Personal tools

Coexpression cluster:C465: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
 
(2 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,

Latest revision as of 11:23, 17 September 2013


Full id: C465_Olfactory_basal_Fibroblast_Preadipocyte_Adipocyte_small_Prostate



Phase1 CAGE Peaks

Hg19::chr11:11340165..11340167,+p@chr11:11340165..11340167
+
Hg19::chr11:7991573..7991621,+p4@EIF3F
Hg19::chr12:1755135..1755145,+p@chr12:1755135..1755145
+
Hg19::chr12:46367494..46367507,-p@chr12:46367494..46367507
-
Hg19::chr1:110625257..110625270,+p2@ENST00000554808
Hg19::chr1:110625279..110625280,+p4@ENST00000554808
Hg19::chr1:110625307..110625328,+p1@ENST00000554808
Hg19::chr1:110662936..110662945,+p@chr1:110662936..110662945
+
Hg19::chr1:110662969..110662978,+p@chr1:110662969..110662978
+
Hg19::chr1:183176408..183176410,+p@chr1:183176408..183176410
+
Hg19::chr1:223889262..223889267,+p12@CAPN2
Hg19::chr2:228246354..228246368,-p2@TM4SF20
Hg19::chr2:228246418..228246451,-p3@TM4SF20
Hg19::chr2:228246460..228246471,-p4@TM4SF20
Hg19::chr3:177159744..177159791,+p1@ENST00000439009
Hg19::chr3:177194695..177194701,+p@chr3:177194695..177194701
+
Hg19::chr3:177311506..177311510,+p@chr3:177311506..177311510
+
Hg19::chr3:177372640..177372648,+p@chr3:177372640..177372648
+
Hg19::chr3:8794077..8794089,-p@chr3:8794077..8794089
-
Hg19::chrX:69308514..69308559,+p@chrX:69308514..69308559
+
Hg19::chrX:69308592..69308633,+p@chrX:69308592..69308633
+


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
receptor cell2.09e-366
sensory epithelial cell2.09e-366
olfactory epithelial cell2.09e-366
skin fibroblast2.18e-2723
fibroblast4.80e-1376
neurecto-epithelial cell3.70e-1120
columnar/cuboidal epithelial cell2.54e-0827
adipocyte of breast6.58e-082
Uber Anatomy
Ontology termp-valuen
skin of body8.79e-2041
integument1.47e-1746
integumental system1.47e-1746
surface structure7.78e-1099
Disease
Ontology termp-valuen
musculoskeletal system disease5.05e-245
myotonic disease5.05e-245
muscle tissue disease5.05e-245
myopathy5.05e-245
muscular disease5.05e-245
myotonic dystrophy5.05e-245
basal cell carcinoma9.36e-151
skin carcinoma5.02e-082
skin cancer5.02e-082
integumentary system cancer5.02e-082


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)
MA0003.14.3196e-05
MA0004.10.505176
MA0006.10.0763783
MA0007.10.156885
MA0009.10.543169
MA0014.11.91579e-05
MA0017.11.09275
MA0019.10.275941
MA0024.10.450307
MA0025.10.665335
MA0027.12.11401
MA0028.10.598774
MA0029.10.467171
MA0030.10.457153
MA0031.10.401568
MA0038.10.24162
MA0040.10.472301
MA0041.10.181587
MA0042.10.160318
MA0043.10.543454
MA0046.10.533373
MA0048.10.00619675
MA0050.10.160894
MA0051.10.238478
MA0052.10.475699
MA0055.10.0315254
MA0056.10
MA0057.10.0306551
MA0058.10.110291
MA0059.10.109562
MA0060.10.0296044
MA0061.10.0956181
MA0063.10
MA0066.10.241938
MA0067.10.83875
MA0068.10.168508
MA0069.10.529912
MA0070.10.519883
MA0071.10.213282
MA0072.10.515863
MA0073.12.2876e-09
MA0074.10.23792
MA0076.10.379988
MA0077.10.508982
MA0078.10.31524
MA0081.10.109654
MA0083.12.32517
MA0084.11.01907
MA0087.10.513678
MA0088.10.0366926
MA0089.10
MA0090.10.800698
MA0091.12.22772
MA0092.10.146372
MA0093.10.268179
MA0095.10
MA0098.10
MA0100.10.252028
MA0101.10.272702
MA0103.10.536497
MA0105.10.00427625
MA0106.10.272934
MA0107.10.046982
MA0108.21.03141
MA0109.10
MA0111.10.136202
MA0113.10.285689
MA0114.10.68981
MA0115.10.766188
MA0116.10.0483327
MA0117.10.577217
MA0119.10.676972
MA0122.10.600851
MA0124.10.727093
MA0125.11.56326
MA0130.10
MA0131.10.329895
MA0132.10
MA0133.10
MA0135.10.570637
MA0136.11.27841
MA0139.10.411319
MA0140.10.211376
MA0141.10.108582
MA0142.10.374765
MA0143.10.285827
MA0144.10.155387
MA0145.10.356381
MA0146.11.04313e-05
MA0147.10.186237
MA0148.10.185927
MA0149.10.204488
MA0062.20.22708
MA0035.20.210872
MA0039.21.45259e-05
MA0138.20.316226
MA0002.20.267636
MA0137.20.0876366
MA0104.20.0293723
MA0047.20.263601
MA0112.21.27296
MA0065.20.220145
MA0150.10.124469
MA0151.10
MA0152.10.618168
MA0153.10.633172
MA0154.10.0235291
MA0155.10.176304
MA0156.10.620624
MA0157.10.352016
MA0158.10
MA0159.10.417407
MA0160.10.571442
MA0161.10
MA0162.17.59857e-05
MA0163.10.117023
MA0164.10.295453
MA0080.20.959473
MA0018.20.274004
MA0099.20.618776
MA0079.24.45182e-13
MA0102.21.05522
MA0258.10.953225
MA0259.10.0531061
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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C465&oldid=3067582"