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Coexpression cluster:C2463

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Full id: C2463_endometrial_optic_corpus_globus_astrocytoma_thalamus_spinal



Phase1 CAGE Peaks

  Short description
Hg19::chr18:48918403..48918418,+ p1@LOC100287225
Hg19::chr18:48918420..48918432,+ p3@LOC100287225
Hg19::chr18:48918435..48918444,+ p4@LOC100287225
Hg19::chr18:48918447..48918475,+ p2@LOC100287225


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
neural tube1.85e-10656
neural rod1.85e-10656
future spinal cord1.85e-10656
neural keel1.85e-10656
regional part of nervous system2.92e-9753
regional part of brain2.92e-9753
central nervous system4.23e-8881
brain7.06e-8568
future brain7.06e-8568
nervous system3.45e-8289
regional part of forebrain9.94e-8141
forebrain9.94e-8141
anterior neural tube9.94e-8141
future forebrain9.94e-8141
neural plate6.76e-7782
presumptive neural plate6.76e-7782
neurectoderm7.47e-7386
brain grey matter6.93e-7034
gray matter6.93e-7034
telencephalon7.32e-7034
regional part of telencephalon2.10e-6332
cerebral hemisphere2.33e-6332
adult organism4.55e-61114
pre-chordal neural plate6.20e-5961
ecto-epithelium1.81e-58104
structure with developmental contribution from neural crest1.31e-50132
regional part of cerebral cortex1.22e-4822
neocortex1.63e-4220
cerebral cortex1.93e-4225
pallium1.93e-4225
ectoderm-derived structure8.77e-40171
ectoderm8.77e-40171
presumptive ectoderm8.77e-40171
neural nucleus3.42e-309
nucleus of brain3.42e-309
basal ganglion1.37e-299
nuclear complex of neuraxis1.37e-299
aggregate regional part of brain1.37e-299
collection of basal ganglia1.37e-299
cerebral subcortex1.37e-299
organ system subdivision2.75e-29223
posterior neural tube2.42e-2515
chordal neural plate2.42e-2515
tube3.16e-25192
telencephalic nucleus1.50e-237
brainstem5.20e-216
segmental subdivision of nervous system4.07e-2013
gyrus7.29e-206
anatomical conduit4.72e-18240
limbic system3.37e-175
segmental subdivision of hindbrain3.92e-1712
hindbrain3.92e-1712
presumptive hindbrain3.92e-1712
anatomical cluster1.93e-15373
epithelium2.18e-15306
cell layer3.96e-15309
corpus striatum1.38e-134
striatum1.38e-134
ventral part of telencephalon1.38e-134
future corpus striatum1.38e-134
organ part4.74e-13218
temporal lobe4.88e-126
diencephalon5.36e-127
future diencephalon5.36e-127
pons1.09e-113
parietal lobe3.70e-115
occipital lobe4.57e-115
medulla oblongata4.64e-113
myelencephalon4.64e-113
future myelencephalon4.64e-113
multi-tissue structure6.32e-11342
frontal cortex9.43e-113
spinal cord9.43e-113
dorsal region element9.43e-113
dorsum9.43e-113
caudate-putamen2.02e-103
dorsal striatum2.02e-103
organ1.16e-09503
regional part of metencephalon2.43e-099
metencephalon2.43e-099
future metencephalon2.43e-099
germ layer1.11e-08560
germ layer / neural crest1.11e-08560
embryonic tissue1.11e-08560
presumptive structure1.11e-08560
germ layer / neural crest derived structure1.11e-08560
epiblast (generic)1.11e-08560
multi cell component structure1.32e-082
neuron projection bundle1.32e-082
embryonic structure1.57e-08564
globus pallidus1.82e-082
pallidum1.82e-082
locus ceruleus2.33e-082
brainstem nucleus2.33e-082
hindbrain nucleus2.33e-082
dorsal plus ventral thalamus3.32e-082
thalamic complex3.32e-082
embryo3.76e-08592
Ammon's horn5.59e-082
lobe parts of cerebral cortex5.59e-082


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
MA0014.10.0695829
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.12.52375
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.15.64565
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.791759
MA0056.10
MA0057.10.69331
MA0058.10.605914
MA0059.10.604454
MA0060.12.70115
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.12.13662
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.12.63476
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
MA0105.10.232357
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
MA0136.10.832277
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
MA0035.21.83323
MA0039.20.0247757
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.199162
MA0150.11.53138
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.10.180766
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.0725493
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.21.85039
MA0079.20.00910927
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


No analysis results for this cluster

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.