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Coexpression cluster:C167: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0005148!prolactin receptor binding!0.0113009310155961!8835$GO:0008269!JAK pathway signal transduction adaptor activity!0.0113009310155961!8835$GO:0006916!anti-apoptosis!0.0113009310155961!8835;5055$GO:0008268!receptor signaling protein tyrosine kinase signaling protein activity!0.0113009310155961!8835$GO:0043066!negative regulation of apoptosis!0.0113009310155961!8835;5055$GO:0043069!negative regulation of programmed cell death!0.0113009310155961!8835;5055$GO:0005131!growth hormone receptor binding!0.0113009310155961!8835$GO:0008243!plasminogen activator activity!0.0123594836833995!5055$GO:0005159!insulin-like growth factor receptor binding!0.0237179872861387!8835$GO:0004969!histamine receptor activity!0.0237179872861387!59340$GO:0042981!regulation of apoptosis!0.0384017062255695!8835;5055$GO:0043067!regulation of programmed cell death!0.0384017062255695!8835;5055$GO:0017137!Rab GTPase binding!0.0410050751701897!94120
|gostat_on_coexpression_clusters=GO:0005148!prolactin receptor binding!0.0113009310155961!8835$GO:0008269!JAK pathway signal transduction adaptor activity!0.0113009310155961!8835$GO:0006916!anti-apoptosis!0.0113009310155961!8835;5055$GO:0008268!receptor signaling protein tyrosine kinase signaling protein activity!0.0113009310155961!8835$GO:0043066!negative regulation of apoptosis!0.0113009310155961!8835;5055$GO:0043069!negative regulation of programmed cell death!0.0113009310155961!8835;5055$GO:0005131!growth hormone receptor binding!0.0113009310155961!8835$GO:0008243!plasminogen activator activity!0.0123594836833995!5055$GO:0005159!insulin-like growth factor receptor binding!0.0237179872861387!8835$GO:0004969!histamine receptor activity!0.0237179872861387!59340$GO:0042981!regulation of apoptosis!0.0384017062255695!8835;5055$GO:0043067!regulation of programmed cell death!0.0384017062255695!8835;5055$GO:0017137!Rab GTPase binding!0.0410050751701897!94120
|id=C167
|id=C167
|ontology_enrichment_celltype=CL:0000037!5.54e-46!172;CL:0000566!5.54e-46!172;CL:0002032!1.71e-42!165;CL:0000837!1.71e-42!165;CL:0000988!1.86e-42!182;CL:0000738!3.33e-38!140;CL:0002031!1.71e-31!124;CL:0000763!3.71e-31!112;CL:0000049!3.71e-31!112;CL:0002087!1.89e-27!119;CL:0000766!9.19e-24!76;CL:0002057!5.21e-22!42;CL:0000860!4.20e-20!45;CL:0000557!6.03e-20!71;CL:0000839!9.01e-20!70;CL:0002009!1.15e-16!65;CL:0002194!6.87e-16!63;CL:0000576!6.87e-16!63;CL:0000040!6.87e-16!63;CL:0000559!6.87e-16!63;CL:0000134!1.27e-14!358;CL:0002320!2.86e-13!365;CL:0000219!2.65e-11!390;CL:0000838!7.15e-11!52;CL:0000084!2.68e-10!25;CL:0000827!2.68e-10!25;CL:0000542!3.78e-10!53;CL:0000051!3.78e-10!53;CL:0000791!3.05e-09!18;CL:0000789!3.05e-09!18;CL:0002420!3.05e-09!18;CL:0002419!3.05e-09!18;CL:0000790!3.05e-09!18;CL:0000034!3.54e-07!444;CL:0000048!3.80e-07!430;CL:0000094!6.35e-07!8
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!4.43e-26!102;UBERON:0003061!4.43e-26!102;UBERON:0002193!2.58e-22!112;UBERON:0002371!9.07e-17!80;UBERON:0001474!9.09e-16!86;UBERON:0002405!2.51e-12!115;UBERON:0002384!4.60e-12!375;UBERON:0004765!4.48e-11!101;UBERON:0001434!4.48e-11!101;UBERON:0000178!5.05e-10!15;UBERON:0000179!5.05e-10!15;UBERON:0000463!5.05e-10!15;UBERON:0007023!5.63e-08!115
}}
}}

Revision as of 14:14, 21 May 2012


Full id: C167_Basophils_Mast_Eosinophils_Neutrophils_Peripheral_Whole_CD4



Phase1 CAGE Peaks

Hg19::chr10:124304122..124304160,-p@chr10:124304122..124304160
-
Hg19::chr11:128186999..128187003,+p@chr11:128186999..128187003
+
Hg19::chr11:128199304..128199313,+p@chr11:128199304..128199313
+
Hg19::chr11:128215284..128215295,-p@chr11:128215284..128215295
-
Hg19::chr11:2961841..2961848,-p@chr11:2961841..2961848
-
Hg19::chr11:63258372..63258390,-p4@HRASLS5
Hg19::chr11:63259219..63259240,-p@chr11:63259219..63259240
-
Hg19::chr11:78036624..78036637,-p@chr11:78036624..78036637
-
Hg19::chr12:106663026..106663062,-p@chr12:106663026..106663062
-
Hg19::chr12:12537737..12537747,+p@chr12:12537737..12537747
+
Hg19::chr12:12592823..12592837,+p@chr12:12592823..12592837
+
Hg19::chr12:89588335..89588344,-p@chr12:89588335..89588344
-
Hg19::chr12:90154633..90154644,-p@chr12:90154633..90154644
-
Hg19::chr12:93963739..93963750,+p21@SOCS2
Hg19::chr12:93963755..93963796,+p7@SOCS2
Hg19::chr12:93963797..93963817,+p19@SOCS2
Hg19::chr12:93963818..93963840,+p18@SOCS2
Hg19::chr13:100009628..100009669,-p@chr13:100009628..100009669
-
Hg19::chr13:100009793..100009819,+p@chr13:100009793..100009819
+
Hg19::chr13:49200434..49200436,+p@chr13:49200434..49200436
+
Hg19::chr13:74039989..74040003,+p@chr13:74039989..74040003
+
Hg19::chr14:52352999..52353029,+p@chr14:52352999..52353029
+
Hg19::chr14:68086379..68086391,-p@chr14:68086379..68086391
-
Hg19::chr14:75744139..75744151,+p@chr14:75744139..75744151
+
Hg19::chr14:88462759..88462764,+p@chr14:88462759..88462764
+
Hg19::chr14:88468930..88468934,-p@chr14:88468930..88468934
-
Hg19::chr15:26341798..26341807,-p@chr15:26341798..26341807
-
Hg19::chr15:45341008..45341013,-p@chr15:45341008..45341013
-
Hg19::chr15:50645983..50645999,+p10@LOC100129387
Hg19::chr16:17685400..17685426,+p@chr16:17685400..17685426
+
Hg19::chr16:57723752..57723769,-p@chr16:57723752..57723769
-
Hg19::chr16:57729090..57729104,-p@chr16:57729090..57729104
-
Hg19::chr17:16342793..16342811,-p@chr17:16342793..16342811
-
Hg19::chr17:504754..504779,-p@chr17:504754..504779
-
Hg19::chr17:505873..505879,-p@chr17:505873..505879
-
Hg19::chr17:505892..505911,-p@chr17:505892..505911
-
Hg19::chr17:505912..505925,-p@chr17:505912..505925
-
Hg19::chr17:62101666..62101672,-p@chr17:62101666..62101672
-
Hg19::chr18:22040594..22040616,+p1@HRH4
Hg19::chr18:22040620..22040632,+p2@HRH4
Hg19::chr18:61557781..61557801,+p4@SERPINB2
Hg19::chr18:61557821..61557826,+p17@SERPINB2
Hg19::chr19:14117257..14117271,+p@chr19:14117257..14117271
+
Hg19::chr19:14467251..14467255,-p@chr19:14467251..14467255
-
Hg19::chr19:14895741..14895749,+p@chr19:14895741..14895749
+
Hg19::chr19:39890344..39890356,+p@chr19:39890344..39890356
+
Hg19::chr19:55850184..55850195,-p@chr19:55850184..55850195
-
Hg19::chr1:110438839..110438854,+p3@BC015716
Hg19::chr1:110438858..110438873,+p2@BC015716
Hg19::chr1:110453244..110453259,-p@chr1:110453244..110453259
-
Hg19::chr1:112016712..112016740,+p4@C1orf162
Hg19::chr1:154720840..154720844,-p@chr1:154720840..154720844
-
Hg19::chr1:212101868..212101870,+p@chr1:212101868..212101870
+
Hg19::chr1:247712219..247712230,+p5@C1orf150
Hg19::chr1:33608427..33608437,-p2@uc001bxa.1
Hg19::chr1:33608449..33608459,-p3@uc001bxa.1
Hg19::chr1:33608464..33608484,-p1@uc001bxa.1
Hg19::chr1:33608559..33608582,+p@chr1:33608559..33608582
+
Hg19::chr1:92021775..92021810,-p@chr1:92021775..92021810
-
Hg19::chr1:94181180..94181200,-p@chr1:94181180..94181200
-
Hg19::chr20:19213900..19213907,+p@chr20:19213900..19213907
+
Hg19::chr20:34384754..34384772,+p@chr20:34384754..34384772
+
Hg19::chr20:809889..809897,+p@chr20:809889..809897
+
Hg19::chr20:810482..810511,+p@chr20:810482..810511
+
Hg19::chr21:15957203..15957206,-p@chr21:15957203..15957206
-
Hg19::chr22:37297434..37297455,-p@chr22:37297434..37297455
-
Hg19::chr2:136971977..136971986,-p@chr2:136971977..136971986
-
Hg19::chr2:137080332..137080340,+p@chr2:137080332..137080340
+
Hg19::chr2:137085256..137085268,+p@chr2:137085256..137085268
+
Hg19::chr2:28148771..28148776,-p@chr2:28148771..28148776
-
Hg19::chr2:98547746..98547784,-p@chr2:98547746..98547784
-
Hg19::chr3:112693690..112693718,-p6@CD200R1
Hg19::chr3:112693763..112693777,-p4@CD200R1
Hg19::chr3:128134414..128134423,+p@chr3:128134414..128134423
+
Hg19::chr3:37187316..37187330,-p@chr3:37187316..37187330
-
Hg19::chr3:53158080..53158100,-p@chr3:53158080..53158100
-
Hg19::chr4:40200066..40200083,+p@chr4:40200066..40200083
+
Hg19::chr4:47465894..47465904,+p@chr4:47465894..47465904
+
Hg19::chr4:47475231..47475236,-p@chr4:47475231..47475236
-
Hg19::chr4:47475237..47475246,-p@chr4:47475237..47475246
-
Hg19::chr4:47477113..47477121,+p@chr4:47477113..47477121
+
Hg19::chr4:47477135..47477138,+p@chr4:47477135..47477138
+
Hg19::chr4:47487155..47487166,-p@chr4:47487155..47487166
-
Hg19::chr4:47487179..47487194,-p@chr4:47487179..47487194
-
Hg19::chr4:95479399..95479430,+p@chr4:95479399..95479430
+
Hg19::chr5:132002498..132002502,+p@chr5:132002498..132002502
+
Hg19::chr5:132010800..132010845,-p@chr5:132010800..132010845
-
Hg19::chr5:156968826..156968831,-p@chr5:156968826..156968831
-
Hg19::chr5:66188843..66188845,+p@chr5:66188843..66188845
+
Hg19::chr5:68604322..68604336,+p@chr5:68604322..68604336
+
Hg19::chr6:11393488..11393489,+p@chr6:11393488..11393489
+
Hg19::chr6:138098041..138098086,-p@chr6:138098041..138098086
-
Hg19::chr6:138098564..138098581,-p@chr6:138098564..138098581
-
Hg19::chr6:147199372..147199389,-p@chr6:147199372..147199389
-
Hg19::chr6:159084188..159084212,+p4@SYTL3
Hg19::chr6:159096538..159096554,+p@chr6:159096538..159096554
+
Hg19::chr7:128630152..128630186,-p@chr7:128630152..128630186
-
Hg19::chr7:139418745..139418759,-p@chr7:139418745..139418759
-
Hg19::chr7:139521206..139521224,-p@chr7:139521206..139521224
-
Hg19::chr8:17931071..17931076,-p@chr8:17931071..17931076
-
Hg19::chr8:38795967..38795993,-p@chr8:38795967..38795993
-
Hg19::chr8:6875818..6875822,-p1@DEFA1B
p1@DEFA1
p1@DEFA3
Hg19::chr9:128592282..128592285,-p@chr9:128592282..128592285
-
Hg19::chr9:5436322..5436331,+p@chr9:5436322..5436331
+


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:0005148prolactin receptor binding0.0113009310155961
GO:0008269JAK pathway signal transduction adaptor activity0.0113009310155961
GO:0006916anti-apoptosis0.0113009310155961
GO:0008268receptor signaling protein tyrosine kinase signaling protein activity0.0113009310155961
GO:0043066negative regulation of apoptosis0.0113009310155961
GO:0043069negative regulation of programmed cell death0.0113009310155961
GO:0005131growth hormone receptor binding0.0113009310155961
GO:0008243plasminogen activator activity0.0123594836833995
GO:0005159insulin-like growth factor receptor binding0.0237179872861387
GO:0004969histamine receptor activity0.0237179872861387
GO:0042981regulation of apoptosis0.0384017062255695
GO:0043067regulation of programmed cell death0.0384017062255695
GO:0017137Rab GTPase binding0.0410050751701897



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
hematopoietic stem cell5.54e-46172
angioblastic mesenchymal cell5.54e-46172
hematopoietic oligopotent progenitor cell1.71e-42165
hematopoietic multipotent progenitor cell1.71e-42165
hematopoietic cell1.86e-42182
leukocyte3.33e-38140
hematopoietic lineage restricted progenitor cell1.71e-31124
myeloid cell3.71e-31112
common myeloid progenitor3.71e-31112
nongranular leukocyte1.89e-27119
myeloid leukocyte9.19e-2476
CD14-positive, CD16-negative classical monocyte5.21e-2242
classical monocyte4.20e-2045
granulocyte monocyte progenitor cell6.03e-2071
myeloid lineage restricted progenitor cell9.01e-2070
macrophage dendritic cell progenitor1.15e-1665
monopoietic cell6.87e-1663
monocyte6.87e-1663
monoblast6.87e-1663
promonocyte6.87e-1663
mesenchymal cell1.27e-14358
connective tissue cell2.86e-13365
motile cell2.65e-11390
lymphoid lineage restricted progenitor cell7.15e-1152
T cell2.68e-1025
pro-T cell2.68e-1025
lymphocyte3.78e-1053
common lymphoid progenitor3.78e-1053
mature alpha-beta T cell3.05e-0918
alpha-beta T cell3.05e-0918
immature T cell3.05e-0918
mature T cell3.05e-0918
immature alpha-beta T cell3.05e-0918
stem cell3.54e-07444
multi fate stem cell3.80e-07430
granulocyte6.35e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system4.43e-26102
blood island4.43e-26102
hemolymphoid system2.58e-22112
bone marrow9.07e-1780
bone element9.09e-1686
immune system2.51e-12115
connective tissue4.60e-12375
skeletal element4.48e-11101
skeletal system4.48e-11101
blood5.05e-1015
haemolymphatic fluid5.05e-1015
organism substance5.05e-1015
adult organism5.63e-08115


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.

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