Personal tools

Coexpression cluster:C973

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C973_acute_granulocyte_CD34_CD133_myelodysplastic_biphenotypic_liver



Phase1 CAGE Peaks

Hg19::chr10:129717770..129717798,+p@chr10:129717770..129717798
+
Hg19::chr14:21387508..21387523,+p1@ENST00000555624
Hg19::chr14:21423643..21423665,+p1@RNASE2
Hg19::chr19:827823..827845,+p1@AZU1
Hg19::chr19:829566..829598,+p@chr19:829566..829598
+
Hg19::chr1:200821566..200821577,+p@chr1:200821566..200821577
+
Hg19::chr1:92952473..92952489,-p3@GFI1
Hg19::chr9:137037139..137037152,-p@chr9:137037139..137037152
-


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:0007610behavior0.000170668921953427
GO:0009605response to external stimulus0.000856400268727817
GO:0042330taxis0.00156594942771625
GO:0006935chemotaxis0.00156594942771625
GO:0007626locomotory behavior0.00156594942771625
GO:0042660positive regulation of cell fate specification0.00156594942771625
GO:0042659regulation of cell fate specification0.00156594942771625
GO:0010453regulation of cell fate commitment0.00156594942771625
GO:0009996negative regulation of cell fate specification0.00156594942771625
GO:0010454negative regulation of cell fate commitment0.00156594942771625
GO:0005764lysosome0.00156594942771625
GO:0000323lytic vacuole0.00156594942771625
GO:0005773vacuole0.00156594942771625
GO:0042222interleukin-1 biosynthetic process0.00156594942771625
GO:0050720interleukin-1 beta biosynthetic process0.00156594942771625
GO:0050725positive regulation of interleukin-1 beta biosynthetic process0.00156594942771625
GO:0032603fractalkine production0.00156594942771625
GO:0050752regulation of fractalkine biosynthetic process0.00156594942771625
GO:0045360regulation of interleukin-1 biosynthetic process0.00156594942771625
GO:0050829defense response to Gram-negative bacterium0.00156594942771625
GO:0001774microglial cell activation0.00156594942771625
GO:0050756fractalkine metabolic process0.00156594942771625
GO:0042582azurophil granule0.00156594942771625
GO:0050722regulation of interleukin-1 beta biosynthetic process0.00156594942771625
GO:0050751fractalkine biosynthetic process0.00156594942771625
GO:0042117monocyte activation0.00156594942771625
GO:0045362positive regulation of interleukin-1 biosynthetic process0.00156594942771625
GO:0000083G1/S-specific transcription in mitotic cell cycle0.00156594942771625
GO:0005766primary lysosome0.00156594942771625
GO:0050754positive regulation of fractalkine biosynthetic process0.00156594942771625
GO:0043114regulation of vascular permeability0.00227308547991789
GO:0015643toxin binding0.00276327747248584
GO:0048246macrophage chemotaxis0.00276327747248584
GO:0045123cellular extravasation0.00276327747248584
GO:0008347glial cell migration0.00309041672193129
GO:0045348positive regulation of MHC class II biosynthetic process0.00309041672193129
GO:0032611interleukin-1 beta production0.00309041672193129
GO:0042535positive regulation of tumor necrosis factor biosynthetic process0.00309041672193129
GO:0045342MHC class II biosynthetic process0.00327718265173903
GO:0045346regulation of MHC class II biosynthetic process0.00327718265173903
GO:0007638mechanosensory behavior0.00327718265173903
GO:0045080positive regulation of chemokine biosynthetic process0.00327718265173903
GO:0032612interleukin-1 production0.00327718265173903
GO:0042534regulation of tumor necrosis factor biosynthetic process0.0040843639790859
GO:0042533tumor necrosis factor biosynthetic process0.0040843639790859
GO:0050930induction of positive chemotaxis0.0040843639790859
GO:0050766positive regulation of phagocytosis0.00415297302491087
GO:0042116macrophage activation0.00415297302491087
GO:0045073regulation of chemokine biosynthetic process0.00415297302491087
GO:0050926regulation of positive chemotaxis0.00415297302491087
GO:0032602chemokine production0.00415297302491087
GO:0050764regulation of phagocytosis0.00415297302491087
GO:0050755chemokine metabolic process0.00415297302491087
GO:0050927positive regulation of positive chemotaxis0.00415297302491087
GO:0050918positive chemotaxis0.00415297302491087
GO:0042033chemokine biosynthetic process0.00415297302491087
GO:0042221response to chemical stimulus0.00415297302491087
GO:0050921positive regulation of chemotaxis0.00445367597835105
GO:0050920regulation of chemotaxis0.00469646549209633
GO:0042491auditory receptor cell differentiation0.00469646549209633
GO:0032640tumor necrosis factor production0.00500428311171623
GO:0042490mechanoreceptor differentiation0.00541852004735126
GO:0001708cell fate specification0.00541852004735126
GO:0060113inner ear receptor cell differentiation0.00541852004735126
GO:0045785positive regulation of cell adhesion0.00541852004735126
GO:0009612response to mechanical stimulus0.00604758798271926
GO:0045807positive regulation of endocytosis0.00630757067606722
GO:0004522pancreatic ribonuclease activity0.00782490789235098
GO:0030595leukocyte chemotaxis0.00782490789235098
GO:0048522positive regulation of cellular process0.00880198465200129
GO:0002274myeloid leukocyte activation0.00880198465200129
GO:0042472inner ear morphogenesis0.00880198465200129
GO:0016892endoribonuclease activity, producing 3'-phosphomonoesters0.00900267811959809
GO:0016894endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters0.00951481855163653
GO:0042471ear morphogenesis0.00957296098955781
GO:0050900leukocyte migration0.00957296098955781
GO:0048518positive regulation of biological process0.00990815612220235
GO:0030100regulation of endocytosis0.0100997738254567
GO:0000082G1/S transition of mitotic cell cycle0.0100997738254567
GO:0042063gliogenesis0.0104899480711891
GO:0030141secretory granule0.0104899480711891
GO:0048523negative regulation of cellular process0.0104899480711891
GO:0007205protein kinase C activation0.0104899480711891
GO:0051050positive regulation of transport0.0104899480711891
GO:0048839inner ear development0.0104899480711891
GO:0048519negative regulation of biological process0.0109312917185369
GO:0042108positive regulation of cytokine biosynthetic process0.0109312917185369
GO:0006909phagocytosis0.0109312917185369
GO:0043583ear development0.0110717633364782
GO:0003018vascular process in circulatory system0.0112090980154521
GO:0006401RNA catabolic process0.0118583097527806
GO:0045597positive regulation of cell differentiation0.0119840494268425
GO:0045727positive regulation of translation0.0133662548911064
GO:0042035regulation of cytokine biosynthetic process0.0148099953883953
GO:0031328positive regulation of cellular biosynthetic process0.0148099953883953
GO:0045596negative regulation of cell differentiation0.0158746968744691
GO:0030155regulation of cell adhesion0.0159416713843611
GO:0042089cytokine biosynthetic process0.0159416713843611
GO:0042107cytokine metabolic process0.0159416713843611
GO:0051094positive regulation of developmental process0.0159416713843611
GO:0009891positive regulation of biosynthetic process0.0160878208787198
GO:0032147activation of protein kinase activity0.0160878208787198
GO:0045165cell fate commitment0.0161587471360076
GO:0004521endoribonuclease activity0.0162282961567073
GO:0048731system development0.0164203155052355
GO:0008201heparin binding0.0168046828430292
GO:0051093negative regulation of developmental process0.0168661806243705
GO:0051329interphase of mitotic cell cycle0.0182725799938739
GO:0051247positive regulation of protein metabolic process0.0182725799938739
GO:0007423sensory organ development0.0183189431602503
GO:0007200G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.0185749969893607
GO:0051325interphase0.0188264291644334
GO:0048598embryonic morphogenesis0.0189890375418583
GO:0048869cellular developmental process0.0189890375418583
GO:0030154cell differentiation0.0189890375418583
GO:0042742defense response to bacterium0.0191842623325334
GO:0004540ribonuclease activity0.020018412964898
GO:0009617response to bacterium0.0210359718380921
GO:0005539glycosaminoglycan binding0.0214634223031036
GO:0051049regulation of transport0.0214634223031036
GO:0001816cytokine production0.0218646338971738
GO:0048856anatomical structure development0.0218780868660204
GO:0030247polysaccharide binding0.0220781977342848
GO:0001871pattern binding0.0239691140554861
GO:0048015phosphoinositide-mediated signaling0.0241503841239292
GO:0045860positive regulation of protein kinase activity0.0261781708991172
GO:0033674positive regulation of kinase activity0.0263150892349328
GO:0045595regulation of cell differentiation0.0263150892349328
GO:0051347positive regulation of transferase activity0.0266527202851605
GO:0007275multicellular organismal development0.0268340692406326
GO:0004519endonuclease activity0.0269568012619041
GO:0008015blood circulation0.0281265077720594
GO:0003013circulatory system process0.0281265077720594
GO:0009628response to abiotic stimulus0.0287847587402314
GO:0006916anti-apoptosis0.0294330029785452
GO:0003823antigen binding0.0304133414117029
GO:0045321leukocyte activation0.0307003479160626
GO:0006417regulation of translation0.0311514931079144
GO:0010324membrane invagination0.0326221341500384
GO:0006897endocytosis0.0326221341500384
GO:0031326regulation of cellular biosynthetic process0.0326221341500384
GO:0043231intracellular membrane-bound organelle0.0326221341500384
GO:0043227membrane-bound organelle0.0326221341500384
GO:0051707response to other organism0.033401276685319
GO:0001775cell activation0.0336510168235666
GO:0009889regulation of biosynthetic process0.0346915974216573
GO:0043066negative regulation of apoptosis0.036032784237899
GO:0043069negative regulation of programmed cell death0.0362590966960609
GO:0016477cell migration0.0363718945290016
GO:0009790embryonic development0.0363718945290016
GO:0050793regulation of developmental process0.0363718945290016
GO:0045859regulation of protein kinase activity0.0363718945290016
GO:0043549regulation of kinase activity0.0368910510366623
GO:0004518nuclease activity0.0371619311005411
GO:0051338regulation of transferase activity0.0371619311005411
GO:0043085positive regulation of catalytic activity0.038258949687505
GO:0022008neurogenesis0.0388993562932272
GO:0019932second-messenger-mediated signaling0.0395313438068861
GO:0003702RNA polymerase II transcription factor activity0.0408817939762674
GO:0016044membrane organization and biogenesis0.0413482492717847
GO:0009607response to biotic stimulus0.0418086971382871
GO:0006954inflammatory response0.0418356961900068
GO:0032502developmental process0.0443893580854093
GO:0000278mitotic cell cycle0.0462481083833369
GO:0051704multi-organism process0.0466623480129664
GO:0004252serine-type endopeptidase activity0.0466623480129664
GO:0016023cytoplasmic membrane-bound vesicle0.0483129848461117
GO:0031988membrane-bound vesicle0.048710221809748
GO:0009887organ morphogenesis0.0493156047145424
GO:0043229intracellular organelle0.0493156047145424
GO:0043226organelle0.0493156047145424
GO:0031325positive regulation of cellular metabolic process0.0493156047145424
GO:0022403cell cycle phase0.0495620072767533



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>

Uber Anatomy
Ontology termp-valuen
hematopoietic system1.24e-1598
blood island1.24e-1598
hemolymphoid system1.34e-13108
bone element1.33e-0982
bone marrow1.75e-0976
immune system5.86e-0993
skeletal element2.28e-0890
regional part of nervous system4.42e-0853
regional part of brain4.42e-0853
neural tube1.68e-0756
neural rod1.68e-0756
future spinal cord1.68e-0756
neural keel1.68e-0756
blood2.94e-0715
haemolymphatic fluid2.94e-0715
organism substance2.94e-0715
skeletal system4.09e-07100
brain grey matter5.69e-0734
gray matter5.69e-0734
telencephalon5.87e-0734
regional part of forebrain9.58e-0741
forebrain9.58e-0741
anterior neural tube9.58e-0741
future forebrain9.58e-0741
Disease
Ontology termp-valuen
myeloid leukemia1.76e-2531
leukemia2.24e-1939
hematologic cancer7.76e-1451
immune system cancer7.76e-1451


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)
MA0003.10.393486
MA0004.10.455723
MA0006.10.300178
MA0007.10.437331
MA0009.10.918715
MA0014.10.473479
MA0017.10.337901
MA0019.10.602411
MA0024.10.813542
MA0025.11.05265
MA0027.12.5321
MA0028.10.315574
MA0029.10.832916
MA0030.10.821423
MA0031.10.756713
MA0038.10.557409
MA0040.10.838784
MA0041.11.19384
MA0042.10.442535
MA0043.10.919032
MA0046.10.90778
MA0048.10.316923
MA0050.10.443405
MA0051.10.553205
MA0052.10.842664
MA0055.10.524515
MA0056.10
MA0057.10.632427
MA0058.10.362328
MA0059.10.361075
MA0060.10.190336
MA0061.10.961853
MA0063.10
MA0066.10.557833
MA0067.11.23721
MA0068.10.133123
MA0069.10.903908
MA0070.10.892666
MA0071.10.518907
MA0072.10.888148
MA0073.10.215282
MA0074.10.552456
MA0076.10.377799
MA0077.10.880402
MA0078.10.652193
MA0081.10.361233
MA0083.10.926258
MA0084.11.42483
MA0087.10.885691
MA0088.10.054222
MA0089.10
MA0090.10.391903
MA0091.12.02209
MA0092.11.07975
MA0093.10.303084
MA0095.10
MA0098.10
MA0100.10.571227
MA0101.10.30624
MA0103.10.291333
MA0105.11.47197
MA0106.11.45807
MA0107.10.666147
MA0108.20.753643
MA0109.10
MA0111.10.405141
MA0113.10.614917
MA0114.10.655057
MA0115.11.1606
MA0116.11.94086
MA0117.10.956472
MA0119.11.63558
MA0122.10.982472
MA0124.11.11898
MA0125.11.0347
MA0130.10
MA0131.10.670358
MA0132.10
MA0133.10
MA0135.10.949204
MA0136.10.564434
MA0139.10.155155
MA0140.10.516266
MA0141.10.359385
MA0142.10.724856
MA0143.10.615094
MA0144.10.623945
MA0145.10.480646
MA0146.10.65158
MA0147.10.681318
MA0148.10.480298
MA0149.10.506665
MA0062.20.161302
MA0035.20.515566
MA0039.20.44475
MA0138.20.653421
MA0002.22.2946
MA0137.20.321796
MA0104.21.05746
MA0047.20.586412
MA0112.20.79629
MA0065.20.226158
MA0150.10.386144
MA0151.10
MA0152.10.52279
MA0153.11.01778
MA0154.10.274121
MA0155.10.197713
MA0156.10.865715
MA0157.10.697424
MA0158.10
MA0159.11.96124
MA0160.10.495355
MA0161.10
MA0162.10.378102
MA0163.10.141536
MA0164.10.627336
MA0080.20.303167
MA0018.20.599912
MA0099.20.523145
MA0079.20.13841
MA0102.23.22015
MA0258.10.209744
MA0259.10.25092
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

This analysis result is provided for C0 - C305 clusters.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C973&oldid=3068090"