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Coexpression cluster:C2853

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Full id: C2853_lung_pituitary_optic_locus_occipital_adipose_parietal



Phase1 CAGE Peaks

  Short description
Hg19::chr6:168307760..168307775,+ p@chr6:168307760..168307775
+
Hg19::chr6:168307783..168307796,+ p@chr6:168307783..168307796
+
Hg19::chr6:168307841..168307856,+ p@chr6:168307841..168307856
+
Hg19::chr6:168307867..168307880,+ p@chr6:168307867..168307880
+


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


uberon_data


Uber Anatomy
Ontology termp-valuen
adult organism8.78e-92114
neural tube4.29e-4856
neural rod4.29e-4856
future spinal cord4.29e-4856
neural keel4.29e-4856
regional part of nervous system1.63e-4353
regional part of brain1.63e-4353
neural plate1.74e-3882
presumptive neural plate1.74e-3882
neurectoderm4.54e-3686
regional part of forebrain3.55e-3441
forebrain3.55e-3441
anterior neural tube3.55e-3441
future forebrain3.55e-3441
brain6.87e-3368
future brain6.87e-3368
central nervous system1.27e-3281
brain grey matter1.69e-3034
gray matter1.69e-3034
ecto-epithelium2.13e-30104
telencephalon3.13e-3034
nervous system5.46e-3089
regional part of telencephalon2.69e-2732
cerebral hemisphere3.65e-2732
pre-chordal neural plate1.34e-2361
structure with developmental contribution from neural crest1.50e-23132
regional part of cerebral cortex5.72e-2222
organ system subdivision1.10e-20223
ectoderm-derived structure2.34e-19171
ectoderm2.34e-19171
presumptive ectoderm2.34e-19171
cerebral cortex7.49e-1925
pallium7.49e-1925
neocortex1.68e-1820
anatomical conduit5.11e-15240
posterior neural tube1.11e-1415
chordal neural plate1.11e-1415
tube1.80e-14192
neural nucleus7.57e-149
nucleus of brain7.57e-149
anatomical cluster2.47e-13373
multi-tissue structure5.20e-13342
gyrus3.22e-126
segmental subdivision of nervous system4.23e-1213
organ2.92e-11503
basal ganglion7.83e-119
nuclear complex of neuraxis7.83e-119
aggregate regional part of brain7.83e-119
collection of basal ganglia7.83e-119
cerebral subcortex7.83e-119
telencephalic nucleus1.99e-107
segmental subdivision of hindbrain2.49e-1012
hindbrain2.49e-1012
presumptive hindbrain2.49e-1012
epithelium4.24e-10306
organ part4.95e-10218
cell layer7.53e-10309
brainstem6.11e-096
regional part of metencephalon4.82e-089
metencephalon4.82e-089
future metencephalon4.82e-089
multi-cellular organism1.65e-07656
limbic system2.90e-075
frontal cortex3.46e-073
developing anatomical structure4.67e-07581
anatomical system5.09e-07624
pons5.52e-073
anatomical group5.68e-07625
embryo5.82e-07592
valve7.31e-073
cardiac mesenchyme7.31e-073
cardial valve7.31e-073
tunica intima7.31e-073
heart layer7.31e-073
endocardium7.31e-073
endocardial cushion7.31e-073
presumptive endocardium7.31e-073
germ layer9.03e-07560
germ layer / neural crest9.03e-07560
embryonic tissue9.03e-07560
presumptive structure9.03e-07560
germ layer / neural crest derived structure9.03e-07560
epiblast (generic)9.03e-07560
parietal lobe9.70e-075


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)
MA0003.10.0214529
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.896009
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.12.67291
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.182167
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.11.90157
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.11.94315
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.061409
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.0247757
MA0138.20.928035
MA0002.20.98779
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.10.180766
MA0156.12.36058
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.0725493
MA0164.16.48408
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.20.000248021
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
MA0442.10



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
CTCF#1066445.360256373075030.001211145381643620.00819506397884537
FOXA1#3169411.08141974938556.62943068949433e-050.00107311083660896
GATA2#2624412.7449317335543.78864877853583e-050.000724163048648433
GATA3#2625427.2365163572061.81561517799785e-066.78915265216316e-05
NR3C1#2908414.9730233311731.98868032687801e-050.000444364109240078
RAD21#5885410.35503389545638.6948481184721e-050.00129855747553998
REST#597849.650028716128020.0001152825614219170.0015748849486388



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.