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Coexpression cluster:C3467

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Full id: C3467_acute_non_diffuse_chronic_myeloma_merkel_B



Phase1 CAGE Peaks

  Short description
Hg19::chr14:96000839..96000849,- p9@SNHG10
Hg19::chr14:96000850..96000861,- p8@SNHG10
Hg19::chr14:96000869..96000881,- p7@SNHG10


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
disease_data


Uber Anatomy
Ontology termp-valuen
connective tissue4.19e-09375
Disease
Ontology termp-valuen
hematologic cancer2.73e-1851
immune system cancer2.73e-1851
leukemia1.10e-1339
organ system cancer1.09e-11137
cancer2.33e-11235
disease of cellular proliferation9.58e-11239
myeloid leukemia1.07e-0931


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#1106310.34402283411690.0009033701102746880.00659493016545353
E2F1#186934.907389214879320.008460985347239390.0324468256106461
E2F6#187635.017155731697390.00791769806886330.0321344759108543
EBF1#187938.9064668465690.00141523283560980.00913902814062031
ELF1#199734.258097958807540.01295179875054610.046114373221569
ELK4#2005316.2356816584680.0002336043955745990.00255390028990009
FOS#235338.99795530889440.001372499272417130.00896226406852398
GABPB1#255337.067683836182170.002832212825417420.0153842760323384
GATA1#2623313.56030814380040.0004009615963782630.00387310656346184
GTF2F1#2962312.73966087675770.0004835525047438590.00433231020356386
IRF1#365937.63716375356390.002244692747297240.0127833287439324
IRF3#3661346.98195221148969.63568551583244e-060.000253422654139518
IRF4#3662321.91451268674419.49854535978121e-050.00136416196208772
MAX#414936.452555509007120.003721913834265510.0186174126604174
MXI1#460139.96157162875930.001011470541259020.00719254931970797
MYC#460935.22228187160940.007020843755740150.0293899515413742
NFKB1#479035.488063424193840.006049381815655430.0269145176555013
NFYA#4800318.42558069983050.0001598135507814160.00199245164498751
NFYB#4801316.75979325353650.0002123649923296180.00245344993737976
NR2C2#7182332.61461090524092.88098172333076e-050.000604311810007916
NRF1#4899312.21027944771090.0005492172401020010.00470315671851533
PAX5#507936.669565531177830.003370290999677260.0172637118895136
PBX3#5090321.91451268674419.49854535978121e-050.0013643495789165
RFX5#5993312.04791082719510.0005717246050312580.0048391560114158
SIN3A#2594235.408884726815140.006318961977991520.0275989490640455
SIX5#147912317.0867153554590.0002004060546325010.00239366513492266
SP1#666735.69838137814090.005403962701712170.0245983464349772
SP2#6668326.15353049384465.58768218891694e-050.000938973354993235
SREBF1#6720347.00584944048839.62099323994382e-060.000254381496958606
SREBF2#67213436.9432624113481.19027063774682e-088.90477615584817e-07
SRF#6722313.79717826216780.0003806615025800190.00374490454671765
USF1#739136.361499277207960.00388404057290560.0189926637978129
USF2#7392312.99219738506960.0004558979393427810.00421060531367357
ZNF143#7702313.50087655222790.0004062804962997170.00388353731951731



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.