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Coexpression cluster:C2309

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Full id: C2309_hepatic_Fibroblast_Hepatic_Smooth_Urothelial_aorta_Olfactory



Phase1 CAGE Peaks

  Short description
Hg19::chr14:69445930..69445948,- p3@ACTN1
Hg19::chr14:69445968..69445984,- p2@ACTN1
Hg19::chr14:69445991..69446029,- p1@ACTN1
Hg19::chr14:69446034..69446048,- p4@ACTN1


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


Uber Anatomy
Ontology termp-valuen
epithelial tube1.22e-18117
vasculature4.67e-1878
vascular system4.67e-1878
cardiovascular system1.72e-15109
multi-cellular organism2.83e-15656
circulatory system6.96e-15112
organism subdivision9.28e-15264
epithelial tube open at both ends1.54e-1459
blood vessel1.54e-1459
blood vasculature1.54e-1459
vascular cord1.54e-1459
vessel3.44e-1468
trunk mesenchyme6.38e-14122
splanchnic layer of lateral plate mesoderm1.04e-1383
anatomical system1.08e-13624
mesenchyme1.79e-13160
entire embryonic mesenchyme1.79e-13160
anatomical group2.49e-13625
unilaminar epithelium4.24e-13148
trunk9.56e-13199
epithelial vesicle1.35e-1278
artery3.57e-1242
arterial blood vessel3.57e-1242
arterial system3.57e-1242
mesoderm2.64e-11315
mesoderm-derived structure2.64e-11315
presumptive mesoderm2.64e-11315
multilaminar epithelium4.48e-1183
somite2.94e-1071
presomitic mesoderm2.94e-1071
presumptive segmental plate2.94e-1071
dermomyotome2.94e-1071
trunk paraxial mesoderm2.94e-1071
cell layer3.28e-10309
dense mesenchyme tissue4.88e-1073
embryo5.68e-10592
paraxial mesoderm5.87e-1072
presumptive paraxial mesoderm5.87e-1072
epithelium6.92e-10306
muscle tissue7.75e-1064
musculature7.75e-1064
musculature of body7.75e-1064
skeletal muscle tissue1.02e-0962
striated muscle tissue1.02e-0962
myotome1.02e-0962
developing anatomical structure1.85e-09581
systemic artery1.98e-0933
systemic arterial system1.98e-0933
surface structure3.70e-0999
embryonic structure1.04e-08564
germ layer5.10e-08560
germ layer / neural crest5.10e-08560
embryonic tissue5.10e-08560
presumptive structure5.10e-08560
germ layer / neural crest derived structure5.10e-08560
epiblast (generic)5.10e-08560
anatomical conduit7.29e-07240
multi-tissue structure7.49e-07342
nephron epithelium8.85e-0715
renal tubule8.85e-0715
nephron tubule8.85e-0715
nephron8.85e-0715
uriniferous tubule8.85e-0715
nephrogenic mesenchyme8.85e-0715


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
CCNT2#90546.336201576962630.0006203100587215640.00511605166412552
CEBPB#105147.971147625824820.0002476385788090830.00267761937387326
CHD2#1106410.34402283411698.73193255208051e-050.00128989293324857
E2F1#186944.907389214879320.001724022357361790.0106352729462793
E2F6#187645.017155731697390.00157802193473060.00995933241729085
EGR1#195844.988179094810140.001615011500076050.010133993394403
ELF1#199744.258097958807540.003041525565781240.016070721874159
FOS#235348.99795530889440.0001525147711168630.00194653430046121
GABPB1#255347.067683836182170.0004006876864423170.00389967582558467
GATA1#2623413.56030814380042.95627390049268e-050.000613329936220808
GATA2#2624412.7449317335543.78864877853583e-050.00072073349686977
GATA3#2625427.2365163572061.81561517799785e-066.7601081488384e-05
HDAC2#3066413.41562023662633.0859005065161e-050.000625924185278763
HEY1#2346244.040111043105710.00375304636917980.0185747516704943
HMGN3#932448.178547723350590.0002234570284440470.00247850770960789
IRF1#365947.63716375356390.0002938853996185490.00307084514764999
IRF3#3661446.98195221148962.04940266214005e-071.10158293685664e-05
MYC#460945.22228187160940.001344309395272740.00886576969770708
NFYA#4800418.42558069983058.67100748407158e-060.00023424504672244
NFYB#4801416.75979325353651.26678572070404e-050.000311152008195224
PBX3#5090421.91451268674414.33289161192893e-060.000136179015064173
SMARCB1#6598418.25271578115749.00423392720929e-060.000240941118914633
SP1#666745.69838137814090.0009482606065333980.00683426882104351
SP2#6668426.15353049384462.13562021071447e-067.741827115127e-05
TAF1#687243.343046285745290.008005664898701650.0321664923770054
TAF7#6879411.43306940492395.85061525419808e-050.0009677421706259
TAL1#6886429.86861667744021.25525650806991e-065.03061145227602e-05
TBP#690843.706770687096390.005296377814784350.0243785104714968
USF1#739146.361499277207960.0006105011399140830.0050736157039458



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.