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{{Coexpression_clusters
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|full_id=C2299_Mesenchymal_CD14_CD4_NK_granulocyte_Basophils_Anulus
|id=C2299
|ontology_enrichment_celltype=CL:0000766!9.79e-27!76;CL:0002057!1.02e-26!42;CL:0002320!8.17e-25!365;CL:0000557!1.13e-23!71;CL:0000839!1.86e-23!70;CL:0000860!1.36e-22!45;CL:0000048!2.64e-22!430;CL:0000134!3.26e-22!358;CL:0002194!4.03e-22!63;CL:0000576!4.03e-22!63;CL:0000040!4.03e-22!63;CL:0000559!4.03e-22!63;CL:0002009!8.74e-21!65;CL:0000034!1.46e-20!444;CL:0000723!2.27e-20!436;CL:0000738!3.91e-19!140;CL:0002087!9.82e-18!119;CL:0002031!1.10e-17!124;CL:0000219!2.88e-16!390;CL:0000763!2.06e-13!112;CL:0000049!2.06e-13!112;CL:0000037!2.13e-13!172;CL:0000566!2.13e-13!172;CL:0000988!1.72e-12!182;CL:0002032!2.84e-12!165;CL:0000837!2.84e-12!165;CL:0000791!1.24e-10!18;CL:0000789!1.24e-10!18;CL:0002420!1.24e-10!18;CL:0002419!1.24e-10!18;CL:0000790!1.24e-10!18;CL:0000625!1.61e-07!11;CL:0002393!2.12e-07!9;CL:0002397!2.12e-07!9;CL:0002371!2.92e-07!591
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!1.29e-29!102;UBERON:0003061!1.29e-29!102;UBERON:0002193!1.03e-25!112;UBERON:0002371!6.37e-25!80;UBERON:0002384!5.76e-24!375;UBERON:0004765!1.59e-22!101;UBERON:0001434!1.59e-22!101;UBERON:0001474!2.53e-22!86;UBERON:0002204!4.03e-22!167;UBERON:0002405!1.27e-18!115;UBERON:0003081!5.85e-11!216;UBERON:0000926!1.80e-08!448;UBERON:0004120!1.80e-08!448;UBERON:0006603!1.80e-08!448
}}

Latest revision as of 12:02, 17 September 2013


Full id: C2299_Mesenchymal_CD14_CD4_NK_granulocyte_Basophils_Anulus



Phase1 CAGE Peaks

Hg19::chr14:52780943..52780957,+p2@PTGER2
Hg19::chr14:52780998..52781056,+p1@PTGER2
Hg19::chr14:52782140..52782164,-p@chr14:52782140..52782164
-
Hg19::chr14:52782184..52782227,-p@chr14:52782184..52782227
-


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
myeloid leukocyte4.77e-3672
classical monocyte1.19e-3242
CD14-positive, CD16-negative classical monocyte1.19e-3242
granulocyte monocyte progenitor cell2.12e-3267
defensive cell4.55e-3248
phagocyte4.55e-3248
myeloid lineage restricted progenitor cell1.39e-3166
monopoietic cell1.27e-3059
monocyte1.27e-3059
monoblast1.27e-3059
promonocyte1.27e-3059
leukocyte8.78e-29136
macrophage dendritic cell progenitor9.28e-2961
nongranular leukocyte1.05e-26115
hematopoietic lineage restricted progenitor cell7.11e-26120
hematopoietic stem cell7.45e-24168
angioblastic mesenchymal cell7.45e-24168
hematopoietic cell3.46e-23177
myeloid cell2.42e-22108
common myeloid progenitor2.42e-22108
hematopoietic oligopotent progenitor cell4.06e-22161
hematopoietic multipotent progenitor cell4.06e-22161
connective tissue cell2.10e-17361
mesenchymal cell4.20e-15354
multi fate stem cell4.51e-14427
stuff accumulating cell7.29e-1487
mature alpha-beta T cell3.01e-1318
alpha-beta T cell3.01e-1318
immature T cell3.01e-1318
mature T cell3.01e-1318
immature alpha-beta T cell3.01e-1318
stem cell3.31e-13441
somatic stem cell4.79e-13433
motile cell7.50e-11386
CD8-positive, alpha-beta T cell3.83e-0911
intermediate monocyte8.36e-099
CD14-positive, CD16-positive monocyte8.36e-099
T cell6.87e-0825
pro-T cell6.87e-0825
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.44e-4098
blood island5.44e-4098
hemolymphoid system1.74e-35108
bone marrow5.57e-3376
skeletal system2.53e-30100
immune system4.43e-3093
skeletal element5.08e-3090
bone element1.71e-2982
musculoskeletal system1.42e-24167
connective tissue1.50e-16371
mesoderm4.66e-13315
mesoderm-derived structure4.66e-13315
presumptive mesoderm4.66e-13315
lateral plate mesoderm5.36e-11203


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
MA0006.10.532262
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
MA0038.10.824639
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
MA0055.10.396851
MA0056.10
MA0057.10.69331
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.536981
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.11.33363
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
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.10.779643
MA0141.11.46638
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.11.70272
MA0146.10.8309
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.483275
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.21.05083
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.649108
MA0155.11.02191
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.11.57817
MA0163.10.539587
MA0164.10.90014
MA0080.21.32578
MA0018.20.870662
MA0099.20.7872
MA0079.20.476674
MA0102.21.75932
MA0258.10.418966
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

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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