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MCL coexpression mm9:3346: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,1.17824125248717,0.297874496813457,0.0913378685245542,0.226566880277176,0.0333321253665857,0.226549106464441,0,0,0.147661033956106,0,0.212433811736393,0.105247439647798,0.153628809860867,0,0.113232148794519,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.783727468163968,0.701837767320913,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.449102596679598,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0491463288895459,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0672592169170953,0,0,0,0,0,0.0659019793256198,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179727725901961,0,0,0,0,0,0,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0.209873913294111,0,0,0,0,0,0,0,0,0,0,0,0.461808563544067,0.147815532899656,0.348797592572923,0.586391277234756,0.752409115049715,0.696673220342184,0.516365263842763,0.580480310552908,0.400451078495117,0.599016397045127,0.344375416766336,0.391264800534538,0.387955042324043,0.552825342434304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0978461107777356,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0.0625582350728301,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,1.17824125248717,0.297874496813457,0.0913378685245542,0.226566880277176,0.0333321253665857,0.226549106464441,0,0,0.147661033956106,0,0.212433811736393,0.105247439647798,0.153628809860867,0,0.113232148794519,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.783727468163968,0.701837767320913,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.449102596679598,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0491463288895459,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0672592169170953,0,0,0,0,0,0.0659019793256198,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179727725901961,0,0,0,0,0,0,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0.209873913294111,0,0,0,0,0,0,0,0,0,0,0,0.461808563544067,0.147815532899656,0.348797592572923,0.586391277234756,0.752409115049715,0.696673220342184,0.516365263842763,0.580480310552908,0.400451078495117,0.599016397045127,0.344375416766336,0.391264800534538,0.387955042324043,0.552825342434304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0978461107777356,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0.0625582350728301,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000084!9.78e-17!11;CL:0000827!9.78e-17!11;CL:0000791!1.19e-16!9;CL:0000789!1.19e-16!9;CL:0002420!1.19e-16!9;CL:0002419!1.19e-16!9;CL:0000790!1.19e-16!9;CL:0000838!3.38e-15!12;CL:0000624!2.97e-14!8;CL:0000542!6.77e-14!13;CL:0000051!6.77e-14!13;CL:0002031!1.31e-13!25;CL:0000988!1.28e-11!32;CL:0002032!1.28e-11!32;CL:0000037!1.28e-11!32;CL:0000566!1.28e-11!32;CL:0000837!1.28e-11!32;CL:0002242!5.73e-11!16;CL:0000738!3.19e-10!17;CL:0002087!3.19e-10!17;CL:0000893!1.83e-09!6;CL:0002489!1.83e-09!6;CL:0000898!1.83e-09!6;CL:0000809!1.83e-09!6;CL:0000810!1.83e-09!6;CL:0000895!1.83e-09!6;CL:0000808!1.83e-09!6;CL:0000894!1.83e-09!6;CL:0000806!1.83e-09!6;CL:0000807!1.83e-09!6;CL:0000805!1.83e-09!6;CL:0002425!1.83e-09!6;CL:0002436!1.83e-09!6;CL:0002427!1.83e-09!6;CL:0002428!1.83e-09!6;CL:0002429!1.83e-09!6;CL:0002433!1.83e-09!6;CL:0002431!1.83e-09!6;CL:0002432!1.83e-09!6;CL:0002320!3.63e-07!46;CL:0000134!3.63e-07!46
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003408!8.49e-38!24;UBERON:0002370!1.12e-35!23;UBERON:0000974!1.12e-35!23;UBERON:0004807!1.12e-35!23;UBERON:0005058!1.12e-35!23;UBERON:0003351!1.12e-35!23;UBERON:0009113!1.12e-35!23;UBERON:0003295!1.12e-35!23;UBERON:0009722!1.12e-35!23;UBERON:0005562!1.12e-35!23;UBERON:0007690!1.12e-35!23;UBERON:0006562!5.36e-34!24;UBERON:0001557!5.36e-34!24;UBERON:0001042!5.36e-34!24;UBERON:0008814!5.36e-34!24;UBERON:0009145!5.36e-34!24;UBERON:0004177!2.03e-30!29;UBERON:0005057!2.03e-30!29;UBERON:0000072!1.06e-29!27;UBERON:0002193!5.19e-27!48;UBERON:0002405!5.19e-27!48;UBERON:0002390!1.43e-26!45;UBERON:0003061!1.43e-26!45;UBERON:0000077!2.30e-24!35;UBERON:0001004!8.73e-24!42;UBERON:0007811!1.45e-23!36;UBERON:0000065!4.00e-22!41;UBERON:0000063!7.58e-22!35;UBERON:0000153!6.15e-19!43;UBERON:0003929!3.10e-12!55;UBERON:0001041!3.57e-11!80;UBERON:0005911!4.07e-11!69;UBERON:0003081!5.13e-11!87;UBERON:0002530!6.56e-11!65;UBERON:0002368!7.67e-11!60;UBERON:0000490!1.88e-09!66;UBERON:0000949!2.67e-08!72;UBERON:0002384!3.63e-07!46
}}
}}

Revision as of 19:55, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr2:34814232..34814263,-p9@Traf1
Mm9::chr3:101101404..101101429,+p@chr3:101101404..101101429
+
Mm9::chr3:101101446..101101459,+p@chr3:101101446..101101459
+


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
T cell9.78e-1711
pro-T cell9.78e-1711
mature alpha-beta T cell1.19e-169
alpha-beta T cell1.19e-169
immature T cell1.19e-169
mature T cell1.19e-169
immature alpha-beta T cell1.19e-169
lymphoid lineage restricted progenitor cell3.38e-1512
CD4-positive, alpha-beta T cell2.97e-148
lymphocyte6.77e-1413
common lymphoid progenitor6.77e-1413
hematopoietic lineage restricted progenitor cell1.31e-1325
hematopoietic cell1.28e-1132
hematopoietic oligopotent progenitor cell1.28e-1132
hematopoietic stem cell1.28e-1132
angioblastic mesenchymal cell1.28e-1132
hematopoietic multipotent progenitor cell1.28e-1132
nucleate cell5.73e-1116
leukocyte3.19e-1017
nongranular leukocyte3.19e-1017
thymocyte1.83e-096
double negative thymocyte1.83e-096
naive T cell1.83e-096
double-positive, alpha-beta thymocyte1.83e-096
CD4-positive, alpha-beta thymocyte1.83e-096
naive thymus-derived CD4-positive, alpha-beta T cell1.83e-096
DN4 thymocyte1.83e-096
DN1 thymic pro-T cell1.83e-096
DN2 thymocyte1.83e-096
DN3 thymocyte1.83e-096
immature single positive thymocyte1.83e-096
early T lineage precursor1.83e-096
mature CD4 single-positive thymocyte1.83e-096
resting double-positive thymocyte1.83e-096
double-positive blast1.83e-096
CD69-positive double-positive thymocyte1.83e-096
CD69-positive, CD4-positive single-positive thymocyte1.83e-096
CD4-positive, CD8-intermediate double-positive thymocyte1.83e-096
CD24-positive, CD4 single-positive thymocyte1.83e-096
connective tissue cell3.63e-0746
mesenchymal cell3.63e-0746

Uber Anatomy
Ontology termp-valuen
gland of gut8.49e-3824
thymus1.12e-3523
neck1.12e-3523
respiratory system epithelium1.12e-3523
hemolymphoid system gland1.12e-3523
pharyngeal epithelium1.12e-3523
thymic region1.12e-3523
pharyngeal gland1.12e-3523
entire pharyngeal arch endoderm1.12e-3523
thymus primordium1.12e-3523
early pharyngeal endoderm1.12e-3523
pharynx5.36e-3424
upper respiratory tract5.36e-3424
chordate pharynx5.36e-3424
pharyngeal arch system5.36e-3424
pharyngeal region of foregut5.36e-3424
hemopoietic organ2.03e-3029
immune organ2.03e-3029
segment of respiratory tract1.06e-2927
hemolymphoid system5.19e-2748
immune system5.19e-2748
hematopoietic system1.43e-2645
blood island1.43e-2645
mixed endoderm/mesoderm-derived structure2.30e-2435
respiratory system8.73e-2442
craniocervical region1.45e-2336
respiratory tract4.00e-2241
organ segment7.58e-2235
anterior region of body6.15e-1943
gut epithelium3.10e-1255
foregut3.57e-1180
endo-epithelium4.07e-1169
lateral plate mesoderm5.13e-1187
gland6.56e-1165
endocrine gland7.67e-1160
unilaminar epithelium1.88e-0966
endocrine system2.67e-0872
connective tissue3.63e-0746


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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