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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0,0

Latest revision as of 10:36, 17 September 2013


Full id: C119_CD4_CD8_Natural_Neutrophils_CD14_Peripheral_CD19



Phase1 CAGE Peaks

Hg19::chr10:104154623..104154634,-p@chr10:104154623..104154634
-
Hg19::chr10:104154653..104154676,-p@chr10:104154653..104154676
-
Hg19::chr10:112651237..112651241,+p@chr10:112651237..112651241
+
Hg19::chr10:11353826..11353848,+p@chr10:11353826..11353848
+
Hg19::chr10:65027874..65027877,-p@chr10:65027874..65027877
-
Hg19::chr10:65027985..65027997,-p@chr10:65027985..65027997
-
Hg19::chr10:92933352..92933355,+p@chr10:92933352..92933355
+
Hg19::chr11:116949703..116949707,-p@chr11:116949703..116949707
-
Hg19::chr11:116965905..116965909,-p@chr11:116965905..116965909
-
Hg19::chr11:11864406..11864410,+p@chr11:11864406..11864410
+
Hg19::chr11:128392930..128392935,-p@chr11:128392930..128392935
-
Hg19::chr11:236540..236552,+p4@PSMD13
Hg19::chr12:107474424..107474428,-p@chr12:107474424..107474428
-
Hg19::chr12:107474519..107474540,-p@chr12:107474519..107474540
-
Hg19::chr12:123007386..123007400,-p13@RSRC2
Hg19::chr12:42600096..42600100,-p@chr12:42600096..42600100
-
Hg19::chr12:46646776..46646779,-p@chr12:46646776..46646779
-
Hg19::chr12:46655021..46655038,-p@chr12:46655021..46655038
-
Hg19::chr12:76459827..76459839,-p@chr12:76459827..76459839
-
Hg19::chr12:76477250..76477254,-p@chr12:76477250..76477254
-
Hg19::chr12:76888073..76888081,-p@chr12:76888073..76888081
-
Hg19::chr12:76897863..76897867,-p@chr12:76897863..76897867
-
Hg19::chr12:76907432..76907453,-p@chr12:76907432..76907453
-
Hg19::chr12:76907895..76907908,-p@chr12:76907895..76907908
-
Hg19::chr12:76923300..76923308,-p@chr12:76923300..76923308
-
Hg19::chr12:76930594..76930597,-p@chr12:76930594..76930597
-
Hg19::chr12:76938616..76938625,-p@chr12:76938616..76938625
-
Hg19::chr12:76947457..76947461,-p@chr12:76947457..76947461
-
Hg19::chr12:96788573..96788578,-p@chr12:96788573..96788578
-
Hg19::chr13:114857364..114857368,-p@chr13:114857364..114857368
-
Hg19::chr13:114857775..114857792,-p@chr13:114857775..114857792
-
Hg19::chr13:42040169..42040200,+p@chr13:42040169..42040200
+
Hg19::chr13:42040361..42040370,+p@chr13:42040361..42040370
+
Hg19::chr13:74666129..74666133,-p@chr13:74666129..74666133
-
Hg19::chr14:102231155..102231159,+p@chr14:102231155..102231159
+
Hg19::chr14:73571851..73571854,+p@chr14:73571851..73571854
+
Hg19::chr14:73572244..73572278,+p13@RBM25
Hg19::chr14:73572416..73572428,+p20@RBM25
Hg19::chr14:91487293..91487316,-p@chr14:91487293..91487316
-
Hg19::chr15:31662268..31662273,+p@chr15:31662268..31662273
+
Hg19::chr15:44830501..44830505,+p@chr15:44830501..44830505
+
Hg19::chr15:49439919..49439923,-p@chr15:49439919..49439923
-
Hg19::chr15:63821398..63821402,+p@chr15:63821398..63821402
+
Hg19::chr15:64090742..64090747,-p@chr15:64090742..64090747
-
Hg19::chr15:64118980..64118984,-p@chr15:64118980..64118984
-
Hg19::chr15:93375332..93375348,+p@chr15:93375332..93375348
+
Hg19::chr16:12005900..12005904,-p@chr16:12005900..12005904
-
Hg19::chr16:16055647..16055651,+p@chr16:16055647..16055651
+
Hg19::chr16:2805077..2805090,+p@chr16:2805077..2805090
+
Hg19::chr16:2805903..2805918,+p4@AB384460
Hg19::chr17:76800704..76800708,-p@chr17:76800704..76800708
-
Hg19::chr18:9235961..9235966,+p@chr18:9235961..9235966
+
Hg19::chr19:19711327..19711332,-p@chr19:19711327..19711332
-
Hg19::chr19:19724251..19724255,-p@chr19:19724251..19724255
-
Hg19::chr19:41837891..41837901,-p@chr19:41837891..41837901
-
Hg19::chr1:100852581..100852585,+p@chr1:100852581..100852585
+
Hg19::chr1:114500490..114500496,+p@chr1:114500490..114500496
+
Hg19::chr1:14078034..14078040,+p@chr1:14078034..14078040
+
Hg19::chr1:151733371..151733385,-p2@MRPL9
Hg19::chr1:91418566..91418570,-p@chr1:91418566..91418570
-
Hg19::chr20:39706609..39706614,+p@chr20:39706609..39706614
+
Hg19::chr20:48532257..48532296,-p3@SPATA2
Hg19::chr21:38742604..38742609,+p@chr21:38742604..38742609
+
Hg19::chr22:31686755..31686762,-p11@PIK3IP1
Hg19::chr2:109349738..109349742,+p@chr2:109349738..109349742
+
Hg19::chr2:144425868..144425873,+p@chr2:144425868..144425873
+
Hg19::chr2:158263168..158263180,-p@chr2:158263168..158263180
-
Hg19::chr2:158263415..158263426,-p@chr2:158263415..158263426
-
Hg19::chr2:201726817..201726830,-p1@AB385095
p1@CU689170
Hg19::chr2:201726882..201726895,-p4@AB385095
p4@CU689170
Hg19::chr2:208395498..208395544,-p@chr2:208395498..208395544
-
Hg19::chr2:238604411..238604415,+p@chr2:238604411..238604415
+
Hg19::chr2:238632708..238632710,+p@chr2:238632708..238632710
+
Hg19::chr2:30374508..30374519,+p@chr2:30374508..30374519
+
Hg19::chr2:42403149..42403151,+p@chr2:42403149..42403151
+
Hg19::chr2:42406418..42406423,+p@chr2:42406418..42406423
+
Hg19::chr2:42435947..42435950,+p@chr2:42435947..42435950
+
Hg19::chr2:42454630..42454634,+p@chr2:42454630..42454634
+
Hg19::chr2:42491268..42491272,+p@chr2:42491268..42491272
+
Hg19::chr2:42509260..42509289,+p@chr2:42509260..42509289
+
Hg19::chr2:43450988..43451009,+p@chr2:43450988..43451009
+
Hg19::chr2:44415551..44415555,+p@chr2:44415551..44415555
+
Hg19::chr2:54131142..54131150,-p@chr2:54131142..54131150
-
Hg19::chr2:54143375..54143380,-p@chr2:54143375..54143380
-
Hg19::chr3:150331479..150331484,+p@chr3:150331479..150331484
+
Hg19::chr3:156871560..156871581,-p8@CCNL1
Hg19::chr3:156876358..156876378,-p@chr3:156876358..156876378
-
Hg19::chr3:24004520..24004523,+p@chr3:24004520..24004523
+
Hg19::chr3:66317021..66317026,+p@chr3:66317021..66317026
+
Hg19::chr4:144437378..144437381,+p@chr4:144437378..144437381
+
Hg19::chr4:26863956..26863961,+p@chr4:26863956..26863961
+
Hg19::chr4:26888828..26888832,+p@chr4:26888828..26888832
+
Hg19::chr4:78718253..78718257,-p@chr4:78718253..78718257
-
Hg19::chr4:78720855..78720860,-p@chr4:78720855..78720860
-
Hg19::chr4:78733020..78733033,-p@chr4:78733020..78733033
-
Hg19::chr4:78737665..78737673,-p@chr4:78737665..78737673
-
Hg19::chr5:133483661..133483664,-p@chr5:133483661..133483664
-
Hg19::chr5:137847883..137847887,-p@chr5:137847883..137847887
-
Hg19::chr5:32592645..32592684,+p@chr5:32592645..32592684
+
Hg19::chr5:78546489..78546494,+p@chr5:78546489..78546494
+
Hg19::chr5:86679492..86679496,-p@chr5:86679492..86679496
-
Hg19::chr5:86688887..86688891,-p1@AF147385
Hg19::chr5:86702025..86702037,-p@chr5:86702025..86702037
-
Hg19::chr5:93347585..93347589,-p@chr5:93347585..93347589
-
Hg19::chr6:108120964..108120970,-p@chr6:108120964..108120970
-
Hg19::chr6:112173933..112173944,-p@chr6:112173933..112173944
-
Hg19::chr6:112180041..112180045,-p5@FYN
Hg19::chr6:112189200..112189211,-p@chr6:112189200..112189211
-
Hg19::chr6:112193883..112193886,-p@chr6:112193883..112193886
-
Hg19::chr6:136595436..136595441,-p@chr6:136595436..136595441
-
Hg19::chr6:136604313..136604317,-p@chr6:136604313..136604317
-
Hg19::chr6:17706964..17706975,-p6@NUP153
Hg19::chr6:36562566..36562576,+p2@SRSF3
Hg19::chr7:104657935..104657939,+p@chr7:104657935..104657939
+
Hg19::chr7:130639708..130639711,-p@chr7:130639708..130639711
-
Hg19::chr7:130682516..130682520,-p@chr7:130682516..130682520
-
Hg19::chr7:130696594..130696598,-p@chr7:130696594..130696598
-
Hg19::chr7:130706575..130706580,-p@chr7:130706575..130706580
-
Hg19::chr7:130713444..130713447,-p@chr7:130713444..130713447
-
Hg19::chr7:130721764..130721768,-p@chr7:130721764..130721768
-
Hg19::chr7:130733252..130733259,-p@chr7:130733252..130733259
-
Hg19::chr7:130736100..130736111,-p@chr7:130736100..130736111
-
Hg19::chr7:130747243..130747247,-p@chr7:130747243..130747247
-
Hg19::chr7:130749095..130749100,-p@chr7:130749095..130749100
-
Hg19::chr7:130750948..130750974,-p@chr7:130750948..130750974
-
Hg19::chr7:130754354..130754358,-p@chr7:130754354..130754358
-
Hg19::chr7:130761947..130761952,-p@chr7:130761947..130761952
-
Hg19::chr7:130762806..130762809,-p@chr7:130762806..130762809
-
Hg19::chr7:130764028..130764045,-p@chr7:130764028..130764045
-
Hg19::chr7:130764433..130764455,-p@chr7:130764433..130764455
-
Hg19::chr7:130776359..130776382,-p@chr7:130776359..130776382
-
Hg19::chr7:130784736..130784755,-p@chr7:130784736..130784755
-
Hg19::chr7:130788982..130788993,-p@chr7:130788982..130788993
-
Hg19::chr7:130791396..130791404,-p@chr7:130791396..130791404
-
Hg19::chr7:130792078..130792092,-p4@FLJ43663
Hg19::chr7:43657259..43657264,+p@chr7:43657259..43657264
+
Hg19::chr7:73103695..73103699,+p@chr7:73103695..73103699
+
Hg19::chr7:73601169..73601173,+p@chr7:73601169..73601173
+
Hg19::chr8:101310423..101310427,-p@chr8:101310423..101310427
-
Hg19::chr8:101319769..101319780,-p@chr8:101319769..101319780
-
Hg19::chr8:38775807..38775820,+p@chr8:38775807..38775820
+
Hg19::chr8:38775907..38775911,+p@chr8:38775907..38775911
+
Hg19::chr9:117132252..117132282,-p@chr9:117132252..117132282
-
Hg19::chr9:4798896..4798900,+p@chr9:4798896..4798900
+
Hg19::chr9:74338045..74338052,-p@chr9:74338045..74338052
-
Hg19::chr9:74361509..74361513,-p@chr9:74361509..74361513
-
Hg19::chr9:74364317..74364322,-p@chr9:74364317..74364322
-
Hg19::chrX:148571595..148571630,-p@chrX:148571595..148571630
-
Hg19::chrX:148575195..148575213,-p@chrX:148575195..148575213
-
Hg19::chrX:153338949..153338953,-p@chrX:153338949..153338953
-
Hg19::chrY:15026667..15026674,+p@chrY:15026667..15026674
+


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

p.valueFDRnGenesnPathwayName
3.5807160514024e-050.01133296630268863194HIV Infection (Reactome):REACT_6185
3.29930039329266e-050.0113329663026886225{BCLAF1,25} (Static Module):NA



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
leukocyte1.75e-34136
nongranular leukocyte1.19e-30115
hematopoietic lineage restricted progenitor cell1.47e-27120
hematopoietic stem cell3.05e-25168
angioblastic mesenchymal cell3.05e-25168
hematopoietic cell6.01e-25177
hematopoietic oligopotent progenitor cell3.62e-23161
hematopoietic multipotent progenitor cell3.62e-23161
classical monocyte1.29e-2242
CD14-positive, CD16-negative classical monocyte1.29e-2242
myeloid leukocyte4.15e-1972
defensive cell2.66e-1848
phagocyte2.66e-1848
myeloid lineage restricted progenitor cell1.26e-1466
lymphocyte1.74e-1453
common lymphoid progenitor1.74e-1453
granulocyte monocyte progenitor cell3.15e-1467
lymphoid lineage restricted progenitor cell7.83e-1452
monopoietic cell1.39e-1359
monocyte1.39e-1359
monoblast1.39e-1359
promonocyte1.39e-1359
nucleate cell1.43e-1355
macrophage dendritic cell progenitor8.69e-1361
intermediate monocyte1.40e-109
CD14-positive, CD16-positive monocyte1.40e-109
myeloid cell4.83e-10108
common myeloid progenitor4.83e-10108
CD4-positive, alpha-beta T cell8.63e-096
T cell1.78e-0725
pro-T cell1.78e-0725
mature alpha-beta T cell8.69e-0718
alpha-beta T cell8.69e-0718
immature T cell8.69e-0718
mature T cell8.69e-0718
immature alpha-beta T cell8.69e-0718
circulating cell9.16e-076
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.86e-1698
blood island1.86e-1698
hemolymphoid system3.98e-14108
immune system1.44e-1193
bone marrow3.59e-1176
bone element7.24e-1182
adult organism5.23e-09114
skeletal element6.67e-0990
skeletal system4.24e-08100
neural tube6.22e-0756
neural rod6.22e-0756
future spinal cord6.22e-0756
neural keel6.22e-0756
regional part of nervous system6.80e-0753
regional part of brain6.80e-0753


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
MA0004.10.0857099
MA0006.10.00433118
MA0007.10.0125409
MA0009.10.644752
MA0014.11.20059e-14
MA0017.10.0875453
MA0019.10.7415
MA0024.10.0190564
MA0025.10.996001
MA0027.11.26758
MA0028.10.000690835
MA0029.11.07651
MA0030.11.41943
MA0031.11.49178
MA0038.10.383431
MA0040.11.09952
MA0041.13.36779
MA0042.12.20243
MA0043.11.43059
MA0046.10.967846
MA0048.13.11326e-08
MA0050.10.132901
MA0051.10.0628245
MA0052.10.762783
MA0055.12.54746e-12
MA0056.10
MA0057.10.000400179
MA0058.10.00783402
MA0059.10.00761572
MA0060.10.000152252
MA0061.18.75426e-06
MA0063.10
MA0066.10.00687066
MA0067.10.170246
MA0068.13.13085
MA0069.10.609584
MA0070.11.31861
MA0071.11.34588
MA0072.10.904099
MA0073.12.94841e-07
MA0074.10.000876071
MA0076.10.000172971
MA0077.10.12783
MA0078.10.287563
MA0081.10.2888
MA0083.10.371325
MA0084.10.785251
MA0087.10.896233
MA0088.16.41498e-07
MA0089.10
MA0090.10.28466
MA0091.10.253699
MA0092.10.706008
MA0093.10.0241955
MA0095.10
MA0098.10
MA0100.10.00829701
MA0101.10.000509808
MA0103.10.062715
MA0105.13.5524e-09
MA0106.10.0407352
MA0107.10.00045953
MA0108.20.0553928
MA0109.10
MA0111.10.221661
MA0113.10.560975
MA0114.10.044448
MA0115.10.407573
MA0116.10.00154472
MA0117.10.0504063
MA0119.10.0570559
MA0122.10.211846
MA0124.11.73915
MA0125.10.945755
MA0130.10
MA0131.10.178007
MA0132.10
MA0133.10
MA0135.12.64371
MA0136.10.145065
MA0139.13.82338e-06
MA0140.10.808883
MA0141.10.191966
MA0142.11.32163
MA0143.10.561568
MA0144.15.3692e-05
MA0145.13.04283e-10
MA0146.15.19573e-10
MA0147.10.000174944
MA0148.10.632005
MA0149.10.000379719
MA0062.22.2819e-07
MA0035.20.594933
MA0039.20
MA0138.20.00380809
MA0002.20.0407805
MA0137.20.0363316
MA0104.21.00851e-05
MA0047.20.675773
MA0112.21.03738e-08
MA0065.25.54114e-05
MA0150.10.0303083
MA0151.10
MA0152.10.842919
MA0153.11.35195
MA0154.11.28506e-08
MA0155.14.22059e-09
MA0156.10.0188539
MA0157.11.93491
MA0158.10
MA0159.10.00179188
MA0160.10.513428
MA0161.10
MA0162.11.65947e-09
MA0163.11.10739e-09
MA0164.10.400498
MA0080.20.00471535
MA0018.20.196264
MA0099.20.0443783
MA0079.20
MA0102.20.314608
MA0258.10.0232765
MA0259.10.0123776
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

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