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Coexpression cluster:C3253

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Full id: C3253_normal_pineal_insula_Mesothelial_Astrocyte_temporal_occipital



Phase1 CAGE Peaks

  Short description
Hg19::chr12:130388539..130388557,- p2@TMEM132D
Hg19::chr12:130388563..130388592,- p1@TMEM132D
Hg19::chr12:130388744..130388782,- p@chr12:130388744..130388782
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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
neural plate7.89e-5982
presumptive neural plate7.89e-5982
pre-chordal neural plate1.42e-5761
neurectoderm4.31e-5586
central nervous system6.16e-5481
nervous system8.12e-5489
neural tube1.46e-5356
neural rod1.46e-5356
future spinal cord1.46e-5356
neural keel1.46e-5356
regional part of nervous system1.53e-5253
regional part of brain1.53e-5253
regional part of forebrain5.88e-5041
forebrain5.88e-5041
anterior neural tube5.88e-5041
future forebrain5.88e-5041
brain7.51e-5068
future brain7.51e-5068
telencephalon7.49e-4534
ecto-epithelium8.77e-45104
brain grey matter1.75e-4434
gray matter1.75e-4434
cerebral hemisphere3.28e-4332
regional part of telencephalon1.65e-4232
structure with developmental contribution from neural crest1.48e-39132
ectoderm-derived structure6.81e-38171
ectoderm6.81e-38171
presumptive ectoderm6.81e-38171
cerebral cortex3.10e-3425
pallium3.10e-3425
neocortex1.42e-3020
regional part of cerebral cortex5.14e-3022
organ system subdivision8.29e-16223
adult organism3.10e-13114
basal ganglion2.04e-129
nuclear complex of neuraxis2.04e-129
aggregate regional part of brain2.04e-129
collection of basal ganglia2.04e-129
cerebral subcortex2.04e-129
neural nucleus1.52e-119
nucleus of brain1.52e-119
temporal lobe3.63e-116
cell layer4.23e-11309
face9.21e-1122
gyrus2.06e-106
anatomical cluster2.22e-10373
camera-type eye2.82e-1020
simple eye2.82e-1020
immature eye2.82e-1020
ocular region2.82e-1020
eyeball of camera-type eye2.82e-1020
optic cup2.82e-1020
optic vesicle2.82e-1020
eye primordium2.82e-1020
epithelium5.12e-10306
organ part5.34e-10218
telencephalic nucleus1.19e-097
eye1.31e-0921
visual system1.31e-0921
pigment epithelium of eye2.48e-0911
multi-tissue structure9.60e-09342
vasculature of organ1.00e-0811
vasculature of eye1.03e-086
uvea1.03e-086
vasculature of head1.03e-086
occipital lobe1.57e-085
anterior segment of eyeball1.96e-0814
parietal lobe4.03e-085
sense organ5.86e-0824
sensory system5.86e-0824
entire sense organ system5.86e-0824
tube5.87e-08192
corpus striatum5.72e-074
striatum5.72e-074
ventral part of telencephalon5.72e-074
future corpus striatum5.72e-074
atypical epithelium7.05e-074
posterior neural tube7.40e-0715
chordal neural plate7.40e-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)
MA0003.13.8806
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.758317
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
MA0038.10.94098
MA0040.11.24388
MA0041.10.847069
MA0042.10.810843
MA0043.11.32783
MA0046.11.31611
MA0048.12.45333
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
MA0061.11.15625
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.0185922
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
MA0105.14.18141
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
MA0135.11.35921
MA0136.10.948776
MA0139.10.440097
MA0140.10.894983
MA0141.10.712476
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.12.94723
MA0146.12.3244
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.757898
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.838867
MA0155.12.02721
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.8915
MA0163.12.48891
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.69213
MA0102.21.88331
MA0258.10.519674
MA0259.10.575594
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.