Personal tools

Coexpression cluster:C3527

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C3527_parietal_brain_Neurons_Astrocyte_Neural_temporal_occipital



Phase1 CAGE Peaks

Hg19::chr15:89910903..89910915,+p1@MIR9-3
Hg19::chr15:89943554..89943558,+p@chr15:89943554..89943558
+
Hg19::chr7:157483650..157483668,-p@chr7:157483650..157483668
-


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


No GOStat results

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>cell_data<br>uberon_data<br>disease_data<br>


Cell Type
Ontology termp-valuen
neural cell3.90e-1125
oligodendrocyte4.05e-117
macroglial cell4.05e-117
astrocyte4.05e-117
oligodendrocyte precursor cell4.05e-117
astrocyte of the cerebral cortex3.86e-083
neuronal stem cell1.69e-078
neurectodermal cell7.85e-0759
Uber Anatomy
Ontology termp-valuen
nervous system9.80e-8589
neural tube6.36e-8456
neural rod6.36e-8456
future spinal cord6.36e-8456
neural keel6.36e-8456
central nervous system1.13e-8381
regional part of nervous system6.35e-7853
regional part of brain6.35e-7853
brain8.21e-7168
future brain8.21e-7168
regional part of forebrain9.80e-5941
forebrain9.80e-5941
anterior neural tube9.80e-5941
future forebrain9.80e-5941
neurectoderm2.85e-5886
neural plate3.42e-5782
presumptive neural plate3.42e-5782
brain grey matter6.33e-5734
gray matter6.33e-5734
telencephalon1.64e-5634
regional part of telencephalon6.65e-5332
cerebral hemisphere7.76e-5332
ecto-epithelium6.70e-44104
ectoderm-derived structure4.29e-43171
ectoderm4.29e-43171
presumptive ectoderm4.29e-43171
pre-chordal neural plate2.96e-4061
cerebral cortex2.06e-3925
pallium2.06e-3925
organ system subdivision1.96e-33223
regional part of cerebral cortex4.53e-3322
structure with developmental contribution from neural crest7.57e-33132
adult organism1.41e-30114
neocortex2.61e-2920
posterior neural tube3.52e-2515
chordal neural plate3.52e-2515
tube9.58e-20192
segmental subdivision of hindbrain1.47e-1912
hindbrain1.47e-1912
presumptive hindbrain1.47e-1912
neural nucleus8.02e-199
nucleus of brain8.02e-199
segmental subdivision of nervous system7.67e-1813
anatomical cluster1.21e-15373
telencephalic nucleus6.44e-157
basal ganglion8.43e-159
nuclear complex of neuraxis8.43e-159
aggregate regional part of brain8.43e-159
collection of basal ganglia8.43e-159
cerebral subcortex8.43e-159
anatomical conduit3.11e-14240
regional part of metencephalon5.48e-149
metencephalon5.48e-149
future metencephalon5.48e-149
brainstem6.07e-136
organ part7.38e-13218
occipital lobe8.01e-115
parietal lobe8.70e-115
epithelium9.16e-10306
cell layer1.58e-09309
corpus striatum2.31e-094
striatum2.31e-094
ventral part of telencephalon2.31e-094
future corpus striatum2.31e-094
gyrus9.24e-096
cerebellum1.52e-086
rhombic lip1.52e-086
temporal lobe8.17e-086
embryo1.43e-07592
caudate-putamen1.78e-073
dorsal striatum1.78e-073
multi-tissue structure1.83e-07342
limbic system2.04e-075
medulla oblongata2.51e-073
myelencephalon2.51e-073
future myelencephalon2.51e-073
spinal cord2.56e-073
dorsal region element2.56e-073
dorsum2.56e-073
pons2.85e-073
Disease
Ontology termp-valuen
neuroectodermal tumor1.87e-0810
neuroendocrine tumor5.06e-086


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)
MA0003.14.57391
MA0004.10.826076
MA0006.10.639288
MA0007.11.88666
MA0009.11.3275
MA0014.12.44638
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
MA0057.10.886807
MA0058.10.716037
MA0059.10.714521
MA0060.10.492218
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.12.78116
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.715722
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
MA0105.10.846801
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
MA0145.10.752137
MA0146.11.70974
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.23.37171
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
MA0155.10.711948
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.11.84145
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.29.48295
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.