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Coexpression cluster:C1590

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Full id: C1590_Mast_CD19_Basophils_CD4_Natural_Eosinophils_CD8



Phase1 CAGE Peaks

  Short description
Hg19::chr10:63806474..63806496,+ p@chr10:63806474..63806496
+
Hg19::chr11:73694239..73694253,- p2@UCP2
Hg19::chr11:73694257..73694289,- p3@UCP2
Hg19::chr12:25539261..25539297,+ p@chr12:25539261..25539297
+
Hg19::chr22:32188667..32188693,+ p2@DEPDC5


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:0000303response to superoxide0.00735856827869091
GO:0000305response to oxygen radical0.00735856827869091
GO:0000302response to reactive oxygen species0.0264822674140548
GO:0006839mitochondrial transport0.0352987719354742
GO:0007005mitochondrion organization and biogenesis0.0495752912277362
GO:0006979response to oxidative stress0.0495752912277362
GO:0015992proton transport0.0495752912277362
GO:0006818hydrogen transport0.0495752912277362



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


Cell Type
Ontology termp-valuen
leukocyte1.35e-71136
hematopoietic stem cell8.81e-67168
angioblastic mesenchymal cell8.81e-67168
hematopoietic cell1.94e-63177
hematopoietic oligopotent progenitor cell3.71e-62161
hematopoietic multipotent progenitor cell3.71e-62161
hematopoietic lineage restricted progenitor cell9.24e-62120
nongranular leukocyte5.18e-57115
nucleate cell3.91e-3355
myeloid leukocyte1.13e-3172
lymphocyte1.15e-3153
common lymphoid progenitor1.15e-3153
lymphoid lineage restricted progenitor cell9.00e-3152
myeloid cell4.84e-29108
common myeloid progenitor4.84e-29108
granulocyte monocyte progenitor cell1.76e-2867
myeloid lineage restricted progenitor cell9.69e-2866
classical monocyte4.32e-2642
CD14-positive, CD16-negative classical monocyte4.32e-2642
macrophage dendritic cell progenitor3.98e-2361
monopoietic cell7.99e-2259
monocyte7.99e-2259
monoblast7.99e-2259
promonocyte7.99e-2259
defensive cell4.94e-2148
phagocyte4.94e-2148
lymphocyte of B lineage1.66e-1824
pro-B cell1.66e-1824
B cell3.06e-1514
mature alpha-beta T cell1.54e-1418
alpha-beta T cell1.54e-1418
immature T cell1.54e-1418
mature T cell1.54e-1418
immature alpha-beta T cell1.54e-1418
mesenchymal cell5.81e-13354
connective tissue cell1.82e-12361
T cell5.75e-1125
pro-T cell5.75e-1125
motile cell7.99e-10386
CD8-positive, alpha-beta T cell9.23e-1011
intermediate monocyte8.41e-089
CD14-positive, CD16-positive monocyte8.41e-089
CD4-positive, alpha-beta T cell1.06e-076
stuff accumulating cell4.01e-0787
histamine secreting cell8.74e-075
biogenic amine secreting cell8.74e-075
granulocytopoietic cell8.74e-075
mast cell8.74e-075
mast cell progenitor8.74e-075
basophil mast progenitor cell8.74e-075
granulocyte9.14e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system9.35e-3898
blood island9.35e-3898
hemolymphoid system2.83e-34108
immune system2.14e-2593
bone marrow6.48e-2576
bone element1.08e-2182
skeletal element4.01e-1890
skeletal system1.51e-14100
connective tissue3.38e-11371
blood2.22e-1015
haemolymphatic fluid2.22e-1015
organism substance2.22e-1015
lateral plate mesoderm4.12e-10203


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
BHLHE40#8553326.92308812818640.0001069419523743840.00148918807520377
E2F4#187437.600836189170660.004354147360375710.0206466649793543
EBF1#187947.12517347725520.0007230531046774210.00576890322378955
GTF2B#2959212.77753197372970.00919936089559720.0347828561499991
IRF3#3661218.79278088459580.004339629777121510.0205843670766097
JUNB#3726212.24425306392850.009990490593345960.037464877812512
NFYB#4801310.05587595212190.001938165606725460.0113859870514569
POU2F2#545235.463674434645510.01115650094469780.040996931922286
RFX5#599337.228746496317060.00502918278958660.0234630046172445
SMARCB1#6598310.95162946869440.001511872848343180.00964972733655892
SP2#6668210.46141219753790.01353191183347140.0477726849871858
SREBF1#6720218.80233977619530.004335312729587370.0205751034338533



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.