30e-27!115;UBERON:0000475!8.53e-18!365;UBERON:0000481!4.71e-16!347;UBERON:0003075!1.01e-13!86;UBERON:0007284!1.01e-13!86;UBERON:0000033!1.38e-13!123;UBERON:0000153!2.87e-13!129;UBERON:0007811!2.87e-13!129;UBERON:0005743!1.15e-12!86;UBERON:0000062!2.49e-12!511;UBERON:0002346!3.60e-12!90;UBERON:0000064!3.93e-12!219;UBERON:0004121!4.14e-12!169;UBERON:0000955!5.97e-12!69;UBERON:0006238!5.97e-12!69;UBERON:0001017!1.26e-11!82;UBERON:0000924!3.76e-11!173;UBERON:0006601!3.76e-11!173;UBERON:0000468!4.80e-11!659;UBERON:0002616!4.96e-11!59;UBERON:0001049!5.72e-11!57;UBERON:0005068!5.72e-11!57;UBERON:0006241!5.72e-11!57;UBERON:0007135!5.72e-11!57;UBERON:0003056!1.50e-10!61;UBERON:0000073!2.70e-10!94;UBERON:0001016!2.70e-10!94;UBERON:0000477!6.03e-10!286;UBERON:0003080!1.47e-08!42;UBERON:0002780!2.74e-08!41;UBERON:0001890!2.74e-08!41;UBERON:0006240!2.74e-08!41;UBERON:0000467!4.24e-08!625;UBERON:0001737!5.72e-08!9;UBERON:0000480!6.40e-08!626;UBERON:0000063!1.35e-07!97;UBERON:0001893!2.68e-07!34;UBERON:0002791!5.84e-07!33;UBERON:0002020!6.44e-07!34;UBERON:0003528!6.44e-07!34;UBERON:0001869!7.27e-07!32
}}
}}

Revision as of 14:45, 21 May 2012


Full id: C418_normal_Melanocyte_Hep2_cervical_umbilical_osteosarcoma_gall



Phase1 CAGE Peaks

Hg19::chr16:84328230..84328235,+p10@WFDC1
Hg19::chr16:84328254..84328265,+p8@WFDC1
Hg19::chr16:84328292..84328340,+p2@WFDC1
Hg19::chr16:84328345..84328375,+p5@WFDC1
Hg19::chr16:84328382..84328416,+p3@WFDC1
Hg19::chr16:84328429..84328455,+p4@WFDC1
Hg19::chr16:84328459..84328512,+p1@WFDC1
Hg19::chr16:84353062..84353074,+p@chr16:84353062..84353074
+
Hg19::chr16:84353087..84353097,+p@chr16:84353087..84353097
+
Hg19::chr16:84353122..84353133,+p@chr16:84353122..84353133
+
Hg19::chr16:84363141..84363156,+p@chr16:84363141..84363156
+
Hg19::chr16:86229885..86229905,+p@chr16:86229885..86229905
+
Hg19::chr16:86229916..86229943,+p@chr16:86229916..86229943
+
Hg19::chr16:86532148..86532166,-p@chr16:86532148..86532166
-
Hg19::chr16:86546627..86546642,+p@chr16:86546627..86546642
+
Hg19::chr1:192735472..192735488,-p@chr1:192735472..192735488
-
Hg19::chr1:204839198..204839211,+p@chr1:204839198..204839211
+
Hg19::chr1:204839218..204839235,+p4@NFASC
Hg19::chr20:49253425..49253427,-p14@FAM65C
Hg19::chr20:49253452..49253461,-p12@FAM65C
Hg19::chr20:49269691..49269695,+p1@ENST00000435177
Hg19::chr7:54879609..54879616,-p@chr7:54879609..54879616
-
Hg19::chr7:54879626..54879647,-p@chr7:54879626..54879647
-
Hg19::chr7:54879666..54879725,-p@chr7:54879666..54879725
-
Hg19::chr8:53477984..53477997,-p1@FAM150A


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:0030308negative regulation of cell growth0.039468234767104
GO:0045792negative regulation of cell size0.039468234767104
GO:0045926negative regulation of growth0.039468234767104
GO:0001558regulation of cell growth0.0498755484983084
GO:0004867serine-type endopeptidase inhibitor activity0.0498755484983084
GO:0016049cell growth0.0498755484983084
GO:0040008regulation of growth0.0498755484983084
GO:0008361regulation of cell size0.0498755484983084



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
non-terminally differentiated cell5.65e-11180
fibroblast1.37e-0775
pigment cell9.77e-0714
Uber Anatomy
Ontology termp-valuen
adult organism6.30e-27115
organism subdivision8.53e-18365
multi-tissue structure4.71e-16347
neural plate1.01e-1386
presumptive neural plate1.01e-1386
head1.38e-13123
anterior region of body2.87e-13129
craniocervical region2.87e-13129
organ2.49e-12511
neurectoderm3.60e-1290
organ part3.93e-12219
ectoderm-derived structure4.14e-12169
brain5.97e-1269
future brain5.97e-1269
central nervous system1.26e-1182
ectoderm3.76e-11173
presumptive ectoderm3.76e-11173
multi-cellular organism4.80e-11659
regional part of brain4.96e-1159
neural tube5.72e-1157
neural rod5.72e-1157
future spinal cord5.72e-1157
neural keel5.72e-1157
pre-chordal neural plate1.50e-1061
regional part of nervous system2.70e-1094
nervous system2.70e-1094
anatomical cluster6.03e-10286
anterior neural tube1.47e-0842
regional part of forebrain2.74e-0841
forebrain2.74e-0841
future forebrain2.74e-0841
anatomical system4.24e-08625
larynx5.72e-089
anatomical group6.40e-08626
organ segment1.35e-0797
telencephalon2.68e-0734
regional part of telencephalon5.84e-0733
gray matter6.44e-0734
brain grey matter6.44e-0734
cerebral hemisphere7.27e-0732


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.