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Coexpression cluster:C507

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Full id: C507_splenic_hairy_b_cord_B_xeroderma_mycosis



Phase1 CAGE Peaks

Hg19::chr10:79464313..79464317,-p@chr10:79464313..79464317
-
Hg19::chr10:79468189..79468192,-p@chr10:79468189..79468192
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Hg19::chr10:79471157..79471172,-p@chr10:79471157..79471172
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Hg19::chr10:85931581..85931600,-p3@ENST00000514797
p3@uc001kct.2
Hg19::chr12:114400163..114400173,-p@chr12:114400163..114400173
-
Hg19::chr14:75981948..75981957,+p@chr14:75981948..75981957
+
Hg19::chr14:75982124..75982133,+p@chr14:75982124..75982133
+
Hg19::chr14:75982154..75982176,+p@chr14:75982154..75982176
+
Hg19::chr14:75982181..75982197,+p@chr14:75982181..75982197
+
Hg19::chr17:33396527..33396551,-p7@RFFL
Hg19::chr17:33396568..33396595,-p8@RFFL
Hg19::chr17:33396602..33396623,-p5@RFFL
Hg19::chr1:25799275..25799284,+p@chr1:25799275..25799284
+
Hg19::chr2:111562758..111562766,+p5@ACOXL
Hg19::chr2:231454349..231454360,-p@chr2:231454349..231454360
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Hg19::chr2:242067121..242067130,-p16@PASK
Hg19::chr8:10389502..10389527,-p@chr8:10389502..10389527
-
Hg19::chr8:22576899..22576911,+p@chr8:22576899..22576911
+


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>disease_data<br>


Cell Type
Ontology termp-valuen
lymphocyte of B lineage1.38e-1224
pro-B cell1.38e-1224
Uber Anatomy
Ontology termp-valuen
neural tube2.38e-1157
neural rod2.38e-1157
future spinal cord2.38e-1157
neural keel2.38e-1157
regional part of brain3.53e-1059
regional part of forebrain1.29e-0941
forebrain1.29e-0941
future forebrain1.29e-0941
telencephalon3.30e-0934
anterior neural tube3.93e-0942
gray matter5.58e-0934
brain grey matter5.58e-0934
regional part of telencephalon8.15e-0933
neural plate1.10e-0886
presumptive neural plate1.10e-0886
adult organism1.14e-08115
neurectoderm2.83e-0890
cerebral hemisphere5.72e-0832
central nervous system8.53e-0882
pre-chordal neural plate1.21e-0761
brain3.55e-0769
future brain3.55e-0769
Disease
Ontology termp-valuen
lymphoma3.68e-0710


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#10538810.82568968546832.42930653961336e-071.27302732408771e-05
BCL11A#53335711.0325658736251.52168798019066e-065.85353852534559e-05
BCL3#602713.4349844236764.07451111572284e-071.96100399269575e-05
CTCFL#14069055.485131766381770.001635351861265640.0102339572795687
EBF1#1879115.442840850681065.31868622722255e-072.47870714361846e-05
IRF4#366267.304837562248040.0001039351690544030.00145235283929258
MEF2A#420544.165162424365350.01356346165085610.0478792121731143
NFKB1#4790113.353816537007346.54334929204358e-050.00106164495372338
PAX5#5079103.705314183987687.81914617588767e-050.00119880183127354
POU2F2#545294.553062028871264.44118401900389e-050.000787358373384395
RAD21#588574.026957626010790.0009506084120696660.00684504908633094
SP1#666782.53261394584040.007368112951132010.0304602916717443
SPI1#668894.102161754261360.0001019326238867080.00142608724797105
TCF12#693895.317232451093211.2632268459797e-050.000311376324208811



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.