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Coexpression cluster:C3285

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Full id: C3285_cerebellum_parietal_medial_middle_hippocampus_olfactory_occipital



Phase1 CAGE Peaks

Hg19::chr12:5023276..5023280,+p1@AK124568
Hg19::chr3:121026029..121026045,+p@chr3:121026029..121026045
+
Hg19::chr9:140637461..140637472,+p5@EHMT1


Enriched pathways on this co-expression cluster<b>Summary:</b><br>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.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


GO IDGO nameFDR corrected p-value
GO:0015079potassium ion transmembrane transporter activity0.018190916284373
GO:0016571histone methylation0.0204575515773574
GO:0005251delayed rectifier potassium channel activity0.0204575515773574
GO:0008213protein amino acid alkylation0.0204575515773574
GO:0006479protein amino acid methylation0.0204575515773574
GO:0018024histone-lysine N-methyltransferase activity0.0204575515773574
GO:0016278lysine N-methyltransferase activity0.0204575515773574
GO:0016279protein-lysine N-methyltransferase activity0.0204575515773574
GO:0042054histone methyltransferase activity0.0216408714849049
GO:0043414biopolymer methylation0.0216408714849049
GO:0016570histone modification0.0216408714849049
GO:0008276protein methyltransferase activity0.0216408714849049
GO:0008170N-methyltransferase activity0.0216408714849049
GO:0016569covalent chromatin modification0.0216408714849049
GO:0032259methylation0.0290759064854089
GO:0008757S-adenosylmethionine-dependent methyltransferase activity0.03255224172755
GO:0008076voltage-gated potassium channel complex0.0437947199420364
GO:0030955potassium ion binding0.045368852072499
GO:0006730one-carbon compound metabolic process0.045368852072499
GO:0003012muscle system process0.045368852072499
GO:0005249voltage-gated potassium channel activity0.045368852072499
GO:0006936muscle contraction0.045368852072499



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
neural tube3.51e-10356
neural rod3.51e-10356
future spinal cord3.51e-10356
neural keel3.51e-10356
regional part of nervous system3.62e-10353
regional part of brain3.62e-10353
brain9.20e-8868
future brain9.20e-8868
regional part of forebrain2.67e-8441
forebrain2.67e-8441
anterior neural tube2.67e-8441
future forebrain2.67e-8441
central nervous system4.19e-7781
brain grey matter1.92e-7434
gray matter1.92e-7434
telencephalon3.17e-7434
cerebral hemisphere1.17e-7232
nervous system7.60e-6989
neural plate1.29e-6882
presumptive neural plate1.29e-6882
regional part of telencephalon3.46e-6632
neurectoderm3.95e-6586
regional part of cerebral cortex2.63e-5722
pre-chordal neural plate4.32e-5561
adult organism4.48e-54114
ecto-epithelium1.00e-52104
cerebral cortex3.05e-5025
pallium3.05e-5025
neocortex8.99e-4920
structure with developmental contribution from neural crest1.03e-42132
ectoderm-derived structure6.65e-33171
ectoderm6.65e-33171
presumptive ectoderm6.65e-33171
gyrus1.55e-296
tube4.86e-27192
organ system subdivision1.12e-26223
neural nucleus1.59e-259
nucleus of brain1.59e-259
anatomical conduit3.69e-20240
brainstem9.06e-206
corpus striatum9.20e-204
striatum9.20e-204
ventral part of telencephalon9.20e-204
future corpus striatum9.20e-204
posterior neural tube1.45e-1915
chordal neural plate1.45e-1915
segmental subdivision of hindbrain3.59e-1912
hindbrain3.59e-1912
presumptive hindbrain3.59e-1912
basal ganglion7.49e-199
nuclear complex of neuraxis7.49e-199
aggregate regional part of brain7.49e-199
collection of basal ganglia7.49e-199
cerebral subcortex7.49e-199
segmental subdivision of nervous system1.26e-1713
telencephalic nucleus3.61e-177
frontal cortex6.31e-163
limbic system6.81e-165
occipital lobe7.64e-165
pons2.50e-153
caudate-putamen2.90e-153
dorsal striatum2.90e-153
organ part1.37e-14218
epithelium3.38e-14306
cell layer5.50e-14309
regional part of metencephalon7.87e-149
metencephalon7.87e-149
future metencephalon7.87e-149
anatomical cluster5.74e-13373
multi-tissue structure6.98e-12342
regional part of diencephalon1.76e-114
middle frontal gyrus2.12e-112
diencephalon2.19e-117
future diencephalon2.19e-117
temporal lobe2.72e-116
middle temporal gyrus3.87e-112
caudate nucleus7.01e-112
Ammon's horn7.01e-112
lobe parts of cerebral cortex7.01e-112
hippocampal formation7.01e-112
limbic lobe7.01e-112
future caudate nucleus7.01e-112
dorsal plus ventral thalamus7.36e-112
thalamic complex7.36e-112
locus ceruleus1.04e-102
brainstem nucleus1.04e-102
hindbrain nucleus1.04e-102
parietal lobe2.66e-095
medulla oblongata4.54e-073
myelencephalon4.54e-073
future myelencephalon4.54e-073
organ7.26e-07503


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.0471418
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.10.658629
MA0029.11.23771
MA0030.11.22561
MA0031.11.15713
MA0038.12.16573
MA0040.11.24388
MA0041.10.847069
MA0042.10.810843
MA0043.11.32783
MA0046.11.31611
MA0048.10.341392
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.10.190716
MA0056.10
MA0057.10.333427
MA0058.10.716037
MA0059.10.714521
MA0060.10.492218
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.11.84332
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.11.36698
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.257905
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.31555
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.10.549955
MA0115.11.57693
MA0116.10.560723
MA0117.11.36676
MA0119.10.695578
MA0122.11.39371
MA0124.11.53432
MA0125.11.44766
MA0130.10
MA0131.11.06461
MA0132.10
MA0133.10
MA0135.13.01303
MA0136.10.948776
MA0139.10.440097
MA0140.10.894983
MA0141.10.712476
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.195278
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.760954
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.256269
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.181755
MA0102.21.88331
MA0258.10.519674
MA0259.10.575594
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.