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MCL coexpression mm9:868: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0.065002016191076,0,0.0573828993656285,0,0,0.0455894054315693,0.587559859632729,0.429665842895536,0.438397179103679,0.170020473907391,0.105030925370194,0.508611788039832,0.498531243513352,0.124865908594952,0.0950714588279644,0,0.306149543746875,0.335334952660016,0.277718933625524,0.0354470656487682,0.129239737494397,0.101207837822692,0,0.0896964873768703,0,0,0,0,0,0.0434877098916977,0.213525904512698,0.104094974270439,0,0.0551014608363205,0.0333929694362378,0,0.546587148837803,0.172954967691167,0.359360585787115,0.814836430503769,0.786276341439414,0.390322259497761,0.0514985917256918,0.0209679878844212,0,0,0,0,0.0385803330753519,0,0,0.856314656163621,0.800643271104138,0.502450721050023,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.303045967123761,0,0,0,0,0,0,0.0373973902764027,0,0,0,0,0,0,0,0,0,0,0.181236227563129,0.0175990736327917,0,0,0,0,0,0,0.047967174931957,0,0,0,0.0433296451889376,0,0,0,0,0,0.194684687714819,0.474627586445776,0.217136905765902,0,0,0,0,0,0,0,0.0210591418683525,0.096497738357694,0,0,0,0,0,0.0304819657131131,0,0,0.0388988969149198,0,0,0,0,0,0.0532734549622995,0,0,0,0.115506975370087,0.139890444252295,0.195436618912525,0,0,0,0,0,0,0,0,0,0,0,0.0169266687412288,0,0,0.0273460503695069,0,0.021268976479071,0,0,0,0,0,0,0,0,0.059460048139509,0,0,0,0,0,0,0.0528475443201592,0,0,0,0,0,0,0.0266298923127834,0,0,0.0482367431913278,0,0,0,0,0,0,0,0,0.0326283328848338,0.0595622930959812,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0.00454228920164013,0.0293361777120366,0,0.214611175180145,0,0,0,0,0,0.04666668282863,0,0,0,0,0.0756156309604739,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.035450992781488,0,0,0.057716207064756,0,0,0,0,0.0164856588978665,0.0127170276859676,0,0,0,0,0.104046486402113,0,0,0,0.027821827298607,0,0.322868857438944,0.388679759833789,0.350158769047897,0,0,0,0,0,0,0.0153964725958214,0,0,0.0529304404135566,0,0,0,0,0,0,0,0,0,0.0433069931089932,0,0,0.206653659181725,0,0.0212308449966822,0,0.0715236385554987,0.112006449694472,0.161527300776181,0.135841920889656,0.205691101905468,0.174600143699057,0.162218816489202,0.127175124904042,0.197906332095909,0.311448843013874,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0134759471663239,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0278279104299399,0,0,0
|coexpression_dpi_cluster_scores_median=0,0.065002016191076,0,0.0573828993656285,0,0,0.0455894054315693,0.587559859632729,0.429665842895536,0.438397179103679,0.170020473907391,0.105030925370194,0.508611788039832,0.498531243513352,0.124865908594952,0.0950714588279644,0,0.306149543746875,0.335334952660016,0.277718933625524,0.0354470656487682,0.129239737494397,0.101207837822692,0,0.0896964873768703,0,0,0,0,0,0.0434877098916977,0.213525904512698,0.104094974270439,0,0.0551014608363205,0.0333929694362378,0,0.546587148837803,0.172954967691167,0.359360585787115,0.814836430503769,0.786276341439414,0.390322259497761,0.0514985917256918,0.0209679878844212,0,0,0,0,0.0385803330753519,0,0,0.856314656163621,0.800643271104138,0.502450721050023,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.303045967123761,0,0,0,0,0,0,0.0373973902764027,0,0,0,0,0,0,0,0,0,0,0.181236227563129,0.0175990736327917,0,0,0,0,0,0,0.047967174931957,0,0,0,0.0433296451889376,0,0,0,0,0,0.194684687714819,0.474627586445776,0.217136905765902,0,0,0,0,0,0,0,0.0210591418683525,0.096497738357694,0,0,0,0,0,0.0304819657131131,0,0,0.0388988969149198,0,0,0,0,0,0.0532734549622995,0,0,0,0.115506975370087,0.139890444252295,0.195436618912525,0,0,0,0,0,0,0,0,0,0,0,0.0169266687412288,0,0,0.0273460503695069,0,0.021268976479071,0,0,0,0,0,0,0,0,0.059460048139509,0,0,0,0,0,0,0.0528475443201592,0,0,0,0,0,0,0.0266298923127834,0,0,0.0482367431913278,0,0,0,0,0,0,0,0,0.0326283328848338,0.0595622930959812,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0659019793256198,0.00454228920164013,0.0293361777120366,0,0.214611175180145,0,0,0,0,0,0.04666668282863,0,0,0,0,0.0756156309604739,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.035450992781488,0,0,0.057716207064756,0,0,0,0,0.0164856588978665,0.0127170276859676,0,0,0,0,0.104046486402113,0,0,0,0.027821827298607,0,0.322868857438944,0.388679759833789,0.350158769047897,0,0,0,0,0,0,0.0153964725958214,0,0,0.0529304404135566,0,0,0,0,0,0,0,0,0,0.0433069931089932,0,0,0.206653659181725,0,0.0212308449966822,0,0.0715236385554987,0.112006449694472,0.161527300776181,0.135841920889656,0.205691101905468,0.174600143699057,0.162218816489202,0.127175124904042,0.197906332095909,0.311448843013874,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0134759471663239,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0278279104299399,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000988!5.55e-20!32;CL:0002032!5.55e-20!32;CL:0000037!5.55e-20!32;CL:0000566!5.55e-20!32;CL:0000837!5.55e-20!32;CL:0002031!2.26e-15!25;CL:0000838!9.12e-14!12;CL:0002320!2.49e-13!46;CL:0000134!2.49e-13!46;CL:0002242!6.59e-13!16;CL:0000084!1.52e-12!11;CL:0000827!1.52e-12!11;CL:0000542!2.19e-12!13;CL:0000051!2.19e-12!13;CL:0000791!4.68e-11!9;CL:0000789!4.68e-11!9;CL:0002420!4.68e-11!9;CL:0002419!4.68e-11!9;CL:0000790!4.68e-11!9;CL:0000219!8.26e-11!54;CL:0000738!3.29e-10!17;CL:0002087!3.29e-10!17;CL:0000624!6.41e-10!8;CL:0000049!3.39e-09!19;CL:0000034!1.28e-07!97;CL:0000893!1.46e-07!6;CL:0002489!1.46e-07!6;CL:0000898!1.46e-07!6;CL:0000809!1.46e-07!6;CL:0000810!1.46e-07!6;CL:0000895!1.46e-07!6;CL:0000808!1.46e-07!6;CL:0000894!1.46e-07!6;CL:0000806!1.46e-07!6;CL:0000807!1.46e-07!6;CL:0000805!1.46e-07!6;CL:0002425!1.46e-07!6;CL:0002436!1.46e-07!6;CL:0002427!1.46e-07!6;CL:0002428!1.46e-07!6;CL:0002429!1.46e-07!6;CL:0002433!1.46e-07!6;CL:0002431!1.46e-07!6;CL:0002432!1.46e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!1.18e-14!48;UBERON:0002405!1.18e-14!48;UBERON:0002390!9.67e-14!45;UBERON:0003061!9.67e-14!45;UBERON:0002384!2.49e-13!46;UBERON:0002370!3.32e-12!23;UBERON:0000974!3.32e-12!23;UBERON:0004807!3.32e-12!23;UBERON:0005058!3.32e-12!23;UBERON:0003351!3.32e-12!23;UBERON:0009113!3.32e-12!23;UBERON:0003295!3.32e-12!23;UBERON:0009722!3.32e-12!23;UBERON:0005562!3.32e-12!23;UBERON:0007690!3.32e-12!23;UBERON:0006562!1.89e-11!24;UBERON:0003408!1.89e-11!24;UBERON:0001557!1.89e-11!24;UBERON:0001042!1.89e-11!24;UBERON:0008814!1.89e-11!24;UBERON:0009145!1.89e-11!24;UBERON:0004177!1.18e-10!29;UBERON:0005057!1.18e-10!29;UBERON:0000072!1.54e-09!27;UBERON:0000077!6.42e-09!35;UBERON:0003081!1.24e-08!87;UBERON:0000490!2.32e-07!66;UBERON:0007811!2.64e-07!36
}}
}}

Revision as of 21:22, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:61968605..61968608,+p@chr10:61968605..61968608
+
Mm9::chr17:34974117..34974137,+p4@Dom3z
Mm9::chr3:105694950..105694970,+p@chr3:105694950..105694970
+
Mm9::chr4:33334901..33334974,+p@chr4:33334901..33334974
+
Mm9::chr6:38483640..38483669,-p@chr6:38483640..38483669
-
Mm9::chr7:29166278..29166300,+p@chr7:29166278..29166300
+
Mm9::chr8:108582687..108582734,+p4@Nfatc3
Mm9::chr8:108583128..108583147,-p@chr8:108583128..108583147
-


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 cell5.55e-2032
hematopoietic oligopotent progenitor cell5.55e-2032
hematopoietic stem cell5.55e-2032
angioblastic mesenchymal cell5.55e-2032
hematopoietic multipotent progenitor cell5.55e-2032
hematopoietic lineage restricted progenitor cell2.26e-1525
lymphoid lineage restricted progenitor cell9.12e-1412
connective tissue cell2.49e-1346
mesenchymal cell2.49e-1346
nucleate cell6.59e-1316
T cell1.52e-1211
pro-T cell1.52e-1211
lymphocyte2.19e-1213
common lymphoid progenitor2.19e-1213
mature alpha-beta T cell4.68e-119
alpha-beta T cell4.68e-119
immature T cell4.68e-119
mature T cell4.68e-119
immature alpha-beta T cell4.68e-119
motile cell8.26e-1154
leukocyte3.29e-1017
nongranular leukocyte3.29e-1017
CD4-positive, alpha-beta T cell6.41e-108
common myeloid progenitor3.39e-0919
stem cell1.28e-0797
thymocyte1.46e-076
double negative thymocyte1.46e-076
naive T cell1.46e-076
double-positive, alpha-beta thymocyte1.46e-076
CD4-positive, alpha-beta thymocyte1.46e-076
naive thymus-derived CD4-positive, alpha-beta T cell1.46e-076
DN4 thymocyte1.46e-076
DN1 thymic pro-T cell1.46e-076
DN2 thymocyte1.46e-076
DN3 thymocyte1.46e-076
immature single positive thymocyte1.46e-076
early T lineage precursor1.46e-076
mature CD4 single-positive thymocyte1.46e-076
resting double-positive thymocyte1.46e-076
double-positive blast1.46e-076
CD69-positive double-positive thymocyte1.46e-076
CD69-positive, CD4-positive single-positive thymocyte1.46e-076
CD4-positive, CD8-intermediate double-positive thymocyte1.46e-076
CD24-positive, CD4 single-positive thymocyte1.46e-076

Uber Anatomy
Ontology termp-valuen
hemolymphoid system1.18e-1448
immune system1.18e-1448
hematopoietic system9.67e-1445
blood island9.67e-1445
connective tissue2.49e-1346
thymus3.32e-1223
neck3.32e-1223
respiratory system epithelium3.32e-1223
hemolymphoid system gland3.32e-1223
pharyngeal epithelium3.32e-1223
thymic region3.32e-1223
pharyngeal gland3.32e-1223
entire pharyngeal arch endoderm3.32e-1223
thymus primordium3.32e-1223
early pharyngeal endoderm3.32e-1223
pharynx1.89e-1124
gland of gut1.89e-1124
upper respiratory tract1.89e-1124
chordate pharynx1.89e-1124
pharyngeal arch system1.89e-1124
pharyngeal region of foregut1.89e-1124
hemopoietic organ1.18e-1029
immune organ1.18e-1029
segment of respiratory tract1.54e-0927
mixed endoderm/mesoderm-derived structure6.42e-0935
lateral plate mesoderm1.24e-0887
unilaminar epithelium2.32e-0766
craniocervical region2.64e-0736


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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