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MCL coexpression mm9:1157: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.901603214580908,0.153011413271348,0,0,0,0.268578825882798,0.207349631308431,0,0.0800761525331175,0,0.634714277490948,0.540086578053177,0.753451767972442,0,0.0411126530948397,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.200913802025349,0,0,0,0,0,0,0,0,0,0,0,0.454175174874543,0,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0681778550615498,0.056886356216389,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.901603214580908,0.153011413271348,0,0,0,0.268578825882798,0.207349631308431,0,0.0800761525331175,0,0.634714277490948,0.540086578053177,0.753451767972442,0,0.0411126530948397,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.200913802025349,0,0,0,0,0,0,0,0,0,0,0,0.454175174874543,0,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0681778550615498,0.056886356216389,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0002031!1.14e-29!25;CL:0000838!2.73e-25!12;CL:0000542!2.59e-23!13;CL:0000051!2.59e-23!13;CL:0000988!6.05e-23!32;CL:0002032!6.05e-23!32;CL:0000037!6.05e-23!32;CL:0000566!6.05e-23!32;CL:0000837!6.05e-23!32;CL:0000084!2.42e-20!11;CL:0000827!2.42e-20!11;CL:0002242!7.34e-19!16;CL:0000738!1.01e-17!17;CL:0002087!1.01e-17!17;CL:0000791!1.02e-17!9;CL:0000789!1.02e-17!9;CL:0002420!1.02e-17!9;CL:0002419!1.02e-17!9;CL:0000790!1.02e-17!9;CL:0000553!1.41e-17!6;CL:0000556!1.41e-17!6;CL:0002320!1.30e-15!46;CL:0000134!1.30e-15!46;CL:0000624!3.67e-13!8;CL:0000219!4.04e-13!54;CL:0000050!8.23e-12!9;CL:0000893!4.12e-10!6;CL:0002489!4.12e-10!6;CL:0000898!4.12e-10!6;CL:0000809!4.12e-10!6;CL:0000810!4.12e-10!6;CL:0000895!4.12e-10!6;CL:0000808!4.12e-10!6;CL:0000894!4.12e-10!6;CL:0000806!4.12e-10!6;CL:0000807!4.12e-10!6;CL:0000805!4.12e-10!6;CL:0002425!4.12e-10!6;CL:0002436!4.12e-10!6;CL:0002427!4.12e-10!6;CL:0002428!4.12e-10!6;CL:0002429!4.12e-10!6;CL:0002433!4.12e-10!6;CL:0002431!4.12e-10!6;CL:0002432!4.12e-10!6;CL:0000034!1.16e-09!97;CL:0000839!3.06e-08!13;CL:0000815!4.65e-08!1;CL:0000792!4.65e-08!1;CL:0000945!8.50e-08!1;CL:0000236!8.50e-08!1;CL:0000826!8.50e-08!1;CL:0000625!1.78e-07!1;CL:0000723!2.98e-07!91;CL:0000048!2.98e-07!91
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!1.30e-15!46
}}
}}

Revision as of 16:25, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr17:29574198..29574200,-p@chr17:29574198..29574200
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Mm9::chr17:35164579..35164592,-p4@Ng23
Mm9::chr2:3632851..3632870,-p@chr2:3632851..3632870
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Mm9::chr2:3644059..3644080,-p@chr2:3644059..3644080
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Mm9::chr9:32423528..32423533,-p@chr9:32423528..32423533
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Mm9::chr9:7868276..7868285,+p@chr9:7868276..7868285
+
Mm9::chr9:7870721..7870735,+p@chr9:7870721..7870735
+


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
hematopoietic lineage restricted progenitor cell1.14e-2925
lymphoid lineage restricted progenitor cell2.73e-2512
lymphocyte2.59e-2313
common lymphoid progenitor2.59e-2313
hematopoietic cell6.05e-2332
hematopoietic oligopotent progenitor cell6.05e-2332
hematopoietic stem cell6.05e-2332
angioblastic mesenchymal cell6.05e-2332
hematopoietic multipotent progenitor cell6.05e-2332
T cell2.42e-2011
pro-T cell2.42e-2011
nucleate cell7.34e-1916
leukocyte1.01e-1717
nongranular leukocyte1.01e-1717
mature alpha-beta T cell1.02e-179
alpha-beta T cell1.02e-179
immature T cell1.02e-179
mature T cell1.02e-179
immature alpha-beta T cell1.02e-179
megakaryocyte progenitor cell1.41e-176
megakaryocyte1.41e-176
connective tissue cell1.30e-1546
mesenchymal cell1.30e-1546
CD4-positive, alpha-beta T cell3.67e-138
motile cell4.04e-1354
megakaryocyte-erythroid progenitor cell8.23e-129
thymocyte4.12e-106
double negative thymocyte4.12e-106
naive T cell4.12e-106
double-positive, alpha-beta thymocyte4.12e-106
CD4-positive, alpha-beta thymocyte4.12e-106
naive thymus-derived CD4-positive, alpha-beta T cell4.12e-106
DN4 thymocyte4.12e-106
DN1 thymic pro-T cell4.12e-106
DN2 thymocyte4.12e-106
DN3 thymocyte4.12e-106
immature single positive thymocyte4.12e-106
early T lineage precursor4.12e-106
mature CD4 single-positive thymocyte4.12e-106
resting double-positive thymocyte4.12e-106
double-positive blast4.12e-106
CD69-positive double-positive thymocyte4.12e-106
CD69-positive, CD4-positive single-positive thymocyte4.12e-106
CD4-positive, CD8-intermediate double-positive thymocyte4.12e-106
CD24-positive, CD4 single-positive thymocyte4.12e-106
stem cell1.16e-0997
myeloid lineage restricted progenitor cell3.06e-0813
regulatory T cell4.65e-081
CD4-positive, CD25-positive, alpha-beta regulatory T cell4.65e-081
lymphocyte of B lineage8.50e-081
B cell8.50e-081
pro-B cell8.50e-081
CD8-positive, alpha-beta T cell1.78e-071
somatic stem cell2.98e-0791
multi fate stem cell2.98e-0791

Uber Anatomy
Ontology termp-valuen
connective tissue1.30e-1546


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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