Personal tools

Coexpression cluster:C2115

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C2115_b_myeloma_CD19_acute_non_xeroderma_Burkitt



Phase1 CAGE Peaks

  Short description
Hg19::chr11:1543284..1543298,+ +
p@chr11:1543284..1543298
Hg19::chr14:106328021..106328027,- p15@IGHM
Hg19::chr14:106328158..106328168,- p6@IGHM
Hg19::chr5:59817936..59817963,- p19@PDE4D


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


GO IDGO nameFDR corrected p-value
GO:0042571immunoglobulin complex, circulating0.00794748769705615
GO:0045022early endosome to late endosome transport0.00794748769705615
GO:0019814immunoglobulin complex0.00794748769705615
GO:0019815B cell receptor complex0.00794748769705615
GO:00041153',5'-cyclic-AMP phosphodiesterase activity0.0116168295419799
GO:0030890positive regulation of B cell proliferation0.0116168295419799
GO:0030888regulation of B cell proliferation0.0116168295419799
GO:0050853B cell receptor signaling pathway0.0116168295419799
GO:0000267cell fraction0.0116168295419799
GO:0001772immunological synapse0.0116168295419799
GO:0050731positive regulation of peptidyl-tyrosine phosphorylation0.0116168295419799
GO:0045807positive regulation of endocytosis0.0116168295419799
GO:0050871positive regulation of B cell activation0.0116168295419799
GO:0042100B cell proliferation0.0116168295419799
GO:0005626insoluble fraction0.0116168295419799
GO:0042327positive regulation of phosphorylation0.0116168295419799
GO:0045937positive regulation of phosphate metabolic process0.0116168295419799
GO:0050864regulation of B cell activation0.0116168295419799
GO:0001934positive regulation of protein amino acid phosphorylation0.0116168295419799
GO:0033240positive regulation of amine metabolic process0.0116168295419799
GO:0045764positive regulation of amino acid metabolic process0.0116168295419799
GO:0050851antigen receptor-mediated signaling pathway0.0116168295419799
GO:0050730regulation of peptidyl-tyrosine phosphorylation0.0116168295419799
GO:0032946positive regulation of mononuclear cell proliferation0.0116168295419799
GO:0002455humoral immune response mediated by circulating immunoglobulin0.0116168295419799
GO:0002429immune response-activating cell surface receptor signaling pathway0.0116168295419799
GO:0050671positive regulation of lymphocyte proliferation0.0116168295419799
GO:0002768immune response-regulating cell surface receptor signaling pathway0.0116168295419799
GO:0002757immune response-activating signal transduction0.0116168295419799
GO:0002764immune response-regulating signal transduction0.0116168295419799
GO:0030100regulation of endocytosis0.0116168295419799
GO:0051050positive regulation of transport0.0116918571153127
GO:0016197endosome transport0.0116918571153127
GO:0018108peptidyl-tyrosine phosphorylation0.0116918571153127
GO:0050670regulation of lymphocyte proliferation0.0116918571153127
GO:0032944regulation of mononuclear cell proliferation0.0116918571153127
GO:0018212peptidyl-tyrosine modification0.0116918571153127
GO:00041143',5'-cyclic-nucleotide phosphodiesterase activity0.0116918571153127
GO:0001932regulation of protein amino acid phosphorylation0.0116918571153127
GO:0033238regulation of amine metabolic process0.0116918571153127
GO:0006521regulation of amino acid metabolic process0.0116918571153127
GO:0004112cyclic-nucleotide phosphodiesterase activity0.0116918571153127
GO:0009897external side of plasma membrane0.0116918571153127
GO:0051251positive regulation of lymphocyte activation0.0116918571153127
GO:0016064immunoglobulin mediated immune response0.0116918571153127
GO:0019724B cell mediated immunity0.0116918571153127
GO:0032943mononuclear cell proliferation0.0116918571153127
GO:0046651lymphocyte proliferation0.0116918571153127
GO:0000187activation of MAPK activity0.0123169181045036
GO:0042113B cell activation0.0129168768328704
GO:0042325regulation of phosphorylation0.013030321291359
GO:0048471perinuclear region of cytoplasm0.013030321291359
GO:0043406positive regulation of MAP kinase activity0.0131835922851881
GO:0051174regulation of phosphorus metabolic process0.0131881982696865
GO:0019220regulation of phosphate metabolic process0.0131881982696865
GO:0002253activation of immune response0.0131881982696865
GO:0002449lymphocyte mediated immunity0.0131881982696865
GO:0006959humoral immune response0.0131881982696865
GO:0002250adaptive immune response0.0131881982696865
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0131881982696865
GO:0051249regulation of lymphocyte activation0.0131881982696865
GO:0002443leukocyte mediated immunity0.0133165530938861
GO:0050865regulation of cell activation0.013440813355957
GO:0050778positive regulation of immune response0.0137908879340018
GO:0051247positive regulation of protein metabolic process0.0137908879340018
GO:0002684positive regulation of immune system process0.0137908879340018
GO:0043405regulation of MAP kinase activity0.0146892985009627
GO:0050776regulation of immune response0.0152502888001131
GO:0002682regulation of immune system process0.0153355378312316
GO:0051240positive regulation of multicellular organismal process0.0158711118749748
GO:0043235receptor complex0.0159424075836415
GO:0002252immune effector process0.0159424075836415
GO:0051049regulation of transport0.0159424075836415
GO:0018193peptidyl-amino acid modification0.0172968612425269
GO:0005813centrosome0.0181924364789254
GO:0008081phosphoric diester hydrolase activity0.0192030526561742
GO:0045860positive regulation of protein kinase activity0.0193204581157774
GO:0033674positive regulation of kinase activity0.0193204581157774
GO:0005815microtubule organizing center0.0193204581157774
GO:0051347positive regulation of transferase activity0.0193204581157774
GO:0009986cell surface0.0193204581157774
GO:0000165MAPKKK cascade0.019342175429056
GO:0046649lymphocyte activation0.0197446520568577
GO:0003823antigen binding0.0222714703628157
GO:0045321leukocyte activation0.0223815037690259
GO:0010324membrane invagination0.0239261978510177
GO:0006897endocytosis0.0239261978510177
GO:0001775cell activation0.0250907357025209
GO:0008284positive regulation of cell proliferation0.0274576146727099
GO:0005625soluble fraction0.0274576146727099
GO:0045859regulation of protein kinase activity0.0275028163566002
GO:0043549regulation of kinase activity0.0277757427115939
GO:0051338regulation of transferase activity0.0280427158273869
GO:0043085positive regulation of catalytic activity0.028751495277678
GO:0051239regulation of multicellular organismal process0.0307729921850535
GO:0016044membrane organization and biogenesis0.0312187665397194
GO:0044444cytoplasmic part0.0338985011741535
GO:0031325positive regulation of cellular metabolic process0.0392568258729603
GO:0007243protein kinase cascade0.0400249082645411
GO:0009893positive regulation of metabolic process0.0408226657216295
GO:0007165signal transduction0.0408226657216295
GO:0019882antigen processing and presentation0.0428523724164199
GO:0051246regulation of protein metabolic process0.0431476503037833
GO:0007154cell communication0.0463533562117629
GO:0042127regulation of cell proliferation0.0470070566661671
GO:0006520amino acid metabolic process0.0470565201783836



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


Uber Anatomy
Ontology termp-valuen
hemopoietic organ1.38e-117
immune organ1.38e-117
spleen5.50e-113
gastrointestinal system mesentery5.50e-113
stomach region5.50e-113
mesentery5.50e-113
gastrointestinal system serosa5.50e-113
mesentery of stomach5.50e-113
gut mesentery5.50e-113
dorsal mesentery5.50e-113
dorsal mesogastrium5.50e-113
peritoneal cavity5.50e-113
spleen primordium5.50e-113
Disease
Ontology termp-valuen
lymphoma7.42e-1610
hematologic cancer4.40e-0751
immune system cancer4.40e-0751


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)
MA0003.10.0938548
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.0695829
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.182167
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.11.33363
MA0103.11.29536
MA0105.10.656404
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.061409
MA0147.10.46175
MA0148.11.75269
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.0247757
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.11.21162
MA0155.10.180766
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.253219
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.20.000248021
MA0102.21.75932
MA0258.10.418966
MA0259.11.1888
MA0442.10



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
BATF#10538318.26835134422770.0002681660105721290.00286575155818506
BCL11A#53335321.27709132770530.0001704839114606140.00208052923919549
BCL3#602325.91032710280379.48553136097325e-050.00137343603189891
BCLAF1#9774210.82632380506090.01202203816432580.0436370779496063
EBF1#187936.679850134926750.005184294118278910.024031001438859
IRF4#3662316.43588451505810.0003669431395554610.00365644256769705
MEF2A#4205314.0574231822330.0005830038854186610.00488513661659495
MEF2C#4208330.9835158694685.56692972943475e-050.00094063189453557
PAX5#507935.002174148383370.01196533174786410.0434690163634053
PBX3#5090210.95725634337210.01174530180688030.0428081512967641
POU2F2#545249.106124057742520.000145395665174930.00188002697476841
RXRA#6256210.03730856956660.01391703805920110.0488680206389706
TCF12#693837.975848676639820.003090920396013070.0162707981471375
WRNIP1#56897254.9099821746880.0004911931032311440.00439134707313452



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.