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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0000926!2.14e-19!448;UBERON:0004120!2.14e-19!448;UBERON:0006603!2.14e-19!448;UBERON:0000467!1.69e-11!625;UBERON:0002204!2.74e-11!167;UBERON:0000480!2.96e-11!626;UBERON:0000468!3.33e-11!659;UBERON:0002100!5.49e-11!216;UBERON:0003914!4.91e-10!118;UBERON:0000923!1.14e-08!604;UBERON:0005291!1.14e-08!604;UBERON:0006598!1.14e-08!604;UBERON:0002532!1.14e-08!604;UBERON:0002050!1.90e-08!605;UBERON:0005423!1.90e-08!605;UBERON:0002405!2.62e-08!115;UBERON:0002371!5.53e-08!80;UBERON:0003081!6.39e-08!216;UBERON:0004765!7.15e-08!101;UBERON:0001434!7.15e-08!101;UBERON:0005256!1.05e-07!143;UBERON:0001637!1.45e-07!42;UBERON:0003509!1.45e-07!42;UBERON:0004572!1.45e-07!42;UBERON:0000490!1.55e-07!138;UBERON:0000922!2.47e-07!612;UBERON:0001474!3.83e-07!86;UBERON:0003104!7.09e-07!238;UBERON:0009142!7.09e-07!238;UBERON:0000062!7.49e-07!511
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}}
}}

Revision as of 17:16, 8 August 2012


Full id: C1426_CD14_bile_mucinous_lung_large_glioblastoma_nonsmall



Phase1 CAGE Peaks

Hg19::chr16:83986837..83986852,+p1@OSGIN1
Hg19::chr1:94374914..94374922,-p7@GCLM
Hg19::chr1:94374946..94374994,-p1@GCLM
Hg19::chr20:633833..633851,-p1@SRXN1
Hg19::chr4:139092367..139092379,-p@chr4:139092367..139092379
-
Hg19::chr4:139163058..139163082,-p8@SLC7A11


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:0006979response to oxidative stress0.00267447141343291
GO:0035226glutamate-cysteine ligase catalytic subunit binding0.00267447141343291
GO:0015327cystine:glutamate antiporter activity0.00267447141343291
GO:0035229positive regulation of glutamate-cysteine ligase activity0.00267447141343291
GO:0032542sulfiredoxin activity0.00267447141343291
GO:0035227regulation of glutamate-cysteine ligase activity0.00267447141343291
GO:0051409response to nitrosative stress0.00267447141343291
GO:0017109glutamate-cysteine ligase complex0.00416010516649996
GO:0004357glutamate-cysteine ligase activity0.00416010516649996
GO:0005294neutral L-amino acid secondary active transmembrane transporter activity0.00534823430200747
GO:0015184L-cystine transmembrane transporter activity0.00534823430200747
GO:0051900regulation of mitochondrial depolarization0.00534823430200747
GO:0000099sulfur amino acid transmembrane transporter activity0.00534823430200747
GO:0051351positive regulation of ligase activity0.00534823430200747
GO:0051882mitochondrial depolarization0.00623933116986053
GO:0051340regulation of ligase activity0.00660605893926391
GO:0006534cysteine metabolic process0.00660605893926391
GO:0005313L-glutamate transmembrane transporter activity0.0078802164471195
GO:0006750glutathione biosynthetic process0.0078802164471195
GO:0015172acidic amino acid transmembrane transporter activity0.00802058041895813
GO:0051899membrane depolarization0.00802058041895813
GO:0051881regulation of mitochondrial membrane potential0.00894971234644914
GO:0043524negative regulation of neuron apoptosis0.00894971234644914
GO:0005829cytosol0.0108478504797685
GO:0042221response to chemical stimulus0.0111896010626077
GO:0006536glutamate metabolic process0.0115131714638974
GO:0015175neutral amino acid transmembrane transporter activity0.0117791598889394
GO:0006749glutathione metabolic process0.0126936457064729
GO:0043523regulation of neuron apoptosis0.0161219563560019
GO:0016667oxidoreductase activity, acting on sulfur group of donors0.0169452130303383
GO:0005275amine transmembrane transporter activity0.0169452130303383
GO:0000096sulfur amino acid metabolic process0.0169452130303383
GO:0051402neuron apoptosis0.0169975821508008
GO:0042391regulation of membrane potential0.0170468221915915
GO:0015179L-amino acid transmembrane transporter activity0.0170932013623182
GO:0065008regulation of biological quality0.0200632651173214
GO:0035150regulation of tube size0.0206031839965857
GO:0050880regulation of blood vessel size0.0206031839965857
GO:0003018vascular process in circulatory system0.0206031839965857
GO:0044272sulfur compound biosynthetic process0.0210205779842032
GO:0009653anatomical structure morphogenesis0.0211854925063784
GO:0015300solute:solute antiporter activity0.0223308459100891
GO:0030308negative regulation of cell growth0.0223308459100891
GO:0045792negative regulation of cell size0.0223308459100891
GO:0048523negative regulation of cellular process0.0223308459100891
GO:0009069serine family amino acid metabolic process0.0223308459100891
GO:0048519negative regulation of biological process0.0230630761274883
GO:0045926negative regulation of growth0.0230630761274883
GO:0006950response to stress0.0230630761274883
GO:0015171amino acid transmembrane transporter activity0.0230630761274883
GO:0042493response to drug0.0230630761274883
GO:0006865amino acid transport0.0251250696915076
GO:0009064glutamine family amino acid metabolic process0.0284879107806133
GO:0035239tube morphogenesis0.0284879107806133
GO:0015837amine transport0.0284879107806133
GO:0006790sulfur metabolic process0.0286428388044346
GO:0015297antiporter activity0.029769822580319
GO:0046943carboxylic acid transmembrane transporter activity0.0302525219420084
GO:0046942carboxylic acid transport0.0302525219420084
GO:0015849organic acid transport0.0302525219420084
GO:0005342organic acid transmembrane transporter activity0.0302525219420084
GO:0016491oxidoreductase activity0.0303262360818528
GO:0046982protein heterodimerization activity0.0310591708125885
GO:0035295tube development0.0340499713122673
GO:0048869cellular developmental process0.0381580052831729
GO:0030154cell differentiation0.0381580052831729
GO:0008015blood circulation0.0436428645669278
GO:0003013circulatory system process0.0436428645669278
GO:0001558regulation of cell growth0.0436428645669278
GO:0048856anatomical structure development0.0438016778475504



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
mesoderm2.14e-19448
mesoderm-derived structure2.14e-19448
presumptive mesoderm2.14e-19448
anatomical system1.69e-11625
musculoskeletal system2.74e-11167
anatomical group2.96e-11626
multi-cellular organism3.33e-11659
trunk5.49e-11216
epithelial tube4.91e-10118
germ layer1.14e-08604
embryonic tissue1.14e-08604
presumptive structure1.14e-08604
epiblast (generic)1.14e-08604
embryonic structure1.90e-08605
developing anatomical structure1.90e-08605
immune system2.62e-08115
bone marrow5.53e-0880
lateral plate mesoderm6.39e-08216
skeletal element7.15e-08101
skeletal system7.15e-08101
trunk mesenchyme1.05e-07143
artery1.45e-0742
arterial blood vessel1.45e-0742
arterial system1.45e-0742
unilaminar epithelium1.55e-07138
embryo2.47e-07612
bone element3.83e-0786
mesenchyme7.09e-07238
entire embryonic mesenchyme7.09e-07238
organ7.49e-07511


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.