Personal tools

Coexpression cluster:C213: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{Coexpression_clusters |full_id=C213_CD14_Natural_CD8_CD4_Basophils_Eosinophils_Peripheral |id=C213 }}")
 
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C213_CD14_Natural_CD8_CD4_Basophils_Eosinophils_Peripheral
|full_id=C213_CD14_Natural_CD8_CD4_Basophils_Eosinophils_Peripheral
|gostat_on_coexpression_clusters=GO:0004337!geranyltranstransferase activity!0.0141261637694952!9453$GO:0004161!dimethylallyltranstransferase activity!0.0141261637694952!9453$GO:0031616!spindle pole centrosome!0.0141261637694952!54820$GO:0031229!intrinsic to nuclear inner membrane!0.0141261637694952!23592$GO:0005639!integral to nuclear inner membrane!0.0141261637694952!23592$GO:0004311!farnesyltranstransferase activity!0.0141261637694952!9453$GO:0051298!centrosome duplication!0.0211845680019452!54820$GO:0007098!centrosome cycle!0.0346376062360266!54820$GO:0005637!nuclear inner membrane!0.0346376062360266!23592$GO:0051297!centrosome organization and biogenesis!0.0346376062360266!54820$GO:0031023!microtubule organizing center organization and biogenesis!0.0346376062360266!54820$GO:0004659!prenyltransferase activity!0.0370348186593884!9453
|id=C213
|id=C213
}}
}}

Revision as of 17:36, 18 May 2012


Full id: C213_CD14_Natural_CD8_CD4_Basophils_Eosinophils_Peripheral



Phase1 CAGE Peaks

Hg19::chr10:102130575..102130607,+p@chr10:102130575..102130607
+
Hg19::chr10:105881496..105881525,-p@chr10:105881496..105881525
-
Hg19::chr10:127730695..127730726,+p@chr10:127730695..127730726
+
Hg19::chr10:17248566..17248644,+p@chr10:17248566..17248644
+
Hg19::chr10:17270419..17270434,-p@chr10:17270419..17270434
-
Hg19::chr10:33269613..33269628,+p@chr10:33269613..33269628
+
Hg19::chr10:33269657..33269672,+p@chr10:33269657..33269672
+
Hg19::chr10:3825708..3825723,+p@chr10:3825708..3825723
+
Hg19::chr10:3826863..3826874,-p@chr10:3826863..3826874
-
Hg19::chr10:3847651..3847673,+p@chr10:3847651..3847673
+
Hg19::chr10:3847675..3847688,+p@chr10:3847675..3847688
+
Hg19::chr10:90753989..90754005,-p@chr10:90753989..90754005
-
Hg19::chr11:102187946..102187979,-p@chr11:102187946..102187979
-
Hg19::chr12:122224417..122224427,+p@chr12:122224417..122224427
+
Hg19::chr12:122228022..122228041,+p@chr12:122228022..122228041
+
Hg19::chr12:65563377..65563392,+p2@LEMD3
Hg19::chr12:76478857..76478871,+p@chr12:76478857..76478871
+
Hg19::chr12:96793473..96793491,+p@chr12:96793473..96793491
+
Hg19::chr13:114896468..114896497,-p@chr13:114896468..114896497
-
Hg19::chr13:47128179..47128209,-p@chr13:47128179..47128209
-
Hg19::chr13:99934915..99934930,-p@chr13:99934915..99934930
-
Hg19::chr14:70233907..70233918,+p2@SRSF5
Hg19::chr14:77422765..77422782,-p@chr14:77422765..77422782
-
Hg19::chr14:93049440..93049476,-p@chr14:93049440..93049476
-
Hg19::chr15:42229070..42229082,+p@chr15:42229070..42229082
+
Hg19::chr16:15737263..15737283,+p2@NDE1
Hg19::chr17:2498730..2498733,+p@chr17:2498730..2498733
+
Hg19::chr17:33570639..33570656,-p@chr17:33570639..33570656
-
Hg19::chr17:7744740..7744755,-p@chr17:7744740..7744755
-
Hg19::chr17:8867066..8867104,-p@chr17:8867066..8867104
-
Hg19::chr18:11851090..11851103,+p5@CHMP1B
Hg19::chr18:57572110..57572120,-p@chr18:57572110..57572120
-
Hg19::chr19:14229527..14229543,-p@chr19:14229527..14229543
-
Hg19::chr19:44099470..44099492,+p@chr19:44099470..44099492
+
Hg19::chr1:15735925..15735938,-p2@ENST00000427824
Hg19::chr1:171453206..171453207,-p@chr1:171453206..171453207
-
Hg19::chr1:2187769..2187789,+p@chr1:2187769..2187789
+
Hg19::chr1:235490525..235490573,+p5@GGPS1
Hg19::chr1:54872206..54872236,+p@chr1:54872206..54872236
+
Hg19::chr1:59250046..59250065,+p@chr1:59250046..59250065
+
Hg19::chr1:59281989..59282008,-p@chr1:59281989..59282008
-
Hg19::chr20:35201225..35201242,-p@chr20:35201225..35201242
-
Hg19::chr20:56881907..56881918,-p@chr20:56881907..56881918
-
Hg19::chr21:43653871..43653885,+p@chr21:43653871..43653885
+
Hg19::chr21:43654826..43654849,-p@chr21:43654826..43654849
-
Hg19::chr2:161263682..161263696,+p@chr2:161263682..161263696
+
Hg19::chr2:178077094..178077105,-p@chr2:178077094..178077105
-
Hg19::chr2:97203110..97203159,+p4@ARID5A
Hg19::chr3:119013380..119013388,-p@chr3:119013380..119013388
-
Hg19::chr3:119013997..119014002,+p@chr3:119013997..119014002
+
Hg19::chr3:5018897..5018920,-p@chr3:5018897..5018920
-
Hg19::chr3:5020060..5020082,-p@chr3:5020060..5020082
-
Hg19::chr3:5020146..5020171,+p@chr3:5020146..5020171
+
Hg19::chr4:103457066..103457069,+p@chr4:103457066..103457069
+
Hg19::chr4:107237802..107237819,+p@chr4:107237802..107237819
+
Hg19::chr4:107237829..107237840,+p@chr4:107237829..107237840
+
Hg19::chr5:100237813..100237824,-p@chr5:100237813..100237824
-
Hg19::chr5:133984176..133984203,-p@chr5:133984176..133984203
-
Hg19::chr6:143265842..143265868,+p@chr6:143265842..143265868
+
Hg19::chr6:150260042..150260087,-p@chr6:150260042..150260087
-
Hg19::chr6:44094627..44094662,+p3@TMEM63B
Hg19::chr7:104585602..104585616,-p@chr7:104585602..104585616
-
Hg19::chr7:104652294..104652297,-p@chr7:104652294..104652297
-
Hg19::chr7:105316500..105316514,+p@chr7:105316500..105316514
+
Hg19::chr7:48128459..48128476,-p@chr7:48128459..48128476
-
Hg19::chr8:141599124..141599145,+p@chr8:141599124..141599145
+
Hg19::chr9:123688609..123688619,+p@chr9:123688609..123688619
+
Hg19::chr9:128000415..128000420,-p@chr9:128000415..128000420
-
Hg19::chr9:5437979..5437984,+p@chr9:5437979..5437984
+


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:0004337geranyltranstransferase activity0.0141261637694952
GO:0004161dimethylallyltranstransferase activity0.0141261637694952
GO:0031616spindle pole centrosome0.0141261637694952
GO:0031229intrinsic to nuclear inner membrane0.0141261637694952
GO:0005639integral to nuclear inner membrane0.0141261637694952
GO:0004311farnesyltranstransferase activity0.0141261637694952
GO:0051298centrosome duplication0.0211845680019452
GO:0007098centrosome cycle0.0346376062360266
GO:0005637nuclear inner membrane0.0346376062360266
GO:0051297centrosome organization and biogenesis0.0346376062360266
GO:0031023microtubule organizing center organization and biogenesis0.0346376062360266
GO:0004659prenyltransferase activity0.0370348186593884



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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)

{{{tfbs_overrepresentation_jaspar}}}



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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C213&oldid=1702691"