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MCL coexpression mm9:345: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0003950;NAD+ ADP-ribosyltransferase activity;0.00877792301695221;80285,547253!GO:0016763;transferase activity, transferring pentosyl groups;0.0217772420971895;80285,547253!GO:0030686;90S preribosome;0.0217772420971895;12370!GO:0030689;Noc complex;0.0217772420971895;12370!GO:0030690;Noc1p-Noc2p complex;0.0217772420971895;12370!GO:0030687;nucleolar preribosome, large subunit precursor;0.0217772420971895;12370!GO:0006014;D-ribose metabolic process;0.0217772420971895;71336!GO:0004747;ribokinase activity;0.0217772420971895;71336!GO:0006868;glutamine transport;0.0348302241563201;105727!GO:0015186;L-glutamine transmembrane transporter activity;0.0348302241563201;105727!GO:0015802;basic amino acid transport;0.0401733084262888;105727!GO:0030685;nucleolar preribosome;0.0401733084262888;12370!GO:0030684;preribosome;0.0401733084262888;12370!GO:0015174;basic amino acid transmembrane transporter activity;0.0497193097025199;105727!
|gostat_on_MCL_coexpression=GO:0003950;NAD+ ADP-ribosyltransferase activity;0.00877792301695221;80285,547253!GO:0016763;transferase activity, transferring pentosyl groups;0.0217772420971895;80285,547253!GO:0030686;90S preribosome;0.0217772420971895;12370!GO:0030689;Noc complex;0.0217772420971895;12370!GO:0030690;Noc1p-Noc2p complex;0.0217772420971895;12370!GO:0030687;nucleolar preribosome, large subunit precursor;0.0217772420971895;12370!GO:0006014;D-ribose metabolic process;0.0217772420971895;71336!GO:0004747;ribokinase activity;0.0217772420971895;71336!GO:0006868;glutamine transport;0.0348302241563201;105727!GO:0015186;L-glutamine transmembrane transporter activity;0.0348302241563201;105727!GO:0015802;basic amino acid transport;0.0401733084262888;105727!GO:0030685;nucleolar preribosome;0.0401733084262888;12370!GO:0030684;preribosome;0.0401733084262888;12370!GO:0015174;basic amino acid transmembrane transporter activity;0.0497193097025199;105727!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!1.97e-20!118;UBERON:0000925!1.97e-20!118;UBERON:0006595!1.97e-20!118;UBERON:0001007!4.22e-20!116;UBERON:0001555!4.22e-20!116;UBERON:0007026!4.22e-20!116;UBERON:0004921!5.07e-19!114;UBERON:0000160!1.65e-11!31;UBERON:0005409!2.05e-11!47;UBERON:0003929!2.08e-11!55;UBERON:0000490!6.88e-11!66;UBERON:0005911!1.07e-10!69;UBERON:0004923!4.31e-10!24;UBERON:0002193!4.77e-09!48;UBERON:0002405!4.77e-09!48;UBERON:0000344!1.73e-08!15;UBERON:0001041!6.83e-08!80;UBERON:0002390!1.13e-07!45;UBERON:0003061!1.13e-07!45;UBERON:0001242!1.70e-07!13;UBERON:0000060!1.70e-07!13;UBERON:0001262!1.70e-07!13;UBERON:0004786!1.70e-07!13;UBERON:0002365!8.69e-07!25;UBERON:0002330!8.69e-07!25
}}
}}

Revision as of 20:05, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127707602..127707633,+p1@Stat2
Mm9::chr10:43723638..43723704,-p@chr10:43723638..43723704
-
Mm9::chr11:101309717..101309801,+p1@Ifi35
Mm9::chr13:58259003..58259050,+p1@5133401N09Rik
Mm9::chr16:35871458..35871474,-p1@Parp14
Mm9::chr16:35938971..35938994,-p2@Dtx3l
Mm9::chr16:35938998..35939024,-p1@Dtx3l
Mm9::chr16:35939058..35939158,+p1@Parp9
Mm9::chr17:36169627..36169687,-p1@C920025E04Rik
p1@H2-T23
p1@LOC100505163
Mm9::chr1:133904946..133904974,+p7@Elk4
Mm9::chr1:58852462..58852483,+p4@Casp8
Mm9::chr1:58852500..58852511,+p8@Casp8
Mm9::chr2:166888058..166888105,-p2@Znfx1
Mm9::chr2:51828449..51828501,-p1@Nmi
Mm9::chr2:51828510..51828542,-p2@Nmi
Mm9::chr4:115500666..115500708,+p1@Mob3c
Mm9::chr5:31999971..32000005,-p1@Rbks
Mm9::chr6:38304231..38304240,-p4@Zc3hav1
Mm9::chr6:38304243..38304292,-p2@Zc3hav1
Mm9::chr6:57530965..57530979,+p3@Herc6
Mm9::chr6:57530988..57531009,+p2@Herc6
Mm9::chr8:70018742..70018782,+p1@Nat2


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

GO IDGO nameFDR corrected p-value
GO:0003950NAD+ ADP-ribosyltransferase activity0.00877792301695221
GO:0016763transferase activity, transferring pentosyl groups0.0217772420971895
GO:003068690S preribosome0.0217772420971895
GO:0030689Noc complex0.0217772420971895
GO:0030690Noc1p-Noc2p complex0.0217772420971895
GO:0030687nucleolar preribosome, large subunit precursor0.0217772420971895
GO:0006014D-ribose metabolic process0.0217772420971895
GO:0004747ribokinase activity0.0217772420971895
GO:0006868glutamine transport0.0348302241563201
GO:0015186L-glutamine transmembrane transporter activity0.0348302241563201
GO:0015802basic amino acid transport0.0401733084262888
GO:0030685nucleolar preribosome0.0401733084262888
GO:0030684preribosome0.0401733084262888
GO:0015174basic amino acid transmembrane transporter activity0.0497193097025199



Relative expression of the co-expression cluster over median <br>Analyst:




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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure1.97e-20118
endoderm1.97e-20118
presumptive endoderm1.97e-20118
digestive system4.22e-20116
digestive tract4.22e-20116
primitive gut4.22e-20116
subdivision of digestive tract5.07e-19114
intestine1.65e-1131
gastrointestinal system2.05e-1147
gut epithelium2.08e-1155
unilaminar epithelium6.88e-1166
endo-epithelium1.07e-1069
organ component layer4.31e-1024
hemolymphoid system4.77e-0948
immune system4.77e-0948
mucosa1.73e-0815
foregut6.83e-0880
hematopoietic system1.13e-0745
blood island1.13e-0745
intestinal mucosa1.70e-0713
anatomical wall1.70e-0713
wall of intestine1.70e-0713
gastrointestinal system mucosa1.70e-0713
exocrine gland8.69e-0725
exocrine system8.69e-0725


TFBS overrepresentation<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}}}

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