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Coexpression cluster:C3366

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Full id: C3366_Mast_Neutrophils_Eosinophils_CD4_Basophils_CD19_lung



Phase1 CAGE Peaks

Hg19::chr13:33112956..33112967,-p3@N4BP2L2
Hg19::chr19:58144529..58144579,+p1@ZNF211
Hg19::chr2:201729393..201729428,-p2@CLK1


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


No GOStat results

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
leukocyte1.40e-32140
hematopoietic stem cell3.39e-30172
angioblastic mesenchymal cell3.39e-30172
hematopoietic oligopotent progenitor cell7.84e-28165
hematopoietic multipotent progenitor cell7.84e-28165
hematopoietic cell3.06e-26182
hematopoietic lineage restricted progenitor cell3.25e-26124
nongranular leukocyte1.56e-23119
myeloid leukocyte9.09e-1876
myeloid cell3.49e-16112
common myeloid progenitor3.49e-16112
granulocyte monocyte progenitor cell1.46e-1471
myeloid lineage restricted progenitor cell2.73e-1470
CD14-positive, CD16-negative classical monocyte1.56e-1342
classical monocyte2.74e-1245
macrophage dendritic cell progenitor8.33e-1265
lymphoid lineage restricted progenitor cell2.04e-1152
monopoietic cell2.83e-1163
monocyte2.83e-1163
monoblast2.83e-1163
promonocyte2.83e-1163
mature alpha-beta T cell2.85e-1118
alpha-beta T cell2.85e-1118
immature T cell2.85e-1118
mature T cell2.85e-1118
immature alpha-beta T cell2.85e-1118
lymphocyte3.10e-1153
common lymphoid progenitor3.10e-1153
T cell3.47e-0825
pro-T cell3.47e-0825
CD8-positive, alpha-beta T cell4.41e-0811
Uber Anatomy
Ontology termp-valuen
adult organism9.19e-30115
hematopoietic system1.61e-17102
blood island1.61e-17102
hemolymphoid system1.65e-15112
neural tube1.92e-1157
neural rod1.92e-1157
future spinal cord1.92e-1157
neural keel1.92e-1157
bone marrow1.05e-1080
bone element2.97e-1086
anterior neural tube5.01e-1042
regional part of forebrain5.42e-1041
forebrain5.42e-1041
future forebrain5.42e-1041
central nervous system6.68e-0982
regional part of brain1.53e-0859
skeletal element5.92e-08101
skeletal system5.92e-08101
immune system9.59e-08115
brain1.32e-0769
future brain1.32e-0769
gray matter1.60e-0734
brain grey matter1.60e-0734
telencephalon1.92e-0734
blood2.77e-0715
haemolymphatic fluid2.77e-0715
organism substance2.77e-0715
regional part of telencephalon2.91e-0733
regional part of nervous system3.32e-0794
nervous system3.32e-0794
cerebral hemisphere9.30e-0732


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


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

TF#promotersEnrichmentp-valueq-value
ELF1#199734.258097958807540.01295179875054610.0460813827658337
GABPB1#255337.067683836182170.002832212825417420.0153794766949394
MYC#460935.22228187160940.007020843755740150.0293675865510151
NFKB1#479035.488063424193840.006049381815655430.0269007658794702
PAX5#507936.669565531177830.003370290999677260.0172552488707924
PBX3#5090214.60967512449610.006056122473217890.0268142858648636
SIX5#147912211.3911435703060.009873820081429030.037061957140755
SP1#666735.69838137814090.005403962701712170.024582275386738
YY1#752834.911170749853860.008441455341808260.0328471369017553



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.