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Coexpression cluster:C536

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Full id: C536_Chondrocyte_Mallassezderived_liver_mesothelioma_Adipocyte_serous_tenocyte



Phase1 CAGE Peaks

Hg19::chr11:73003801..73003812,+p5@P2RY6
Hg19::chr11:73003824..73003859,+p4@P2RY6
Hg19::chr12:54651599..54651610,-p40@CBX5
Hg19::chr12:57629258..57629306,-p@chr12:57629258..57629306
-
Hg19::chr1:172224417..172224440,+p@chr1:172224417..172224440
+
Hg19::chr1:172224446..172224459,+p@chr1:172224446..172224459
+
Hg19::chr1:186265353..186265386,+p2@PRG4
Hg19::chr1:186265399..186265414,+p3@PRG4
Hg19::chr1:186265958..186265975,+p1@PRG4
Hg19::chr1:186275480..186275498,+p@chr1:186275480..186275498
+
Hg19::chr1:186277186..186277192,+p@chr1:186277186..186277192
+
Hg19::chr1:203148612..203148623,-p12@CHI3L1
Hg19::chr4:71384280..71384295,+p1@AMTN
Hg19::chr4:71384300..71384314,+p2@AMTN
Hg19::chr6:44192182..44192212,+p@chr6:44192182..44192212
+
Hg19::chr7:138440637..138440651,-p6@ATP6V0A4
Hg19::chr8:37535618..37535621,+p@chr8:37535618..37535621
+


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:0001503ossification0.00640592717668816
GO:0031214biomineral formation0.00640592717668816
GO:0046849bone remodeling0.00640592717668816
GO:0048771tissue remodeling0.00640592717668816
GO:0045029UDP-activated nucleotide receptor activity0.0109394665143773
GO:0044421extracellular region part0.0109394665143773
GO:0015065uridine nucleotide receptor activity0.0112417520314546
GO:0010369chromocenter0.0112417520314546
GO:0001501skeletal development0.0112417520314546
GO:0009888tissue development0.0187424580794987
GO:0033176proton-transporting V-type ATPase complex0.0187424580794987
GO:0016471vacuolar proton-transporting V-type ATPase complex0.0187424580794987
GO:0030321transepithelial chloride transport0.0197708084273638
GO:0031526brush border membrane0.020651913924604
GO:0031253cell projection membrane0.0209419681294724
GO:0005720nuclear heterochromatin0.0209419681294724
GO:0005578proteinaceous extracellular matrix0.0209419681294724
GO:0006032chitin catabolic process0.0209419681294724
GO:0006046N-acetylglucosamine catabolic process0.0209419681294724
GO:0006043glucosamine catabolic process0.0209419681294724
GO:0046348amino sugar catabolic process0.0209419681294724
GO:0006030chitin metabolic process0.0209419681294724
GO:0004568chitinase activity0.0209419681294724
GO:0042475odontogenesis of dentine-containing teeth0.0240726321286024
GO:0005615extracellular space0.0240726321286024
GO:0000792heterochromatin0.0240726321286024
GO:0044247cellular polysaccharide catabolic process0.0240726321286024
GO:0000272polysaccharide catabolic process0.0240726321286024
GO:0000790nuclear chromatin0.0246039581569741
GO:0005903brush border0.0246039581569741
GO:0042476odontogenesis0.0258769327209588
GO:0044459plasma membrane part0.02962117468154
GO:0000776kinetochore0.0301294004526983
GO:0006885regulation of pH0.0311253213876219
GO:0006044N-acetylglucosamine metabolic process0.0311499775159384
GO:0006041glucosamine metabolic process0.0311731329495279
GO:0005605basal lamina0.0327877433031848
GO:0006040amino sugar metabolic process0.0327877433031848
GO:0007588excretion0.0327877433031848
GO:0045028purinergic nucleotide receptor activity, G-protein coupled0.0327877433031848
GO:0001608nucleotide receptor activity, G-protein coupled0.0327877433031848
GO:0016502nucleotide receptor activity0.0327877433031848
GO:0001614purinergic nucleotide receptor activity0.0327877433031848
GO:0044463cell projection part0.0342197334329908
GO:0016020membrane0.035877530424629
GO:0005774vacuolar membrane0.0431306493098143
GO:0044437vacuolar part0.0435682734962295
GO:0044454nuclear chromosome part0.0443887852564877
GO:0016324apical plasma membrane0.0443887852564877
GO:0005604basement membrane0.0473184421331456
GO:0000775chromosome, pericentric region0.0476374206378702
GO:0044264cellular polysaccharide metabolic process0.0493340200671556
GO:0005976polysaccharide metabolic process0.0493340200671556
GO:0045177apical part of cell0.0493340200671556
GO:0006821chloride transport0.0493340200671556
GO:0007200G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.0493340200671556
GO:0048513organ development0.0493340200671556



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><br>

Cell Type
Ontology termp-valuen
GAG secreting cell5.88e-459
carbohydrate secreting cell5.88e-459
collagen secreting cell1.32e-306
chondroblast1.32e-306
chondrocyte1.32e-306
extracellular matrix secreting cell6.84e-2715
stromal cell3.29e-1928
synovial cell4.30e-163
secretory cell5.23e-1136


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)
MA0003.10.00176401
MA0004.10.221943
MA0006.10.112549
MA0007.10.208008
MA0009.10.621697
MA0014.10.000129423
MA0017.10.425352
MA0019.10.340029
MA0024.10.525161
MA0025.10.747404
MA0027.12.20546
MA0028.10.122394
MA0029.10.542771
MA0030.10.532314
MA0031.11.19386
MA0038.10.302644
MA0040.10.548121
MA0041.10.664972
MA0042.10.211928
MA0043.10.621991
MA0046.10.611559
MA0048.10.0140676
MA0050.10.212584
MA0051.10.299199
MA0052.10.551663
MA0055.10.0307766
MA0056.10
MA0057.10.551171
MA0058.10.153757
MA0059.10.15289
MA0060.10.18988
MA0061.10.0397345
MA0063.10
MA0066.10.302992
MA0067.10.924196
MA0068.10.0264141
MA0069.10.607975
MA0070.10.597583
MA0071.10.27142
MA0072.10.593415
MA0073.17.77954e-06
MA0074.10.298586
MA0076.10.164578
MA0077.10.586275
MA0078.10.382364
MA0081.10.152999
MA0083.10.628701
MA0084.11.10674
MA0087.10.591148
MA0088.10.176197
MA0089.10
MA0090.10.174619
MA0091.10.636604
MA0092.10.195947
MA0093.10.114388
MA0095.10
MA0098.10
MA0100.10.314026
MA0101.10.116395
MA0103.10.10701
MA0105.10.0103933
MA0106.10.33677
MA0107.10.0748038
MA0108.20.471286
MA0109.10
MA0111.10.184188
MA0113.10.924932
MA0114.10.537797
MA0115.10.850405
MA0116.12.56131
MA0117.10.656858
MA0119.10.862312
MA0122.10.681203
MA0124.11.89847
MA0125.10.730403
MA0130.10
MA0131.10.398042
MA0132.10
MA0133.10
MA0135.10.650071
MA0136.10.30842
MA0139.10.0351037
MA0140.10.269307
MA0141.11.44802
MA0142.10.445733
MA0143.10.350722
MA0144.11.2999
MA0145.10.365524
MA0146.10.0122826
MA0147.10.0784275
MA0148.10.676348
MA0149.10.261654
MA0062.20.0377014
MA0035.20.740647
MA0039.20.000177053
MA0138.20.38342
MA0002.20.393994
MA0137.21.87531
MA0104.20.188874
MA0047.20.87164
MA0112.20.188138
MA0065.20.098884
MA0150.10.170499
MA0151.10
MA0152.12.12118
MA0153.10.714423
MA0154.10.0498326
MA0155.10.025611
MA0156.10.12788
MA0157.11.8983
MA0158.10
MA0159.10.0787617
MA0160.10.252705
MA0161.10
MA0162.10.000394937
MA0163.10.166772
MA0164.10.361105
MA0080.20.11444
MA0018.20.337929
MA0099.20.754549
MA0079.26.23878e-05
MA0102.21.14323
MA0258.10.0605489
MA0259.10.0828875
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.

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