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Coexpression cluster:C2756

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Full id: C2756_skeletal_Adipocyte_mature_Preadipocyte_Hepatic_Mesenchymal_aorta



Phase1 CAGE Peaks

  Short description
Hg19::chr3:8543500..8543518,+ p1@LMCD1
Hg19::chr3:8543533..8543553,+ p2@LMCD1
Hg19::chr3:8543561..8543579,+ p3@LMCD1
Hg19::chr3:8543591..8543602,+ p4@LMCD1


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
fat cell5.84e-0915
fibroblast3.95e-0776
Uber Anatomy
Ontology termp-valuen
organism subdivision6.52e-14264
trunk8.71e-13199
mesenchyme3.54e-12160
entire embryonic mesenchyme3.54e-12160
epithelium8.53e-12306
cell layer1.03e-11309
multi-tissue structure9.48e-11342
multi-cellular organism1.62e-10656
compound organ2.69e-1068
trunk mesenchyme1.84e-08122
subdivision of trunk2.77e-08112
epithelial tube5.55e-08117
anatomical cluster1.83e-07373
anatomical conduit2.41e-07240
primary circulatory organ2.42e-0727
adipose tissue2.52e-0714
tube4.70e-07192
epithelial vesicle7.18e-0778


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CHD2#1106410.34402283411698.73193255208051e-050.00129226909991035
CTCF#1066445.360256373075030.001211145381643620.00818869764442793
E2F1#186944.907389214879320.001724022357361790.0106674074874405
E2F6#187645.017155731697390.00157802193473060.00998406935489968
FOS#235348.99795530889440.0001525147711168630.00195178166654504
HEY1#2346244.040111043105710.00375304636917980.018643664847354
MAFF#23764228.15767824497260.001846876180367150.0109271414797963
MAX#414946.452555509007120.0005767613195645490.00486090828389299
MYC#460945.22228187160940.001344309395272740.00888822036799755
NFYA#4800418.42558069983058.67100748407158e-060.000234913450228003
NFYB#4801416.75979325353651.26678572070404e-050.000311738534129617
NRF1#4899412.21027944771094.49717228915276e-050.000794855604513158
PAX5#507946.669565531177830.0005052774169483260.00444609218541294
RFX5#5993412.04791082719514.74457429336527e-050.000827657582469977
SETDB1#9869440.32002617801053.77887289069054e-071.8528718583607e-05
SP1#666745.69838137814090.0009482606065333980.00685271169981605
SP2#6668426.15353049384462.13562021071447e-067.75528648076526e-05
SRF#6722413.79717826216782.75840773062708e-050.000585182500465084
TAF1#687243.343046285745290.008005664898701650.032294462586153
TCF7L2#6934410.77017656313737.42969445082454e-050.00115623581992201
YY1#752844.911170749853860.00171871838055440.0106992447366467
ZNF263#1012748.221841637010680.0002187871180958320.00249562121306363



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.