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Difference between revisions of "Coexpression cluster:C2036"

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|full_id=C2036_CD34_chronic_migratory_Melanocyte_Mast_acute_heart
 
|full_id=C2036_CD34_chronic_migratory_Melanocyte_Mast_acute_heart
 
|id=C2036
 
|id=C2036
|ontology_enrichment_celltype=CL:0000037!5.97e-46!172;CL:0000566!5.97e-46!172;CL:0002032!1.67e-42!165;CL:0000837!1.67e-42!165;CL:0000988!6.86e-42!182;CL:0000738!1.72e-32!140;CL:0000763!6.30e-29!112;CL:0000049!6.30e-29!112;CL:0002031!2.45e-24!124;CL:0002087!3.75e-23!119;CL:0000766!1.50e-15!76;CL:0000084!1.23e-13!25;CL:0000827!1.23e-13!25;CL:0000557!1.32e-13!71;CL:0000134!9.68e-13!358;CL:0000839!3.74e-12!70;CL:0000219!3.88e-12!390;CL:0000838!5.22e-12!52;CL:0000542!5.63e-12!53;CL:0000051!5.63e-12!53;CL:0002320!1.70e-11!365;CL:0002057!4.22e-11!42;CL:0000791!8.64e-11!18;CL:0000789!8.64e-11!18;CL:0002420!8.64e-11!18;CL:0002419!8.64e-11!18;CL:0000790!8.64e-11!18;CL:0002009!1.16e-10!65;CL:0002194!3.08e-10!63;CL:0000576!3.08e-10!63;CL:0000040!3.08e-10!63;CL:0000559!3.08e-10!63;CL:0000860!6.56e-09!45;CL:0000034!1.03e-08!444;CL:0000048!1.53e-08!430;CL:0000723!1.48e-07!436
+
|ontology_enrichment_celltype=CL:0000037!8.55e-57!168;CL:0000566!8.55e-57!168;CL:0000988!8.04e-53!177;CL:0002032!2.50e-52!161;CL:0000837!2.50e-52!161;CL:0000738!1.21e-40!136;CL:0000763!6.94e-34!108;CL:0000049!6.94e-34!108;CL:0002031!1.37e-30!120;CL:0002087!1.61e-29!115;CL:0000766!9.68e-18!72;CL:0000084!5.69e-17!25;CL:0000827!5.69e-17!25;CL:0000557!2.60e-16!67;CL:0000838!5.25e-16!52;CL:0000542!5.55e-16!53;CL:0000051!5.55e-16!53;CL:0002242!1.07e-14!55;CL:0000839!6.66e-14!66;CL:0000791!1.69e-13!18;CL:0000789!1.69e-13!18;CL:0002420!1.69e-13!18;CL:0002419!1.69e-13!18;CL:0000790!1.69e-13!18;CL:0002009!9.27e-13!61;CL:0000473!3.26e-12!48;CL:0000234!3.26e-12!48;CL:0002194!4.75e-12!59;CL:0000576!4.75e-12!59;CL:0000040!4.75e-12!59;CL:0000559!4.75e-12!59;CL:0000860!2.32e-11!42;CL:0002057!2.32e-11!42;CL:0000134!2.53e-10!354;CL:0000219!3.28e-09!386;CL:0002320!3.41e-09!361;CL:0000625!1.63e-08!11;CL:0000325!2.01e-07!87
|ontology_enrichment_disease=DOID:1240!1.37e-15!39;DOID:8692!1.94e-13!31;DOID:2531!5.88e-13!51;DOID:0060083!5.88e-13!51
+
|ontology_enrichment_disease=DOID:1240!5.18e-19!39;DOID:2531!1.69e-16!51;DOID:0060083!1.69e-16!51;DOID:8692!3.97e-16!31
|ontology_enrichment_uberon=UBERON:0007023!4.55e-21!115;UBERON:0002390!1.60e-18!102;UBERON:0003061!1.60e-18!102;UBERON:0002193!8.33e-15!112;UBERON:0001049!3.41e-12!57;UBERON:0005068!3.41e-12!57;UBERON:0006241!3.41e-12!57;UBERON:0007135!3.41e-12!57;UBERON:0002371!5.14e-12!80;UBERON:0003080!6.29e-11!42;UBERON:0002780!1.33e-10!41;UBERON:0001890!1.33e-10!41;UBERON:0006240!1.33e-10!41;UBERON:0002020!2.46e-10!34;UBERON:0003528!2.46e-10!34;UBERON:0002384!2.79e-10!375;UBERON:0001893!3.84e-10!34;UBERON:0002791!4.65e-10!33;UBERON:0001869!5.94e-10!32;UBERON:0001474!8.19e-10!86;UBERON:0002616!4.25e-09!59;UBERON:0001017!5.89e-09!82;UBERON:0005743!8.62e-09!86;UBERON:0000956!1.32e-07!25;UBERON:0000203!1.32e-07!25;UBERON:0004765!2.66e-07!101;UBERON:0001434!2.66e-07!101;UBERON:0002619!2.79e-07!22;UBERON:0000073!2.79e-07!94;UBERON:0001016!2.79e-07!94;UBERON:0003075!3.65e-07!86;UBERON:0007284!3.65e-07!86;UBERON:0001950!6.66e-07!20
+
|ontology_enrichment_uberon=UBERON:0002390!3.63e-22!98;UBERON:0003061!3.63e-22!98;UBERON:0002193!8.46e-19!108;UBERON:0007023!6.33e-17!114;UBERON:0002371!3.59e-13!76;UBERON:0002405!8.13e-13!93;UBERON:0001474!3.07e-11!82;UBERON:0001049!1.80e-09!56;UBERON:0005068!1.80e-09!56;UBERON:0006241!1.80e-09!56;UBERON:0007135!1.80e-09!56;UBERON:0002780!6.34e-09!41;UBERON:0001890!6.34e-09!41;UBERON:0003080!6.34e-09!41;UBERON:0006240!6.34e-09!41;UBERON:0003528!1.20e-08!34;UBERON:0002020!1.20e-08!34;UBERON:0000073!1.49e-08!53;UBERON:0002616!1.49e-08!53;UBERON:0004765!1.58e-08!90;UBERON:0001893!1.70e-08!34;UBERON:0000178!2.07e-08!15;UBERON:0000179!2.07e-08!15;UBERON:0000463!2.07e-08!15;UBERON:0001869!2.48e-08!32;UBERON:0002791!2.92e-08!32;UBERON:0002384!5.46e-08!371
 
|tf_chipseq_enrich=E2F6#1876;4:5.01715573169739:0.0015780219347306:0.0099467096892588!FOS#2353;4:8.9979553088944:0.000152514771116863:0.00194510809386666!FOSL1#8061;4:39.713579716373:4.01511434669553e-07:1.93509241926412e-05!HEY1#23462;4:4.04011104310571:0.0037530463691798:0.0185439944055812!MAX#4149;4:6.45255550900712:0.000576761319564549:0.00484254163952102!NRF1#4899;4:12.2102794477109:4.49717228915276e-05:0.00079150687008228!PAX5#5079;4:6.66956553117783:0.000505277416948326:0.00442892724705549!POU2F2#5452;4:9.10612405774252:0.00014539566517493:0.00187956156395649!SIN3A#25942;4:5.40888472681514:0.00116817238488516:0.00793823643080362!TAF1#6872;4:3.34304628574529:0.00800566489870165:0.0321035031621679!TAL1#6886;4:29.8686166774402:1.25525650806991e-06:5.02868179694335e-05!TBP#6908;4:3.70677068709639:0.00529637781478435:0.0243366801266339!YY1#7528;4:4.91117074985386:0.0017187183805544:0.0106585849383481!ZNF263#10127;4:8.22184163701068:0.000218787118095832:0.00247964273758118
 
|tf_chipseq_enrich=E2F6#1876;4:5.01715573169739:0.0015780219347306:0.0099467096892588!FOS#2353;4:8.9979553088944:0.000152514771116863:0.00194510809386666!FOSL1#8061;4:39.713579716373:4.01511434669553e-07:1.93509241926412e-05!HEY1#23462;4:4.04011104310571:0.0037530463691798:0.0185439944055812!MAX#4149;4:6.45255550900712:0.000576761319564549:0.00484254163952102!NRF1#4899;4:12.2102794477109:4.49717228915276e-05:0.00079150687008228!PAX5#5079;4:6.66956553117783:0.000505277416948326:0.00442892724705549!POU2F2#5452;4:9.10612405774252:0.00014539566517493:0.00187956156395649!SIN3A#25942;4:5.40888472681514:0.00116817238488516:0.00793823643080362!TAF1#6872;4:3.34304628574529:0.00800566489870165:0.0321035031621679!TAL1#6886;4:29.8686166774402:1.25525650806991e-06:5.02868179694335e-05!TBP#6908;4:3.70677068709639:0.00529637781478435:0.0243366801266339!YY1#7528;4:4.91117074985386:0.0017187183805544:0.0106585849383481!ZNF263#10127;4:8.22184163701068:0.000218787118095832:0.00247964273758118
 
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}}
 
}}

Revision as of 02:59, 19 October 2012


Full id: C2036_CD34_chronic_migratory_Melanocyte_Mast_acute_heart



Phase1 CAGE Peaks

  Short description
Hg19::chr10:11207051..11207081,+ p2@CELF2
Hg19::chr10:11207088..11207095,+ p17@CELF2
Hg19::chr10:11207117..11207128,+ p14@CELF2
Hg19::chr10:11207157..11207175,+ p13@CELF2


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen
hematopoietic stem cell8.55e-57168
angioblastic mesenchymal cell8.55e-57168
hematopoietic cell8.04e-53177
hematopoietic oligopotent progenitor cell2.50e-52161
hematopoietic multipotent progenitor cell2.50e-52161
leukocyte1.21e-40136
myeloid cell6.94e-34108
common myeloid progenitor6.94e-34108
hematopoietic lineage restricted progenitor cell1.37e-30120
nongranular leukocyte1.61e-29115
myeloid leukocyte9.68e-1872
T cell5.69e-1725
pro-T cell5.69e-1725
granulocyte monocyte progenitor cell2.60e-1667
lymphoid lineage restricted progenitor cell5.25e-1652
lymphocyte5.55e-1653
common lymphoid progenitor5.55e-1653
nucleate cell1.07e-1455
myeloid lineage restricted progenitor cell6.66e-1466
mature alpha-beta T cell1.69e-1318
alpha-beta T cell1.69e-1318
immature T cell1.69e-1318
mature T cell1.69e-1318
immature alpha-beta T cell1.69e-1318
macrophage dendritic cell progenitor9.27e-1361
defensive cell3.26e-1248
phagocyte3.26e-1248
monopoietic cell4.75e-1259
monocyte4.75e-1259
monoblast4.75e-1259
promonocyte4.75e-1259
classical monocyte2.32e-1142
CD14-positive, CD16-negative classical monocyte2.32e-1142
mesenchymal cell2.53e-10354
motile cell3.28e-09386
connective tissue cell3.41e-09361
CD8-positive, alpha-beta T cell1.63e-0811
stuff accumulating cell2.01e-0787
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.63e-2298
blood island3.63e-2298
hemolymphoid system8.46e-19108
adult organism6.33e-17114
bone marrow3.59e-1376
immune system8.13e-1393
bone element3.07e-1182
neural tube1.80e-0956
neural rod1.80e-0956
future spinal cord1.80e-0956
neural keel1.80e-0956
regional part of forebrain6.34e-0941
forebrain6.34e-0941
anterior neural tube6.34e-0941
future forebrain6.34e-0941
brain grey matter1.20e-0834
gray matter1.20e-0834
regional part of nervous system1.49e-0853
regional part of brain1.49e-0853
skeletal element1.58e-0890
telencephalon1.70e-0834
blood2.07e-0815
haemolymphatic fluid2.07e-0815
organism substance2.07e-0815
cerebral hemisphere2.48e-0832
regional part of telencephalon2.92e-0832
connective tissue5.46e-08371
Disease
Ontology termp-valuen
leukemia5.18e-1939
hematologic cancer1.69e-1651
immune system cancer1.69e-1651
myeloid leukemia3.97e-1631


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
E2F6#187645.017155731697390.00157802193473060.0099467096892588
FOS#235348.99795530889440.0001525147711168630.00194510809386666
FOSL1#8061439.7135797163734.01511434669553e-071.93509241926412e-05
HEY1#2346244.040111043105710.00375304636917980.0185439944055812
MAX#414946.452555509007120.0005767613195645490.00484254163952102
NRF1#4899412.21027944771094.49717228915276e-050.00079150687008228
PAX5#507946.669565531177830.0005052774169483260.00442892724705549
POU2F2#545249.106124057742520.000145395665174930.00187956156395649
SIN3A#2594245.408884726815140.001168172384885160.00793823643080362
TAF1#687243.343046285745290.008005664898701650.0321035031621679
TAL1#6886429.86861667744021.25525650806991e-065.02868179694335e-05
TBP#690843.706770687096390.005296377814784350.0243366801266339
YY1#752844.911170749853860.00171871838055440.0106585849383481
ZNF263#1012748.221841637010680.0002187871180958320.00247964273758118



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.