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MCL coexpression mm9:279: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.0997657817140535,0.107744855247029,0.60668642959874,0.230409428739771,0.756204388269587,0,0.0699790221274244,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0002423;natural killer cell mediated immune response to tumor cell;0.00814477985354006;54698!GO:0002855;regulation of natural killer cell mediated immune response to tumor cell;0.00814477985354006;54698!GO:0002420;natural killer cell mediated cytotoxicity directed against tumor cell target;0.00814477985354006;54698!GO:0002858;regulation of natural killer cell mediated cytotoxicity directed against tumor cell target;0.00814477985354006;54698!GO:0002860;positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target;0.00814477985354006;54698!GO:0002715;regulation of natural killer cell mediated immunity;0.00814477985354006;54698!GO:0002857;positive regulation of natural killer cell mediated immune response to tumor cell;0.00814477985354006;54698!GO:0002717;positive regulation of natural killer cell mediated immunity;0.00814477985354006;54698!GO:0002355;detection of tumor cell;0.00814477985354006;54698!GO:0050715;positive regulation of cytokine secretion;0.0146585956545542;54698!GO:0001938;positive regulation of endothelial cell proliferation;0.0166506513288289;18591!GO:0050714;positive regulation of protein secretion;0.0166506513288289;54698!GO:0002831;regulation of response to biotic stimulus;0.0166506513288289;54698!GO:0002833;positive regulation of response to biotic stimulus;0.0166506513288289;54698!GO:0050707;regulation of cytokine secretion;0.0166506513288289;54698!GO:0002836;positive regulation of response to tumor cell;0.0166506513288289;54698!GO:0006929;substrate-bound cell migration;0.0166506513288289;18591!GO:0002837;regulation of immune response to tumor cell;0.0166506513288289;54698!GO:0002839;positive regulation of immune response to tumor cell;0.0166506513288289;54698!GO:0009595;detection of biotic stimulus;0.0166506513288289;54698!GO:0002834;regulation of response to tumor cell;0.0166506513288289;54698!GO:0002418;immune response to tumor cell;0.0166506513288289;54698!GO:0050663;cytokine secretion;0.0183132078261792;54698!GO:0001936;regulation of endothelial cell proliferation;0.0183132078261792;18591!GO:0002347;response to tumor cell;0.0205079835040852;54698!GO:0048584;positive regulation of response to stimulus;0.0216985975167826;54698!GO:0001935;endothelial cell proliferation;0.0216985975167826;18591!GO:0045954;positive regulation of natural killer cell mediated cytotoxicity;0.0235358795813573;54698!GO:0051047;positive regulation of secretion;0.0252457613094039;54698!GO:0042269;regulation of natural killer cell mediated cytotoxicity;0.0281394563026229;54698!GO:0001912;positive regulation of leukocyte mediated cytotoxicity;0.0281394563026229;54698!GO:0050708;regulation of protein secretion;0.0281394563026229;54698!GO:0030336;negative regulation of cell migration;0.0281394563026229;18591!GO:0042267;natural killer cell mediated cytotoxicity;0.0281394563026229;54698!GO:0002705;positive regulation of leukocyte mediated immunity;0.0281394563026229;54698!GO:0001910;regulation of leukocyte mediated cytotoxicity;0.0281394563026229;54698!GO:0031341;regulation of cell killing;0.0281394563026229;54698!GO:0002708;positive regulation of lymphocyte mediated immunity;0.0281394563026229;54698!GO:0002228;natural killer cell mediated immunity;0.0281394563026229;54698!GO:0051726;regulation of cell cycle;0.0285473430241701;18591,19651!GO:0002699;positive regulation of immune effector process;0.0285473430241701;54698!GO:0002703;regulation of leukocyte mediated immunity;0.0289168213325829;54698!GO:0002706;regulation of lymphocyte mediated immunity;0.0289168213325829;54698!GO:0051271;negative regulation of cell motility;0.0299178536391535;18591!GO:0002697;regulation of immune effector process;0.0302027781922934;54698!GO:0040013;negative regulation of locomotion;0.0302027781922934;18591!GO:0001906;cell killing;0.0334445161223881;54698!GO:0001909;leukocyte mediated cytotoxicity;0.0334445161223881;54698!GO:0005667;transcription factor complex;0.0334445161223881;15273,19651!GO:0050794;regulation of cellular process;0.0429484951555107;18591,15273,19651,54698!GO:0009306;protein secretion;0.0429484951555107;54698!GO:0050730;regulation of peptidyl-tyrosine phosphorylation;0.047554009947169;18591!GO:0044451;nucleoplasm part;0.047554009947169;15273,19651!
|gostat_on_MCL_coexpression=GO:0002423;natural killer cell mediated immune response to tumor cell;0.00814477985354006;54698!GO:0002855;regulation of natural killer cell mediated immune response to tumor cell;0.00814477985354006;54698!GO:0002420;natural killer cell mediated cytotoxicity directed against tumor cell target;0.00814477985354006;54698!GO:0002858;regulation of natural killer cell mediated cytotoxicity directed against tumor cell target;0.00814477985354006;54698!GO:0002860;positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target;0.00814477985354006;54698!GO:0002715;regulation of natural killer cell mediated immunity;0.00814477985354006;54698!GO:0002857;positive regulation of natural killer cell mediated immune response to tumor cell;0.00814477985354006;54698!GO:0002717;positive regulation of natural killer cell mediated immunity;0.00814477985354006;54698!GO:0002355;detection of tumor cell;0.00814477985354006;54698!GO:0050715;positive regulation of cytokine secretion;0.0146585956545542;54698!GO:0001938;positive regulation of endothelial cell proliferation;0.0166506513288289;18591!GO:0050714;positive regulation of protein secretion;0.0166506513288289;54698!GO:0002831;regulation of response to biotic stimulus;0.0166506513288289;54698!GO:0002833;positive regulation of response to biotic stimulus;0.0166506513288289;54698!GO:0050707;regulation of cytokine secretion;0.0166506513288289;54698!GO:0002836;positive regulation of response to tumor cell;0.0166506513288289;54698!GO:0006929;substrate-bound cell migration;0.0166506513288289;18591!GO:0002837;regulation of immune response to tumor cell;0.0166506513288289;54698!GO:0002839;positive regulation of immune response to tumor cell;0.0166506513288289;54698!GO:0009595;detection of biotic stimulus;0.0166506513288289;54698!GO:0002834;regulation of response to tumor cell;0.0166506513288289;54698!GO:0002418;immune response to tumor cell;0.0166506513288289;54698!GO:0050663;cytokine secretion;0.0183132078261792;54698!GO:0001936;regulation of endothelial cell proliferation;0.0183132078261792;18591!GO:0002347;response to tumor cell;0.0205079835040852;54698!GO:0048584;positive regulation of response to stimulus;0.0216985975167826;54698!GO:0001935;endothelial cell proliferation;0.0216985975167826;18591!GO:0045954;positive regulation of natural killer cell mediated cytotoxicity;0.0235358795813573;54698!GO:0051047;positive regulation of secretion;0.0252457613094039;54698!GO:0042269;regulation of natural killer cell mediated cytotoxicity;0.0281394563026229;54698!GO:0001912;positive regulation of leukocyte mediated cytotoxicity;0.0281394563026229;54698!GO:0050708;regulation of protein secretion;0.0281394563026229;54698!GO:0030336;negative regulation of cell migration;0.0281394563026229;18591!GO:0042267;natural killer cell mediated cytotoxicity;0.0281394563026229;54698!GO:0002705;positive regulation of leukocyte mediated immunity;0.0281394563026229;54698!GO:0001910;regulation of leukocyte mediated cytotoxicity;0.0281394563026229;54698!GO:0031341;regulation of cell killing;0.0281394563026229;54698!GO:0002708;positive regulation of lymphocyte mediated immunity;0.0281394563026229;54698!GO:0002228;natural killer cell mediated immunity;0.0281394563026229;54698!GO:0051726;regulation of cell cycle;0.0285473430241701;18591,19651!GO:0002699;positive regulation of immune effector process;0.0285473430241701;54698!GO:0002703;regulation of leukocyte mediated immunity;0.0289168213325829;54698!GO:0002706;regulation of lymphocyte mediated immunity;0.0289168213325829;54698!GO:0051271;negative regulation of cell motility;0.0299178536391535;18591!GO:0002697;regulation of immune effector process;0.0302027781922934;54698!GO:0040013;negative regulation of locomotion;0.0302027781922934;18591!GO:0001906;cell killing;0.0334445161223881;54698!GO:0001909;leukocyte mediated cytotoxicity;0.0334445161223881;54698!GO:0005667;transcription factor complex;0.0334445161223881;15273,19651!GO:0050794;regulation of cellular process;0.0429484951555107;18591,15273,19651,54698!GO:0009306;protein secretion;0.0429484951555107;54698!GO:0050730;regulation of peptidyl-tyrosine phosphorylation;0.047554009947169;18591!GO:0044451;nucleoplasm part;0.047554009947169;15273,19651!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:13686783..13686814,+p4@Hivep2
Mm9::chr10:13686815..13686846,+p3@Hivep2
Mm9::chr10:13807669..13807675,+p@chr10:13807669..13807675
+
Mm9::chr11:88364665..88364678,-p@chr11:88364665..88364678
-
Mm9::chr11:88366091..88366101,-p@chr11:88366091..88366101
-
Mm9::chr13:30842959..30842965,+p@chr13:30842959..30842965
+
Mm9::chr13:43366661..43366665,-p@chr13:43366661..43366665
-
Mm9::chr14:27579358..27579388,+p@chr14:27579358..27579388
+
Mm9::chr14:27579510..27579518,+p@chr14:27579510..27579518
+
Mm9::chr14:27579628..27579642,+p@chr14:27579628..27579642
+
Mm9::chr14:54795649..54795657,+p@chr14:54795649..54795657
+
Mm9::chr14:54795883..54795894,+p@chr14:54795883..54795894
+
Mm9::chr14:54795902..54795911,+p2@ENSMUST00000103701
Mm9::chr14:54795928..54795931,+p3@ENSMUST00000103701
Mm9::chr14:54795946..54795960,+p1@ENSMUST00000103701
Mm9::chr14:54799322..54799335,+p@chr14:54799322..54799335
+
Mm9::chr14:54799387..54799397,+p@chr14:54799387..54799397
+
Mm9::chr14:54855771..54855805,-p@chr14:54855771..54855805
-
Mm9::chr15:79844708..79844720,-p@chr15:79844708..79844720
-
Mm9::chr16:70006723..70006755,-p1@uc007zqs.1
Mm9::chr16:84712094..84712105,+p@chr16:84712094..84712105
+
Mm9::chr17:24795451..24795461,-p2@Npw
Mm9::chr17:24795484..24795502,-p1@Npw
Mm9::chr2:128948620..128948622,+p@chr2:128948620..128948622
+
Mm9::chr4:32837666..32837670,+p3@Mdn1
Mm9::chr5:123365044..123365050,-p@chr5:123365044..123365050
-
Mm9::chr8:32278288..32278296,-p@chr8:32278288..32278296
-
Mm9::chr8:93635970..93635989,+p7@Rbl2
Mm9::chr9:40812682..40812715,-p1@Crtam
Mm9::chr9:40812778..40812797,-p5@Crtam


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:0002423natural killer cell mediated immune response to tumor cell0.00814477985354006
GO:0002855regulation of natural killer cell mediated immune response to tumor cell0.00814477985354006
GO:0002420natural killer cell mediated cytotoxicity directed against tumor cell target0.00814477985354006
GO:0002858regulation of natural killer cell mediated cytotoxicity directed against tumor cell target0.00814477985354006
GO:0002860positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target0.00814477985354006
GO:0002715regulation of natural killer cell mediated immunity0.00814477985354006
GO:0002857positive regulation of natural killer cell mediated immune response to tumor cell0.00814477985354006
GO:0002717positive regulation of natural killer cell mediated immunity0.00814477985354006
GO:0002355detection of tumor cell0.00814477985354006
GO:0050715positive regulation of cytokine secretion0.0146585956545542
GO:0001938positive regulation of endothelial cell proliferation0.0166506513288289
GO:0050714positive regulation of protein secretion0.0166506513288289
GO:0002831regulation of response to biotic stimulus0.0166506513288289
GO:0002833positive regulation of response to biotic stimulus0.0166506513288289
GO:0050707regulation of cytokine secretion0.0166506513288289
GO:0002836positive regulation of response to tumor cell0.0166506513288289
GO:0006929substrate-bound cell migration0.0166506513288289
GO:0002837regulation of immune response to tumor cell0.0166506513288289
GO:0002839positive regulation of immune response to tumor cell0.0166506513288289
GO:0009595detection of biotic stimulus0.0166506513288289
GO:0002834regulation of response to tumor cell0.0166506513288289
GO:0002418immune response to tumor cell0.0166506513288289
GO:0050663cytokine secretion0.0183132078261792
GO:0001936regulation of endothelial cell proliferation0.0183132078261792
GO:0002347response to tumor cell0.0205079835040852
GO:0048584positive regulation of response to stimulus0.0216985975167826
GO:0001935endothelial cell proliferation0.0216985975167826
GO:0045954positive regulation of natural killer cell mediated cytotoxicity0.0235358795813573
GO:0051047positive regulation of secretion0.0252457613094039
GO:0042269regulation of natural killer cell mediated cytotoxicity0.0281394563026229
GO:0001912positive regulation of leukocyte mediated cytotoxicity0.0281394563026229
GO:0050708regulation of protein secretion0.0281394563026229
GO:0030336negative regulation of cell migration0.0281394563026229
GO:0042267natural killer cell mediated cytotoxicity0.0281394563026229
GO:0002705positive regulation of leukocyte mediated immunity0.0281394563026229
GO:0001910regulation of leukocyte mediated cytotoxicity0.0281394563026229
GO:0031341regulation of cell killing0.0281394563026229
GO:0002708positive regulation of lymphocyte mediated immunity0.0281394563026229
GO:0002228natural killer cell mediated immunity0.0281394563026229
GO:0051726regulation of cell cycle0.0285473430241701
GO:0002699positive regulation of immune effector process0.0285473430241701
GO:0002703regulation of leukocyte mediated immunity0.0289168213325829
GO:0002706regulation of lymphocyte mediated immunity0.0289168213325829
GO:0051271negative regulation of cell motility0.0299178536391535
GO:0002697regulation of immune effector process0.0302027781922934
GO:0040013negative regulation of locomotion0.0302027781922934
GO:0001906cell killing0.0334445161223881
GO:0001909leukocyte mediated cytotoxicity0.0334445161223881
GO:0005667transcription factor complex0.0334445161223881
GO:0050794regulation of cellular process0.0429484951555107
GO:0009306protein secretion0.0429484951555107
GO:0050730regulation of peptidyl-tyrosine phosphorylation0.047554009947169
GO:0044451nucleoplasm part0.047554009947169



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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