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Coexpression cluster:C4272

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Full id: C4272_Basophils_Mast_Natural_CD133_CD8_CD19_CD34



Phase1 CAGE Peaks

Hg19::chr3:120277765..120277810,-p@chr3:120277765..120277810
-
Hg19::chr3:42004048..42004069,+p@chr3:42004048..42004069
+
Hg19::chr3:42004071..42004088,+p@chr3:42004071..42004088
+


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
leukocyte6.25e-24136
hematopoietic stem cell6.25e-21168
angioblastic mesenchymal cell6.25e-21168
hematopoietic oligopotent progenitor cell1.64e-20161
hematopoietic multipotent progenitor cell1.64e-20161
hematopoietic lineage restricted progenitor cell4.69e-20120
nongranular leukocyte6.82e-19115
hematopoietic cell2.83e-18177
classical monocyte2.90e-1842
CD14-positive, CD16-negative classical monocyte2.90e-1842
myeloid leukocyte9.01e-1872
granulocyte monocyte progenitor cell4.39e-1567
defensive cell2.60e-1448
phagocyte2.60e-1448
myeloid cell9.73e-14108
common myeloid progenitor9.73e-14108
macrophage dendritic cell progenitor3.17e-1361
myeloid lineage restricted progenitor cell1.27e-1266
monopoietic cell2.93e-1259
monocyte2.93e-1259
monoblast2.93e-1259
promonocyte2.93e-1259
connective tissue cell1.95e-10361
mesenchymal cell3.14e-10354
motile cell2.84e-09386
intermediate monocyte1.06e-089
CD14-positive, CD16-positive monocyte1.06e-089
lymphoid lineage restricted progenitor cell3.42e-0752
lymphocyte6.84e-0753
common lymphoid progenitor6.84e-0753
Uber Anatomy
Ontology termp-valuen
bone marrow4.03e-1476
bone element1.35e-1382
skeletal element6.43e-1390
connective tissue3.10e-11371
hematopoietic system1.52e-1098
blood island1.52e-1098
immune system1.71e-1093
skeletal system5.70e-10100
hemolymphoid system3.90e-08108


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)
MA0003.10.0471418
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.13.22835
MA0027.12.95767
MA0028.10.658629
MA0029.11.23771
MA0030.11.22561
MA0031.11.15713
MA0038.10.94098
MA0040.11.24388
MA0041.10.847069
MA0042.10.810843
MA0043.11.32783
MA0046.11.31611
MA0048.10.341392
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.10.190716
MA0056.10
MA0057.10.333427
MA0058.10.716037
MA0059.10.714521
MA0060.13.15662
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.11.04561
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.0185922
MA0074.10.935474
MA0076.11.74184
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.257905
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.31555
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.11.35563
MA0115.11.57693
MA0116.10.560723
MA0117.11.36676
MA0119.10.695578
MA0122.11.39371
MA0124.11.53432
MA0125.11.44766
MA0130.10
MA0131.11.06461
MA0132.10
MA0133.10
MA0135.11.35921
MA0136.10.948776
MA0139.10.440097
MA0140.10.894983
MA0141.10.712476
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.21.141
MA0035.20.894194
MA0039.20.195278
MA0138.21.04628
MA0002.21.20011
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.21.34467
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.256269
MA0156.11.60572
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.10.776149
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.09178
MA0102.21.88331
MA0258.11.29138
MA0259.10.575594
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
CTBP2#1488241.81133355955210.0007543408259914850.00593600071773091
ELK4#2005210.8237877723120.01091284719516480.0402090967795313
GATA3#2625218.15767757147070.003944546819279620.0189548415044973
IRF4#3662214.60967512449610.006056122473217890.0268518520475654
JUN#3725312.51282919233630.0005103313992726250.00445155775566973
JUND#372736.994663941871030.002921845042734990.0157174645592686
MAX#414936.452555509007120.003721913834265510.0187043094474476
MXI1#460139.96157162875930.001011470541259020.00721662603214585
NFKB1#479035.488063424193840.006049381815655430.0270261961519972
NFYA#4800212.28372046655370.008516011403724430.0324848867743006
NFYB#4801211.17319550235760.01025467135054530.0381446600840402
RFX5#5993312.04791082719510.0005717246050312580.00485805435073302
SMC3#9126315.04493284493280.0002935825420371870.00309930932051165
SREBF1#6720231.33723296032550.00133816265136180.00887736575910407
STAT1#6772213.80439166479950.006770931708444080.0287587676073932
TFAP2A#7020211.01242291536330.01054990655215560.0390274047322394
THAP1#55145220.91276306856750.002983447413736940.0158730649232436
TRIM28#10155212.39368336350830.008368344129438470.0329307269229248
YY1#752834.911170749853860.008441455341808260.0330342159188816



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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