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{{Coexpression_clusters
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|full_id=C2202_heart_left_Hepatocyte_diaphragm_liver_pancreas_tongue
|id=C2202
|ontology_enrichment_celltype=CL:0000680!1.69e-10!57;CL:0000056!1.69e-10!57;CL:0000355!1.69e-10!57;CL:0000136!4.43e-10!15;CL:0000187!4.49e-10!54;CL:0000183!5.22e-10!59;CL:0000393!1.20e-09!60;CL:0000211!1.20e-09!60;CL:0000192!9.34e-08!42;CL:0000514!9.34e-08!42;CL:0000055!2.70e-07!180;CL:0002334!3.48e-07!12;CL:0000359!4.07e-07!32
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.18e-32!115;UBERON:0000475!2.54e-23!365;UBERON:0000481!1.73e-18!347;UBERON:0000483!2.27e-15!309;UBERON:0000119!6.38e-15!312;UBERON:0001049!2.76e-14!57;UBERON:0005068!2.76e-14!57;UBERON:0006241!2.76e-14!57;UBERON:0007135!2.76e-14!57;UBERON:0005743!4.27e-14!86;UBERON:0001017!5.77e-14!82;UBERON:0000073!7.34e-14!94;UBERON:0001016!7.34e-14!94;UBERON:0000468!8.13e-14!659;UBERON:0002385!1.54e-13!63;UBERON:0001015!1.54e-13!63;UBERON:0000383!1.54e-13!63;UBERON:0000025!1.75e-13!194;UBERON:0003075!3.84e-13!86;UBERON:0007284!3.84e-13!86;UBERON:0002616!6.33e-13!59;UBERON:0001134!1.30e-12!61;UBERON:0002036!1.30e-12!61;UBERON:0003082!1.30e-12!61;UBERON:0000955!3.30e-12!69;UBERON:0006238!3.30e-12!69;UBERON:0004111!5.25e-12!241;UBERON:0002346!5.61e-12!90;UBERON:0000477!1.05e-11!286;UBERON:0002100!1.49e-11!216;UBERON:0004290!1.72e-11!70;UBERON:0003080!4.45e-11!42;UBERON:0002780!1.71e-10!41;UBERON:0001890!1.71e-10!41;UBERON:0006240!1.71e-10!41;UBERON:0002020!1.06e-09!34;UBERON:0003528!1.06e-09!34;UBERON:0001893!1.41e-09!34;UBERON:0000480!2.51e-09!626;UBERON:0002791!2.80e-09!33;UBERON:0000467!2.89e-09!625;UBERON:0000914!5.58e-09!83;UBERON:0002329!5.58e-09!83;UBERON:0003077!5.58e-09!83;UBERON:0003059!5.58e-09!83;UBERON:0007282!5.58e-09!83;UBERON:0009618!5.58e-09!83;UBERON:0007285!5.58e-09!83;UBERON:0001869!5.71e-09!32;UBERON:0005256!8.80e-09!143;UBERON:0003056!4.45e-08!61;UBERON:0000922!4.47e-08!612;UBERON:0000486!5.54e-08!82;UBERON:0000479!8.73e-08!787;UBERON:0003104!1.24e-07!238;UBERON:0009142!1.24e-07!238;UBERON:0002050!2.10e-07!605;UBERON:0005423!2.10e-07!605;UBERON:0000490!2.57e-07!138;UBERON:0000923!4.03e-07!604;UBERON:0005291!4.03e-07!604;UBERON:0006598!4.03e-07!604;UBERON:0002532!4.03e-07!604;UBERON:0001013!5.14e-07!14;UBERON:0004121!6.68e-07!169;UBERON:0000956!7.03e-07!25;UBERON:0000203!7.03e-07!25
}}

Latest revision as of 12:01, 17 September 2013


Full id: C2202_heart_left_Hepatocyte_diaphragm_liver_pancreas_tongue



Phase1 CAGE Peaks

Hg19::chr12:21927609..21927617,-p9@KCNJ8
Hg19::chr12:21927622..21927664,-p1@KCNJ8
Hg19::chr12:21927670..21927685,-p4@KCNJ8
Hg19::chr12:21927687..21927708,-p3@KCNJ8


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
fat cell1.35e-0915
preadipocyte2.02e-0812
muscle precursor cell4.13e-0858
myoblast4.13e-0858
multi-potent skeletal muscle stem cell4.13e-0858
contractile cell8.47e-0859
muscle cell1.46e-0755
electrically responsive cell2.60e-0761
electrically active cell2.60e-0761
Uber Anatomy
Ontology termp-valuen
adult organism1.73e-32114
multi-tissue structure2.48e-18342
anatomical cluster7.98e-15373
epithelium1.76e-13306
neural tube2.65e-1356
neural rod2.65e-1356
future spinal cord2.65e-1356
neural keel2.65e-1356
cell layer6.06e-13309
multi-cellular organism7.75e-13656
organ system subdivision2.76e-12223
regional part of nervous system4.59e-1253
regional part of brain4.59e-1253
tube5.10e-12192
central nervous system7.00e-1281
nervous system1.80e-1189
anatomical conduit2.53e-11240
muscle tissue4.72e-1164
musculature4.72e-1164
musculature of body4.72e-1164
trunk6.83e-11199
mesenchyme1.06e-10160
entire embryonic mesenchyme1.06e-10160
neural plate1.71e-1082
presumptive neural plate1.71e-1082
brain1.94e-1068
future brain1.94e-1068
skeletal muscle tissue4.12e-1062
striated muscle tissue4.12e-1062
myotome4.12e-1062
structure with developmental contribution from neural crest6.76e-10132
tissue8.83e-10773
neurectoderm1.03e-0986
anatomical system1.71e-09624
anatomical group2.27e-09625
regional part of forebrain2.34e-0941
forebrain2.34e-0941
anterior neural tube2.34e-0941
future forebrain2.34e-0941
organism subdivision2.53e-09264
trunk mesenchyme2.66e-09122
telencephalon1.15e-0834
brain grey matter1.22e-0834
gray matter1.22e-0834
paraxial mesoderm1.97e-0872
presumptive paraxial mesoderm1.97e-0872
dense mesenchyme tissue3.92e-0873
germ layer4.22e-08560
germ layer / neural crest4.22e-08560
embryonic tissue4.22e-08560
presumptive structure4.22e-08560
germ layer / neural crest derived structure4.22e-08560
epiblast (generic)4.22e-08560
somite4.26e-0871
presomitic mesoderm4.26e-0871
presumptive segmental plate4.26e-0871
dermomyotome4.26e-0871
trunk paraxial mesoderm4.26e-0871
embryonic structure4.91e-08564
regional part of telencephalon6.25e-0832
developing anatomical structure6.39e-08581
cerebral hemisphere6.65e-0832
embryo1.43e-07592
epithelial vesicle5.03e-0778
adipose tissue5.69e-0714


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)
MA0003.11.05935
MA0004.10.71247
MA0006.11.31813
MA0007.10.6918
MA0009.11.20602
MA0014.10.524262
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.11.92746
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.11.98521
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.13.20115
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.119.8761
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.11.4709
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.11.02755
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.12.72365
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.10.232357
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.15.10287
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.11.25938
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.23.66694
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.551048
MA0065.21.7213
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.11.21162
MA0155.11.02191
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.14.24646
MA0163.13.14178
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.226.5293
MA0102.21.75932
MA0258.11.07498
MA0259.10.471671
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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
ZBTB7A#5134147.35190930787590.000342223540015990.00345996943811519



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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