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Coexpression cluster:C1148

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Full id: C1148_CD14_Eosinophils_Mast_Neutrophils_CD14CD16_blood_Basophils



Phase1 CAGE Peaks

Hg19::chr11:65186701..65186725,+p@chr11:65186701..65186725
+
Hg19::chr18:3448314..3448333,+p18@TGIF1
Hg19::chr19:12897222..12897231,+p@chr19:12897222..12897231
+
Hg19::chr2:157190968..157190980,-p@chr2:157190968..157190980
-
Hg19::chr2:28614676..28614691,+p@chr2:28614676..28614691
+
Hg19::chr2:28614747..28614759,+p@chr2:28614747..28614759
+
Hg19::chr8:17940787..17940819,-p@chr8:17940787..17940819
-


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
myeloid leukocyte6.32e-3872
classical monocyte5.79e-3642
CD14-positive, CD16-negative classical monocyte5.79e-3642
leukocyte5.04e-35136
defensive cell1.01e-3448
phagocyte1.01e-3448
granulocyte monocyte progenitor cell1.84e-3367
macrophage dendritic cell progenitor1.61e-3261
myeloid lineage restricted progenitor cell2.21e-3266
monopoietic cell4.98e-3159
monocyte4.98e-3159
monoblast4.98e-3159
promonocyte4.98e-3159
hematopoietic lineage restricted progenitor cell2.06e-29120
nongranular leukocyte3.33e-27115
hematopoietic stem cell2.43e-25168
angioblastic mesenchymal cell2.43e-25168
hematopoietic cell6.84e-25177
myeloid cell4.39e-24108
common myeloid progenitor4.39e-24108
hematopoietic oligopotent progenitor cell1.09e-23161
hematopoietic multipotent progenitor cell1.09e-23161
stuff accumulating cell2.61e-1387
intermediate monocyte9.38e-099
CD14-positive, CD16-positive monocyte9.38e-099
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.47e-3698
blood island1.47e-3698
hemolymphoid system1.56e-33108
bone marrow7.22e-3176
bone element2.66e-2882
immune system1.02e-2793
skeletal element3.53e-2690
skeletal system1.14e-21100
lateral plate mesoderm1.76e-18203
musculoskeletal system1.49e-10167
mesoderm1.37e-08315
mesoderm-derived structure1.37e-08315
presumptive mesoderm1.37e-08315


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
E2F1#186953.505278010628090.005090553587915050.0236858382860313
E2F6#187653.583682665498130.004598101897827240.0217245493828174
HEY1#2346252.885793602218360.01231366941853030.0446227383900723
HMGN3#932444.673455841914620.005751881099938870.0259065339915696
HNF4A#3172413.21845163597350.0001099302546513230.00152835541340914
HNF4G#3174312.32289536847720.001324450221997230.00879198224974062
MEF2C#4208211.80324414074970.01134538181234960.0415973435527464
NR3C1#2908510.69501666512362.48694675006425e-050.000538532514264898
NR4A1#31641394.0874200426440.002534791264696470.0140358976137869
SIN3A#2594253.863489090582240.003248465677640770.0168286957791232
SMARCC2#6601226.90153555054220.002285195715908250.0129708454007468
STAT3#677446.011122855516710.002255779156394480.0128108384619186



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.