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Coexpression cluster:C1306

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Full id: C1306_CD4_Mast_Basophils_Natural_CD19_CD14_CD8



Phase1 CAGE Peaks

Hg19::chr10:22725987..22726012,+p1@LOC100289455
Hg19::chr15:66084798..66084817,+p@chr15:66084798..66084817
+
Hg19::chr1:245134140..245134165,+p@chr1:245134140..245134165
+
Hg19::chr22:41809910..41809952,-p@chr22:41809910..41809952
-
Hg19::chr9:3526047..3526146,+p1@AK125504
Hg19::chr9:3526461..3526499,+p1@ENST00000423112


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
leukocyte2.21e-39140
hematopoietic stem cell9.63e-39172
angioblastic mesenchymal cell9.63e-39172
hematopoietic cell3.56e-36182
hematopoietic oligopotent progenitor cell4.25e-35165
hematopoietic multipotent progenitor cell4.25e-35165
hematopoietic lineage restricted progenitor cell1.11e-34124
nongranular leukocyte3.07e-32119
CD14-positive, CD16-negative classical monocyte1.21e-2142
classical monocyte1.16e-1945
myeloid leukocyte2.07e-1876
myeloid cell6.13e-18112
common myeloid progenitor6.13e-18112
granulocyte monocyte progenitor cell3.08e-1771
myeloid lineage restricted progenitor cell7.42e-1770
lymphocyte9.92e-1753
common lymphoid progenitor9.92e-1753
lymphoid lineage restricted progenitor cell1.13e-1652
macrophage dendritic cell progenitor7.84e-1565
monopoietic cell4.34e-1463
monocyte4.34e-1463
monoblast4.34e-1463
promonocyte4.34e-1463
mature alpha-beta T cell3.54e-1118
alpha-beta T cell3.54e-1118
immature T cell3.54e-1118
mature T cell3.54e-1118
immature alpha-beta T cell3.54e-1118
T cell1.14e-0825
pro-T cell1.14e-0825
B cell4.91e-0814
lymphocyte of B lineage1.46e-0724
pro-B cell1.46e-0724
CD8-positive, alpha-beta T cell1.54e-0711
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.77e-21102
blood island2.77e-21102
hemolymphoid system5.87e-19112
adult organism1.33e-15115
bone marrow1.47e-1580
neural tube2.17e-1357
neural rod2.17e-1357
future spinal cord2.17e-1357
neural keel2.17e-1357
bone element4.35e-1386
central nervous system1.34e-1082
immune system3.52e-10115
regional part of forebrain3.84e-1041
forebrain3.84e-1041
future forebrain3.84e-1041
regional part of brain3.93e-1059
anterior neural tube4.17e-1042
brain3.13e-0969
future brain3.13e-0969
regional part of nervous system4.40e-0994
nervous system4.40e-0994
skeletal element4.47e-09101
skeletal system4.47e-09101
gray matter3.75e-0834
brain grey matter3.75e-0834
telencephalon3.95e-0834
regional part of telencephalon5.96e-0833
cerebral hemisphere2.08e-0732
neurectoderm2.77e-0790
neural plate8.43e-0786
presumptive neural plate8.43e-0786


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
CCNT2#90544.224134384641760.007109805478875810.0296057164550182
CTCF#1066443.573504248716680.01316635007238510.0465986795625006
E2F1#186954.089491012399440.001749817597761990.0107550141297472
E2F4#187436.334030157642220.008197175368374340.0323571244348646
E2F6#187654.180963109747820.001573598759586970.00997239568279753
GABPB1#255344.711789224121450.004730054311555960.0222834653004012
GTF2F1#296236.369830438378830.008068208196303160.031909554126319
HEY1#2346253.366759202588090.004423827045203030.020946641554788
MYC#460954.35190155967450.001297956345724110.008696257556523
NFKB1#479043.658708949462560.01207927289015230.0438189364840089
PAX5#507955.557971275981520.0003977176196612860.00388488874670829
POLR2A#543062.147453176558070.01019570676818780.0379807896690957
POU2F2#545257.588436714785448.70203885493171e-050.0012900386600003
SIN3A#2594254.507403939012610.001096110061208640.00765730024632567
SMARCB1#659839.126357890578710.002900247150367020.0156739411196471
TAF1#687263.343046285745290.0007162474284635620.00572378645506971
TAF7#687935.716534702461960.01092729379889660.0402070052516545
TBP#690863.706770687096390.000385416472907960.00377426263610262
TCF7L2#693435.385088281568670.01290488779931040.0463965567445411
TFAP2C#702235.404614304930110.01277576166695870.0460575689587678
YY1#752864.911170749853867.12445972864136e-050.00112312671637672
ZNF263#1012745.481227758007120.002675609380607230.0147406218336888



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.