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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0

Latest revision as of 10:55, 17 September 2013


Full id: C203_acute_NK_chronic_CD133_lymphoma_immature_Dendritic



Phase1 CAGE Peaks

Hg19::chr10:1999469..1999478,+p@chr10:1999469..1999478
+
Hg19::chr10:23846022..23846029,+p@chr10:23846022..23846029
+
Hg19::chr10:23846163..23846169,+p@chr10:23846163..23846169
+
Hg19::chr10:23846249..23846267,+p@chr10:23846249..23846267
+
Hg19::chr10:23846319..23846335,+p@chr10:23846319..23846335
+
Hg19::chr10:23858616..23858621,+p@chr10:23858616..23858621
+
Hg19::chr11:126310760..126310781,-p7@KIRREL3
Hg19::chr11:68099033..68099038,-p@chr11:68099033..68099038
-
Hg19::chr12:133240734..133240764,-p@chr12:133240734..133240764
-
Hg19::chr12:4501908..4501927,+p@chr12:4501908..4501927
+
Hg19::chr12:4524557..4524579,+p@chr12:4524557..4524579
+
Hg19::chr12:4524619..4524632,+p@chr12:4524619..4524632
+
Hg19::chr13:100927475..100927483,+p@chr13:100927475..100927483
+
Hg19::chr13:100927491..100927498,+p@chr13:100927491..100927498
+
Hg19::chr13:100927506..100927512,+p@chr13:100927506..100927512
+
Hg19::chr13:49001034..49001075,-p4@LPAR6
Hg19::chr13:49076795..49076798,-p@chr13:49076795..49076798
-
Hg19::chr13:49076880..49076891,-p@chr13:49076880..49076891
-
Hg19::chr13:49077016..49077033,-p@chr13:49077016..49077033
-
Hg19::chr13:49077039..49077054,-p@chr13:49077039..49077054
-
Hg19::chr13:49077093..49077104,-p@chr13:49077093..49077104
-
Hg19::chr13:49077121..49077143,-p@chr13:49077121..49077143
-
Hg19::chr14:77248056..77248105,-p1@ENST00000556368
Hg19::chr14:93551934..93551950,-p@chr14:93551934..93551950
-
Hg19::chr15:29745140..29745158,-p2@FAM189A1
Hg19::chr15:49907736..49907748,+p@chr15:49907736..49907748
+
Hg19::chr15:94987207..94987211,-p@chr15:94987207..94987211
-
Hg19::chr15:95120128..95120140,-p@chr15:95120128..95120140
-
Hg19::chr15:95120151..95120158,-p@chr15:95120151..95120158
-
Hg19::chr16:4714466..4714476,+p9@MGRN1
Hg19::chr16:87812662..87812682,-p@chr16:87812662..87812682
-
Hg19::chr16:89168889..89168898,+p10@ACSF3
Hg19::chr18:45498690..45498695,-p@chr18:45498690..45498695
-
Hg19::chr18:45546950..45546957,-p@chr18:45546950..45546957
-
Hg19::chr18:45546969..45546979,-p@chr18:45546969..45546979
-
Hg19::chr18:66451511..66451519,-p@chr18:66451511..66451519
-
Hg19::chr18:66451542..66451549,-p@chr18:66451542..66451549
-
Hg19::chr18:73353417..73353422,+p@chr18:73353417..73353422
+
Hg19::chr19:16228733..16228742,+p@chr19:16228733..16228742
+
Hg19::chr19:1842983..1842999,-p@chr19:1842983..1842999
-
Hg19::chr19:47226533..47226549,-p@chr19:47226533..47226549
-
Hg19::chr1:10434688..10434703,+p@chr1:10434688..10434703
+
Hg19::chr1:198985286..198985295,+p2@ENST00000432488
Hg19::chr1:198985298..198985308,+p1@ENST00000432488
Hg19::chr1:198985325..198985330,+p3@ENST00000432488
Hg19::chr1:222273765..222273768,+p@chr1:222273765..222273768
+
Hg19::chr1:3536212..3536225,+p@chr1:3536212..3536225
+
Hg19::chr20:60705265..60705277,+p@chr20:60705265..60705277
+
Hg19::chr21:16811526..16811529,-p@chr21:16811526..16811529
-
Hg19::chr21:43542270..43542279,+p@chr21:43542270..43542279
+
Hg19::chr21:43543479..43543483,-p@chr21:43543479..43543483
-
Hg19::chr22:22294029..22294045,-p@chr22:22294029..22294045
-
Hg19::chr2:129248071..129248083,-p@chr2:129248071..129248083
-
Hg19::chr2:16618404..16618417,-p@chr2:16618404..16618417
-
Hg19::chr2:16618675..16618679,-p@chr2:16618675..16618679
-
Hg19::chr2:1997573..1997576,+p@chr2:1997573..1997576
+
Hg19::chr2:54643949..54643962,+p@chr2:54643949..54643962
+
Hg19::chr2:54649524..54649529,-p@chr2:54649524..54649529
-
Hg19::chr2:58941579..58941613,+p@chr2:58941579..58941613
+
Hg19::chr2:58942626..58942633,+p@chr2:58942626..58942633
+
Hg19::chr2:58942673..58942680,+p@chr2:58942673..58942680
+
Hg19::chr2:58942707..58942719,+p@chr2:58942707..58942719
+
Hg19::chr3:124390180..124390188,+p@chr3:124390180..124390188
+
Hg19::chr3:194968576..194968594,-p3@XXYLT1
Hg19::chr4:117194661..117194666,-p@chr4:117194661..117194666
-
Hg19::chr4:117248477..117248490,-p@chr4:117248477..117248490
-
Hg19::chr4:2916272..2916283,+p38@ADD1
Hg19::chr4:55685387..55685409,+p@chr4:55685387..55685409
+
Hg19::chr5:83260127..83260138,-p@chr5:83260127..83260138
-
Hg19::chr6:109702885..109702908,-p5@CD164
Hg19::chr6:135536715..135536763,-p@chr6:135536715..135536763
-
Hg19::chr6:20565177..20565196,-p@chr6:20565177..20565196
-
Hg19::chr6:2750288..2750300,-p@chr6:2750288..2750300
-
Hg19::chr6:33399093..33399111,+p5@SYNGAP1
Hg19::chr6:6587290..6587314,+p@chr6:6587290..6587314
+
Hg19::chr6:6588295..6588313,+p4@LY86
Hg19::chr6:6588316..6588329,+p3@LY86
Hg19::chr6:74438849..74438886,+p@chr6:74438849..74438886
+
Hg19::chr7:100884779..100884815,-p7@FIS1


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

GO IDGO nameFDR corrected p-value
GO:0000266mitochondrial fission0.0392591767343367
GO:0031307integral to mitochondrial outer membrane0.0392591767343367
GO:0031306intrinsic to mitochondrial outer membrane0.0392591767343367
GO:0016559peroxisome fission0.0392591767343367
GO:0032592integral to mitochondrial membrane0.0392591767343367
GO:0048285organelle fission0.0436123201495787
GO:0007157heterophilic cell adhesion0.0475378821576717
GO:0000209protein polyubiquitination0.0475378821576717
GO:0002376immune system process0.0475378821576717
GO:0005779integral to peroxisomal membrane0.0475378821576717
GO:0031231intrinsic to peroxisomal membrane0.0475378821576717



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><br><br>disease_data<br>

Disease
Ontology termp-valuen
myeloid leukemia7.41e-0831


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)
MA0003.12.974e-10
MA0004.13.31261
MA0006.10.0405403
MA0007.10.0049033
MA0009.10.867147
MA0014.14.71325e-10
MA0017.11.05072
MA0019.10.499526
MA0024.10.0929193
MA0025.10.221947
MA0027.11.54322
MA0028.10.0506836
MA0029.10.101394
MA0030.10.656602
MA0031.10.246801
MA0038.10.657418
MA0040.11.14511
MA0041.10.939968
MA0042.10.0875364
MA0043.10.143525
MA0046.10.137621
MA0048.10.1387
MA0050.10.192169
MA0051.11.32659
MA0052.10.70093
MA0055.10.00176676
MA0056.10
MA0057.10.804542
MA0058.11.53821
MA0059.10.680206
MA0060.10.481747
MA0061.10.337807
MA0063.10
MA0066.10.0815378
MA0067.10.351447
MA0068.10.256917
MA0069.10.135616
MA0070.10.129875
MA0071.10.822263
MA0072.10.401085
MA0073.11.88358
MA0074.10.0172203
MA0076.10.0444531
MA0077.10.123747
MA0078.10.343711
MA0081.10.177639
MA0083.10.451253
MA0084.11.25284
MA0087.11.29153
MA0088.10.265578
MA0089.10
MA0090.10.588195
MA0091.11.18257
MA0092.10.00393834
MA0093.13.15401
MA0095.10
MA0098.10
MA0100.10.429405
MA0101.10.84465
MA0103.10.251254
MA0105.10.0321682
MA0106.10.0254082
MA0107.10.313166
MA0108.20.0691683
MA0109.10
MA0111.10.260953
MA0113.10.841919
MA0114.10.19234
MA0115.11.45603
MA0116.10.465016
MA0117.10.163989
MA0119.10.417824
MA0122.10.178916
MA0124.10.734309
MA0125.10.210573
MA0130.10
MA0131.10.163892
MA0132.10
MA0133.10
MA0135.10.15992
MA0136.10.414711
MA0139.10.0774476
MA0140.10.535904
MA0141.10.672324
MA0142.10.214356
MA0143.10.286429
MA0144.10.247545
MA0145.10.274706
MA0146.16.10705e-06
MA0147.10.853212
MA0148.10.677995
MA0149.17.1193
MA0062.20.144575
MA0035.20.533918
MA0039.21.4277e-06
MA0138.20.345685
MA0002.21.597
MA0137.20.0551921
MA0104.20.240992
MA0047.20.245403
MA0112.21.8834e-05
MA0065.20.0329769
MA0150.11.07598
MA0151.10
MA0152.10.0622186
MA0153.10.20008
MA0154.10.229798
MA0155.10.00943302
MA0156.10.719392
MA0157.10.188136
MA0158.10
MA0159.10.657202
MA0160.10.733089
MA0161.10
MA0162.13.08892e-08
MA0163.10.00679174
MA0164.10.883773
MA0080.20.611212
MA0018.20.0256861
MA0099.21.56065
MA0079.28.71704e-05
MA0102.20.533076
MA0258.10.000348916
MA0259.10.914469
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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