Personal tools

MCL coexpression mm9:3167: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 3: Line 3:
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.535256539748224,0.230336981122899,0.546998596489545,0.504311923458448,0.153628809860867,0,0,0,0,0.164001280677683,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0673620022139481,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.098801861608942,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.535256539748224,0.230336981122899,0.546998596489545,0.504311923458448,0.153628809860867,0,0,0,0,0.164001280677683,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0673620022139481,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.098801861608942,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000553!4.13e-46!6;CL:0000556!4.13e-46!6;CL:0000050!6.64e-31!9;CL:0000839!1.61e-21!13;CL:0000763!1.50e-17!16;CL:0002031!6.24e-16!25;CL:0002027!8.79e-16!3;CL:0002006!8.79e-16!3;CL:0002024!8.79e-16!3;CL:0000049!7.94e-15!19;CL:0000988!1.79e-12!32;CL:0002032!1.79e-12!32;CL:0000037!1.79e-12!32;CL:0000566!1.79e-12!32;CL:0000837!1.79e-12!32;CL:0000945!7.11e-12!1;CL:0000236!7.11e-12!1;CL:0000826!7.11e-12!1;CL:0002320!1.08e-08!46;CL:0000134!1.08e-08!46;CL:0000219!2.11e-07!54
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002371!1.50e-17!16;UBERON:0001474!7.68e-13!22;UBERON:0004765!7.68e-13!22;UBERON:0001434!7.68e-13!22;UBERON:0003199!3.34e-12!1;UBERON:0002204!6.83e-09!32;UBERON:0002384!1.08e-08!46;UBERON:0002193!2.27e-08!48;UBERON:0002405!2.27e-08!48;UBERON:0001962!9.80e-07!2;UBERON:0001961!9.80e-07!2;UBERON:0001744!9.80e-07!2
}}
}}

Revision as of 19:38, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr18:87083501..87083507,+p@chr18:87083501..87083507
+
Mm9::chr2:84799019..84799022,+p@chr2:84799019..84799022
+
Mm9::chr6:135966781..135966785,+p@chr6:135966781..135966785
+


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

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>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
megakaryocyte progenitor cell4.13e-466
megakaryocyte4.13e-466
megakaryocyte-erythroid progenitor cell6.64e-319
myeloid lineage restricted progenitor cell1.61e-2113
myeloid cell1.50e-1716
hematopoietic lineage restricted progenitor cell6.24e-1625
CD9-positive, CD41-positive megakaryocyte cell8.79e-163
Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell8.79e-163
Kit-positive megakaryocyte progenitor cell8.79e-163
common myeloid progenitor7.94e-1519
hematopoietic cell1.79e-1232
hematopoietic oligopotent progenitor cell1.79e-1232
hematopoietic stem cell1.79e-1232
angioblastic mesenchymal cell1.79e-1232
hematopoietic multipotent progenitor cell1.79e-1232
lymphocyte of B lineage7.11e-121
B cell7.11e-121
pro-B cell7.11e-121
connective tissue cell1.08e-0846
mesenchymal cell1.08e-0846
motile cell2.11e-0754

Uber Anatomy
Ontology termp-valuen
bone marrow1.50e-1716
bone element7.68e-1322
skeletal element7.68e-1322
skeletal system7.68e-1322
egg chamber3.34e-121
musculoskeletal system6.83e-0932
connective tissue1.08e-0846
hemolymphoid system2.27e-0848
immune system2.27e-0848
gut-associated lymphoid tissue9.80e-072
mucosa-associated lymphoid tissue9.80e-072
lymphoid tissue9.80e-072


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}}}