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Coexpression cluster:C343

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Full id: C343_CD4_mycosis_kidney_signet_hairy_b_Mast



Phase1 CAGE Peaks

Hg19::chr12:12654214..12654217,-p@chr12:12654214..12654217
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Hg19::chr12:12654228..12654244,-p@chr12:12654228..12654244
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Hg19::chr12:12654246..12654268,-p@chr12:12654246..12654268
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Hg19::chr12:12654286..12654294,-p@chr12:12654286..12654294
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Hg19::chr12:9807687..9807696,+p@chr12:9807687..9807696
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Hg19::chr13:42967639..42967658,+p@chr13:42967639..42967658
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Hg19::chr14:34682595..34682600,-p@chr14:34682595..34682600
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Hg19::chr14:34682624..34682671,-p@chr14:34682624..34682671
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Hg19::chr16:3119260..3119271,+p@chr16:3119260..3119271
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Hg19::chr16:78812540..78812565,+p@chr16:78812540..78812565
+
Hg19::chr16:78996801..78996806,+p@chr16:78996801..78996806
+
Hg19::chr17:53392505..53392514,+p@chr17:53392505..53392514
+
Hg19::chr17:62144141..62144166,-p@chr17:62144141..62144166
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Hg19::chr17:62144174..62144202,-p@chr17:62144174..62144202
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Hg19::chr18:9088659..9088670,-p@chr18:9088659..9088670
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Hg19::chr18:9091167..9091184,-p@chr18:9091167..9091184
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Hg19::chr18:9095000..9095021,+p@chr18:9095000..9095021
+
Hg19::chr1:117087364..117087378,+p@chr1:117087364..117087378
+
Hg19::chr1:209925409..209925446,+p@chr1:209925409..209925446
+
Hg19::chr1:64117070..64117080,+p12@PGM1
Hg19::chr22:30552802..30552806,+p@chr22:30552802..30552806
+
Hg19::chr2:39444239..39444249,+p@chr2:39444239..39444249
+
Hg19::chr2:39444261..39444268,+p@chr2:39444261..39444268
+
Hg19::chr3:4846563..4846612,+p@chr3:4846563..4846612
+
Hg19::chr3:4948148..4948153,-p4@LOC100507582
Hg19::chr3:4948161..4948169,-p2@LOC100507582
Hg19::chr3:4948180..4948195,-p1@LOC100507582
Hg19::chr3:53778674..53778721,+p@chr3:53778674..53778721
+
Hg19::chr3:53880588..53880603,+p1@IL17RB
Hg19::chr5:131993856..131993873,+p1@IL13
Hg19::chr5:66500832..66500867,+p@chr5:66500832..66500867
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Hg19::chr7:148907246..148907250,+p@chr7:148907246..148907250
+
Hg19::chr8:97296304..97296346,+p@chr8:97296304..97296346
+


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:0005144interleukin-13 receptor binding0.0127152316779048
GO:0004614phosphoglucomutase activity0.0127152316779048
GO:0006952defense response0.0209988476158347
GO:0016868intramolecular transferase activity, phosphotransferases0.04233920409943
GO:0004907interleukin receptor activity0.04233920409943
GO:0019965interleukin binding0.04233920409943
GO:0005126hematopoietin/interferon-class (D200-domain) cytokine receptor binding0.0486485150110909
GO:0016866intramolecular transferase activity0.0486485150110909
GO:0004896hematopoietin/interferon-class (D200-domain) cytokine receptor activity0.0486485150110909



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>


Uber Anatomy
Ontology termp-valuen
adult organism1.85e-35115
neural tube7.68e-1957
neural rod7.68e-1957
future spinal cord7.68e-1957
neural keel7.68e-1957
anterior neural tube3.14e-1542
regional part of forebrain7.48e-1541
forebrain7.48e-1541
future forebrain7.48e-1541
regional part of brain4.56e-1459
central nervous system1.05e-1382
gray matter9.02e-1334
brain grey matter9.02e-1334
telencephalon1.12e-1234
regional part of telencephalon2.34e-1233
cerebral hemisphere6.80e-1232
regional part of nervous system1.13e-1194
nervous system1.13e-1194
brain5.18e-1169
future brain5.18e-1169
neural plate5.77e-1186
presumptive neural plate5.77e-1186
neurectoderm6.58e-1090
regional part of cerebral cortex3.14e-0922
cerebral cortex3.32e-0925
pallium3.32e-0925
pre-chordal neural plate1.17e-0861
neocortex2.06e-0820
blood9.23e-0815
haemolymphatic fluid9.23e-0815
organism substance9.23e-0815


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
BATF#1053853.690576029136910.01058778017317130.0391010315949729



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.