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Coexpression cluster:C592: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0001004!9.53e-20!74;UBERON:0003102!6.36e-19!99;UBERON:0001949!2.57e-15!3;UBERON:0000065!2.62e-15!54;UBERON:0004815!3.11e-14!3;UBERON:0002031!3.11e-14!3;UBERON:0000153!4.11e-13!62;UBERON:0007811!4.11e-13!62;UBERON:0004119!1.07e-11!160;UBERON:0000925!1.07e-11!160;UBERON:0006595!1.07e-11!160;UBERON:0004807!1.48e-11!28;UBERON:0001708!1.54e-11!4;UBERON:0008895!1.54e-11!4;UBERON:0000033!4.20e-11!56;UBERON:0002419!1.27e-10!2;UBERON:0007771!1.27e-10!2;UBERON:0003297!1.27e-10!2;UBERON:0001821!1.27e-10!2;UBERON:0003487!1.27e-10!2;UBERON:0001820!1.27e-10!2;UBERON:0005089!1.27e-10!2;UBERON:0005088!1.27e-10!2;UBERON:0007196!2.09e-10!15;UBERON:0001558!2.09e-10!15;UBERON:0011159!2.59e-09!5;UBERON:0000166!3.08e-09!22;UBERON:0000072!3.60e-09!47;UBERON:0003729!5.74e-09!13;UBERON:0000165!7.84e-09!29;UBERON:0000930!7.84e-09!29;UBERON:0002185!1.00e-08!5;UBERON:0000161!1.42e-08!36;UBERON:0008814!1.78e-08!18;UBERON:0000344!7.68e-08!20;UBERON:0010188!7.98e-08!6;UBERON:0002539!7.98e-08!6;UBERON:0008816!7.98e-08!6;UBERON:0001007!1.11e-07!145;UBERON:0001555!1.11e-07!145;UBERON:0007026!1.11e-07!145;UBERON:0001003!1.22e-07!15;UBERON:0007376!1.22e-07!15;UBERON:0007383!1.22e-07!15;UBERON:0005157!1.31e-07!47;UBERON:0001444!2.04e-07!49;UBERON:0005178!2.43e-07!34;UBERON:0002224!2.43e-07!34;UBERON:0005181!4.28e-07!35;UBERON:0001042!6.71e-07!10;UBERON:0009145!6.71e-07!10
|ontology_enrichment_uberon=UBERON:0001004!9.53e-20!74;UBERON:0003102!6.36e-19!99;UBERON:0001949!2.57e-15!3;UBERON:0000065!2.62e-15!54;UBERON:0004815!3.11e-14!3;UBERON:0002031!3.11e-14!3;UBERON:0000153!4.11e-13!62;UBERON:0007811!4.11e-13!62;UBERON:0004119!1.07e-11!160;UBERON:0000925!1.07e-11!160;UBERON:0006595!1.07e-11!160;UBERON:0004807!1.48e-11!28;UBERON:0001708!1.54e-11!4;UBERON:0008895!1.54e-11!4;UBERON:0000033!4.20e-11!56;UBERON:0002419!1.27e-10!2;UBERON:0007771!1.27e-10!2;UBERON:0003297!1.27e-10!2;UBERON:0001821!1.27e-10!2;UBERON:0003487!1.27e-10!2;UBERON:0001820!1.27e-10!2;UBERON:0005089!1.27e-10!2;UBERON:0005088!1.27e-10!2;UBERON:0007196!2.09e-10!15;UBERON:0001558!2.09e-10!15;UBERON:0011159!2.59e-09!5;UBERON:0000166!3.08e-09!22;UBERON:0000072!3.60e-09!47;UBERON:0003729!5.74e-09!13;UBERON:0000165!7.84e-09!29;UBERON:0000930!7.84e-09!29;UBERON:0002185!1.00e-08!5;UBERON:0000161!1.42e-08!36;UBERON:0008814!1.78e-08!18;UBERON:0000344!7.68e-08!20;UBERON:0010188!7.98e-08!6;UBERON:0002539!7.98e-08!6;UBERON:0008816!7.98e-08!6;UBERON:0001007!1.11e-07!145;UBERON:0001555!1.11e-07!145;UBERON:0007026!1.11e-07!145;UBERON:0001003!1.22e-07!15;UBERON:0007376!1.22e-07!15;UBERON:0007383!1.22e-07!15;UBERON:0005157!1.31e-07!47;UBERON:0001444!2.04e-07!49;UBERON:0005178!2.43e-07!34;UBERON:0002224!2.43e-07!34;UBERON:0005181!4.28e-07!35;UBERON:0001042!6.71e-07!10;UBERON:0009145!6.71e-07!10
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|tfbs_overrepresentation_for_novel_motifs=0.172755,0.000776662,0.167518,1.39181,0.847893,0.276158,0.338925,0.241,0.237344,0.00447394,0.252096,2.61894,0.0469688,0.329255,0.427489,0.467196,1.32362,0.692936,0.19463,0.0681593,0.16756,0.0341236,0.743358,0.135481,0.581509,0.395548,0.348576,0.268197,0.140919,0.310781,1.23363,0.568576,0.0851517,0.180835,0.116543,0.199172,0.114552,0.27709,0.675484,0.0583135,0.370199,0.222502,0.118046,0.424942,0.0661778,0.189598,0.339845,0.243586,0.104986,0.8571,0.407934,0.349819,0.0202125,0.639823,0.784252,0.331716,0.442382,0.304469,2.79371,0.303639,0.606437,0.341844,0.877679,0.509653,0.357077,0.478604,0.869007,1.22829,0.559029,1.06908,0.212516,0.0712089,0.68736,0.782342,0.689933,0.0398911,4.11548,0.494371,0.556046,1.0831,1.65883,1.26797,0.356776,0.0697103,0.733386,0.00154893,0.175802,0.871857,1.10067,1.32629,0.95934,0.70782,0.584068,0.299574,0.139351,1.09545,9.67336,0.623577,0.434875,0.0255063,0.33179,1.41666,0.618385,1.33072,0.468285,0.248535,0.523764,0.326366,0.20048,0.128402,0.175484,0.61581,0.163638,0.259545,0.912801,1.76541,0.00237972,0.234099,0.476505,2.13562,0.77444,0.428661,0.273941,0.366411,1.02031,0.495057,1.59359,0.588683,0.815183,0.661484,0.708473,0.667822,0.828971,0.363559,0.971853,0.0284956,0.230408,0.740422,0.930667,1.77777,1.3781,0.894557,0.335034,1.50374,0.469857,0.297516,0.454976,1.61933,0.219968,0.0873523,0.0167889,0.00708394,0.708834,0.489782,0.341434,1.09904,0.41656,0.808193,0.200711,0.179634,0.893382,1.65203,0.555323,0.181952,1.21586,0.356103,0.0806293,0.337803,4.86543e-05
}}
}}

Revision as of 14:20, 26 November 2012


Full id: C592_Sebocyte_Small_Keratinocyte_Gingival_Mallassezderived_oral_Tracheal



Phase1 CAGE Peaks

Hg19::chr12:122388174..122388213,+p@chr12:122388174..122388213
+
Hg19::chr13:52151092..52151139,+p@chr13:52151092..52151139
+
Hg19::chr21:44957855..44957891,-p@chr21:44957855..44957891
-
Hg19::chr3:189654013..189654016,-p@chr3:189654013..189654016
-
Hg19::chr5:167246635..167246654,+p@chr5:167246635..167246654
+
Hg19::chr5:167246664..167246691,+p@chr5:167246664..167246691
+
Hg19::chr5:167246696..167246714,+p@chr5:167246696..167246714
+
Hg19::chr5:167247103..167247112,+p@chr5:167247103..167247112
+
Hg19::chr5:167247119..167247129,+p@chr5:167247119..167247129
+
Hg19::chr5:167247199..167247212,+p@chr5:167247199..167247212
+
Hg19::chr5:167247213..167247223,+p@chr5:167247213..167247223
+
Hg19::chr5:167247265..167247320,+p@chr5:167247265..167247320
+
Hg19::chr5:167247323..167247334,+p@chr5:167247323..167247334
+
Hg19::chr5:167247340..167247349,+p@chr5:167247340..167247349
+
Hg19::chr5:167247366..167247380,+p@chr5:167247366..167247380
+


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><br>

Cell Type
Ontology termp-valuen
endo-epithelial cell3.66e-3542
respiratory epithelial cell8.66e-3413
general ecto-epithelial cell7.70e-3214
endodermal cell3.36e-2458
epithelial cell of tracheobronchial tree9.39e-189
epithelial cell of lower respiratory tract9.39e-189
ecto-epithelial cell3.26e-1734
epithelial cell5.60e-17253
gingival epithelial cell2.57e-153
epithelial cell of Malassez3.10e-153
duct epithelial cell1.89e-143
branched duct epithelial cell1.89e-143
tracheal epithelial cell1.89e-143
tracheoblast1.89e-143
bronchial epithelial cell3.11e-143
epidermal cell6.02e-139
stratified squamous epithelial cell1.11e-126
keratin accumulating cell1.11e-126
stratified epithelial cell1.11e-126
keratinizing barrier epithelial cell1.11e-126
epithelial fate stem cell1.11e-126
stratified epithelial stem cell1.11e-126
surface ectodermal cell1.11e-126
embryonic cell1.34e-11250
sebum secreting cell1.27e-102
epithelial cell of sweat gland1.27e-102
epithelial cell of skin gland1.27e-102
acinar cell of sebaceous gland1.27e-102
epithelial cell of alimentary canal1.40e-1020
corneal epithelial cell4.23e-102
keratinocyte5.71e-095
acinar cell7.08e-095
ectodermal cell7.86e-0872
protein secreting cell1.83e-076
epithelial cell of prostate9.63e-073
Uber Anatomy
Ontology termp-valuen
respiratory system9.53e-2074
surface structure6.36e-1999
gingival epithelium2.57e-153
respiratory tract2.62e-1554
lower respiratory tract epithelium3.11e-143
epithelium of bronchus3.11e-143
anterior region of body4.11e-1362
craniocervical region4.11e-1362
endoderm-derived structure1.07e-11160
endoderm1.07e-11160
presumptive endoderm1.07e-11160
respiratory system epithelium1.48e-1128
jaw skeleton1.54e-114
splanchnocranium1.54e-114
head4.20e-1156
skin gland1.27e-102
epidermis gland1.27e-102
gland of integumental system1.27e-102
sebaceous gland1.27e-102
skin sebaceous gland1.27e-102
sweat gland1.27e-102
sweat gland placode1.27e-102
sebaceous gland placode1.27e-102
tracheobronchial tree2.09e-1015
lower respiratory tract2.09e-1015
primary subdivision of cranial skeletal system2.59e-095
oral opening3.08e-0922
segment of respiratory tract3.60e-0947
mouth mucosa5.74e-0913
mouth7.84e-0929
stomodeum7.84e-0929
bronchus1.00e-085
orifice1.42e-0836
pharyngeal arch system1.78e-0818
mucosa7.68e-0820
protuberance7.98e-086
pharyngeal arch7.98e-086
embryonic head7.98e-086
digestive system1.11e-07145
digestive tract1.11e-07145
primitive gut1.11e-07145
skin epidermis1.22e-0715
outer epithelium1.22e-0715
enveloping layer of ectoderm1.22e-0715
epithelial fold1.31e-0747
subdivision of head2.04e-0749
thoracic cavity element2.43e-0734
thoracic cavity2.43e-0734
thoracic segment organ4.28e-0735
chordate pharynx6.71e-0710
pharyngeal region of foregut6.71e-0710


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)

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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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