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MCL coexpression mm9:1726: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0.765631971252902,0.918029698467643,1.09348101982613,1.09401798810024,0.264675322615929,0.283240042968561,0,0.213101464223062,0.166764232955903,0,0,0,0,0.0720340130401847,0,0.327220755611459,0.0107757977991854,0,0,0.0354470656487682,0,0,0.239414101994022,0.521536412861575,0.59507814701376,0.307436904245536,0.399379240739151,0.628451718672733,0.648950341212253,0.536436673721678,0,0,0,0,0.0718253131188203,0,0,0,0,0,0,0,0.0514985917256918,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.180286134138849,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0541007832251936,0,0.0617533076901792,0,0,0,0.00841408874671191,0,0,0,0,0,0,0.160776625956154,0.244515115010918,0,0,0,0,0,0,0,0.156240760022301,0.0980757838043811,0,0.28182189314036,0,0,0,0,0,0,0,0,0.240944651400519,0,0,0,0,0,0.4041286246838,0,0.0825867363219064,0.631282071866631,0,0,0,0,0,0,0.0696031033168343,0,0,0.0652962901395099,0,0.096497738357694,0.0978549673988937,0.312221647018813,0,0,0,0.0615821223828264,0.055406237837571,0,0.0388988969149198,0.0470914996606615,0,0,0,0,0,0.716215177017413,0.67319603898935,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.17402829139469,0.412746633920959,0,0,0,0,0.0343736450202266,0.348879607446604,0.740945898392712,0.64920611408497,0.478664838509681,0.422776064246337,0.373784978830726,0.278483662180697,0.580901567412417,0.608464147213664,0,0,0,0,0,0.00417642736491142,0.0451005099061268,0.00696248437476831,0.0633328814307688,0,0.112756652096095,0,0,0.0880872011895838,0.0802151268900158,0.0410018795069267,0.0456823364512247,0,0.172137356316638,0.321856331993588,0,0.137398724818722,0.40827191965534,0.442174267268086,0.18701061621933,0.118146260898077,0,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0,0,0,0,0,0,0,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0,0.0134828919578736,0,0,0,0,0,0,0.180944521652268,0,0.0795870632106326,0,0,0,0,0,0,0,0,0,0,0,0.0387196010452243,0.0306105462638406,0.220522613690055,1.02207566038938,0.85589083580454,0.840117120950281,1.1835702900381,1.22718842978801,0.742815629286331,0.136990127740213,0.0685090053637401,0,0,0.0749511157581746,0.104960908225686,0,0.0681778550615498,0.107177024667156,0,0.410962766989515,0,0,0,0.0824580172145032,0.104541791833482,0.204651341634924,0.467559496758686,0.535923190653437,0.282933765640564,0,0,0,0,0,0,0,0,0.0531569878936061,0.065954475348479,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.430123603772986,0,0,0,0.0890501346930447,0,0.0827152053638903,0.215665353490502,0.398758544149858,0,0,0,0,0,0,0,0.108632300707451,0,0,0,0,0,0.0945084131504676,0.0298146084833143,0,0.106883683022926,0.149856261570464,0.0680443604386861,0.17765030293269,0.192788814166112,0.141926310973037,0.14080716076623,0.107989470316075,0.128130558678549,0.237778583059673,0.129578075275077,0.0766073954291401,0,0.0596387295197733,0.0752018343650535,0.185379913858661,0.116511072944617,0.157166310227119,0.141587052709877,0.125479481069736,0.0729583017401753,0.0485954252755336,0.0553034373508932,0,0.0486884105045233,0.199544328755032,0.148982201447044,0.117229416500102,0.318299956101747,0.491001042437007,0.283559394940529,0.264051243524336,0.238635006532002,0.313319849241165,0.0377322202771202
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|gostat_on_MCL_coexpression=GO:0004446;multiple inositol-polyphosphate phosphatase activity;0.00909439544184518;17330!GO:0000239;pachytene;0.018184306467792;18426!GO:0051324;prophase;0.018184306467792;18426!GO:0007128;meiotic prophase I;0.018184306467792;18426!GO:0003993;acid phosphatase activity;0.018184306467792;17330!GO:0007127;meiosis I;0.0389450166409908;18426!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0389450166409908;17330!
|gostat_on_MCL_coexpression=GO:0004446;multiple inositol-polyphosphate phosphatase activity;0.00909439544184518;17330!GO:0000239;pachytene;0.018184306467792;18426!GO:0051324;prophase;0.018184306467792;18426!GO:0007128;meiotic prophase I;0.018184306467792;18426!GO:0003993;acid phosphatase activity;0.018184306467792;17330!GO:0007127;meiosis I;0.0389450166409908;18426!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0389450166409908;17330!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!3.98e-13!47;UBERON:0000160!9.47e-13!31;UBERON:0000344!2.49e-08!15;UBERON:0004923!2.27e-07!24;UBERON:0001242!3.92e-07!13;UBERON:0000060!3.92e-07!13;UBERON:0001262!3.92e-07!13;UBERON:0004786!3.92e-07!13;UBERON:0004119!6.50e-07!118;UBERON:0000925!6.50e-07!118;UBERON:0006595!6.50e-07!118
}}
}}

Revision as of 17:20, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr19:32560215..32560225,+p4@Minpp1
Mm9::chr19:32560241..32560264,+p3@Minpp1
Mm9::chr19:32560277..32560292,+p2@Minpp1
Mm9::chr19:5560570..5560582,-p2@Ovol1
Mm9::chr19:6968774..6968790,+p@chr19:6968774..6968790
+


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:0004446multiple inositol-polyphosphate phosphatase activity0.00909439544184518
GO:0000239pachytene0.018184306467792
GO:0051324prophase0.018184306467792
GO:0007128meiotic prophase I0.018184306467792
GO:0003993acid phosphatase activity0.018184306467792
GO:0007127meiosis I0.0389450166409908
GO:0004437inositol or phosphatidylinositol phosphatase activity0.0389450166409908



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
gastrointestinal system3.98e-1347
intestine9.47e-1331
mucosa2.49e-0815
organ component layer2.27e-0724
intestinal mucosa3.92e-0713
anatomical wall3.92e-0713
wall of intestine3.92e-0713
gastrointestinal system mucosa3.92e-0713
endoderm-derived structure6.50e-07118
endoderm6.50e-07118
presumptive endoderm6.50e-07118


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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