Personal tools

MCL coexpression mm9:476: 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=0,0,0,0,0,0,0,0.0997657817140535,0.231455218399161,0.166764232955903,0.0686377264886741,0,0.948179791563286,0.559021830097882,0.124865908594952,0.0800761525331175,0,0.411166798147301,0.444433243357485,0.153628809860867,0.0354470656487682,0.0411126530948397,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0673620022139481,0.665281732208036,0.93483665064122,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.107511441879825,0,0,0,0,0,0,0,0,0,0,0.0863405096497252,1.08401576574979,0.0601091194109999,0,0,0,0,0,0,0,0.0586534975690397,0.0778869048122529,0,0,0,0,0,0,0,0.0491463288895459,0,0,0,0,0,0,0,0,0,0,0.0509235292940968,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0597943799295356,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.191523550257637,0,0,0,0,0,0,0,0.00920161657401317,0,0.0104016157492941,0.123108665731713,0.181287491017976,0.0586723554240733,0,0,0,0.10582914506561,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0.119268019631849,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.232310181346786,0,0,0.0749511157581746,0.189427680629844,0.226943730202278,0,0,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.584794686509832,0,0.038116115395282,0.0719396956692321,0.0926622775547719,0.145309149361067,0.318430460435056,0.275573272170449,0.32441230216702,0.246022680668599,0.231923857225665,0.497492673035081,0.51970781788685,0.606252289168547,0,0,0,0,0,0.0286045598135856,0.0730404042754446,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.0997657817140535,0.231455218399161,0.166764232955903,0.0686377264886741,0,0.948179791563286,0.559021830097882,0.124865908594952,0.0800761525331175,0,0.411166798147301,0.444433243357485,0.153628809860867,0.0354470656487682,0.0411126530948397,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0673620022139481,0.665281732208036,0.93483665064122,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.107511441879825,0,0,0,0,0,0,0,0,0,0,0.0863405096497252,1.08401576574979,0.0601091194109999,0,0,0,0,0,0,0,0.0586534975690397,0.0778869048122529,0,0,0,0,0,0,0,0.0491463288895459,0,0,0,0,0,0,0,0,0,0,0.0509235292940968,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0597943799295356,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.191523550257637,0,0,0,0,0,0,0,0.00920161657401317,0,0.0104016157492941,0.123108665731713,0.181287491017976,0.0586723554240733,0,0,0,0.10582914506561,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0.119268019631849,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.232310181346786,0,0,0.0749511157581746,0.189427680629844,0.226943730202278,0,0,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.584794686509832,0,0.038116115395282,0.0719396956692321,0.0926622775547719,0.145309149361067,0.318430460435056,0.275573272170449,0.32441230216702,0.246022680668599,0.231923857225665,0.497492673035081,0.51970781788685,0.606252289168547,0,0,0,0,0,0.0286045598135856,0.0730404042754446,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000838!1.59e-13!12;CL:0002031!4.72e-13!25;CL:0000791!1.16e-12!9;CL:0000789!1.16e-12!9;CL:0002420!1.16e-12!9;CL:0002419!1.16e-12!9;CL:0000790!1.16e-12!9;CL:0000084!2.61e-12!11;CL:0000827!2.61e-12!11;CL:0000542!2.65e-12!13;CL:0000051!2.65e-12!13;CL:0000624!7.08e-11!8;CL:0000988!1.22e-10!32;CL:0002032!1.22e-10!32;CL:0000037!1.22e-10!32;CL:0000566!1.22e-10!32;CL:0000837!1.22e-10!32;CL:0002242!1.46e-09!16;CL:0000738!7.24e-09!17;CL:0002087!7.24e-09!17;CL:0000893!8.66e-08!6;CL:0002489!8.66e-08!6;CL:0000898!8.66e-08!6;CL:0000809!8.66e-08!6;CL:0000810!8.66e-08!6;CL:0000895!8.66e-08!6;CL:0000808!8.66e-08!6;CL:0000894!8.66e-08!6;CL:0000806!8.66e-08!6;CL:0000807!8.66e-08!6;CL:0000805!8.66e-08!6;CL:0002425!8.66e-08!6;CL:0002436!8.66e-08!6;CL:0002427!8.66e-08!6;CL:0002428!8.66e-08!6;CL:0002429!8.66e-08!6;CL:0002433!8.66e-08!6;CL:0002431!8.66e-08!6;CL:0002432!8.66e-08!6;CL:0000553!1.46e-07!6;CL:0000556!1.46e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!4.44e-26!29;UBERON:0005057!4.44e-26!29;UBERON:0002193!6.89e-24!48;UBERON:0002405!6.89e-24!48;UBERON:0002390!1.09e-23!45;UBERON:0003061!1.09e-23!45;UBERON:0002370!1.95e-22!23;UBERON:0000974!1.95e-22!23;UBERON:0004807!1.95e-22!23;UBERON:0005058!1.95e-22!23;UBERON:0003351!1.95e-22!23;UBERON:0009113!1.95e-22!23;UBERON:0003295!1.95e-22!23;UBERON:0009722!1.95e-22!23;UBERON:0005562!1.95e-22!23;UBERON:0007690!1.95e-22!23;UBERON:0006562!2.76e-21!24;UBERON:0003408!2.76e-21!24;UBERON:0001557!2.76e-21!24;UBERON:0001042!2.76e-21!24;UBERON:0008814!2.76e-21!24;UBERON:0009145!2.76e-21!24;UBERON:0000077!1.61e-20!35;UBERON:0000065!1.63e-19!41;UBERON:0001004!6.84e-19!42;UBERON:0000072!2.38e-18!27;UBERON:0000063!5.23e-13!35;UBERON:0007811!1.64e-12!36;UBERON:0003081!2.39e-11!87;UBERON:0001041!1.23e-10!80;UBERON:0000153!1.08e-09!43;UBERON:0005911!5.39e-09!69;UBERON:0000926!8.03e-09!120;UBERON:0004120!8.03e-09!120;UBERON:0006603!8.03e-09!120
}}
}}

Revision as of 20:45, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126758963..126758968,+p9@Arhgap9
Mm9::chr11:113034292..113034355,-p2@2610035D17Rik
Mm9::chr11:52113309..52113321,+p@chr11:52113309..52113321
+
Mm9::chr16:58523871..58523923,-p7@St3gal6
Mm9::chr18:56591573..56591588,-p@chr18:56591573..56591588
-
Mm9::chr18:89375492..89375498,+p@chr18:89375492..89375498
+
Mm9::chr6:136412190..136412214,+p@chr6:136412190..136412214
+
Mm9::chr6:99326015..99326030,-p@chr6:99326015..99326030
-
Mm9::chr6:99326038..99326059,-p@chr6:99326038..99326059
-
Mm9::chr7:31940697..31940708,+p@chr7:31940697..31940708
+
Mm9::chr8:89210633..89210646,-p@chr8:89210633..89210646
-
Mm9::chr8:89210648..89210662,-p@chr8:89210648..89210662
-
Mm9::chr9:22459548..22459572,+p@chr9:22459548..22459572
+
Mm9::chr9:22459577..22459586,+p@chr9:22459577..22459586
+
Mm9::chrX:56842460..56842471,+p@chrX:56842460..56842471
+


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
lymphoid lineage restricted progenitor cell1.59e-1312
hematopoietic lineage restricted progenitor cell4.72e-1325
mature alpha-beta T cell1.16e-129
alpha-beta T cell1.16e-129
immature T cell1.16e-129
mature T cell1.16e-129
immature alpha-beta T cell1.16e-129
T cell2.61e-1211
pro-T cell2.61e-1211
lymphocyte2.65e-1213
common lymphoid progenitor2.65e-1213
CD4-positive, alpha-beta T cell7.08e-118
hematopoietic cell1.22e-1032
hematopoietic oligopotent progenitor cell1.22e-1032
hematopoietic stem cell1.22e-1032
angioblastic mesenchymal cell1.22e-1032
hematopoietic multipotent progenitor cell1.22e-1032
nucleate cell1.46e-0916
leukocyte7.24e-0917
nongranular leukocyte7.24e-0917
thymocyte8.66e-086
double negative thymocyte8.66e-086
naive T cell8.66e-086
double-positive, alpha-beta thymocyte8.66e-086
CD4-positive, alpha-beta thymocyte8.66e-086
naive thymus-derived CD4-positive, alpha-beta T cell8.66e-086
DN4 thymocyte8.66e-086
DN1 thymic pro-T cell8.66e-086
DN2 thymocyte8.66e-086
DN3 thymocyte8.66e-086
immature single positive thymocyte8.66e-086
early T lineage precursor8.66e-086
mature CD4 single-positive thymocyte8.66e-086
resting double-positive thymocyte8.66e-086
double-positive blast8.66e-086
CD69-positive double-positive thymocyte8.66e-086
CD69-positive, CD4-positive single-positive thymocyte8.66e-086
CD4-positive, CD8-intermediate double-positive thymocyte8.66e-086
CD24-positive, CD4 single-positive thymocyte8.66e-086
megakaryocyte progenitor cell1.46e-076
megakaryocyte1.46e-076

Uber Anatomy
Ontology termp-valuen
hemopoietic organ4.44e-2629
immune organ4.44e-2629
hemolymphoid system6.89e-2448
immune system6.89e-2448
hematopoietic system1.09e-2345
blood island1.09e-2345
thymus1.95e-2223
neck1.95e-2223
respiratory system epithelium1.95e-2223
hemolymphoid system gland1.95e-2223
pharyngeal epithelium1.95e-2223
thymic region1.95e-2223
pharyngeal gland1.95e-2223
entire pharyngeal arch endoderm1.95e-2223
thymus primordium1.95e-2223
early pharyngeal endoderm1.95e-2223
pharynx2.76e-2124
gland of gut2.76e-2124
upper respiratory tract2.76e-2124
chordate pharynx2.76e-2124
pharyngeal arch system2.76e-2124
pharyngeal region of foregut2.76e-2124
mixed endoderm/mesoderm-derived structure1.61e-2035
respiratory tract1.63e-1941
respiratory system6.84e-1942
segment of respiratory tract2.38e-1827
organ segment5.23e-1335
craniocervical region1.64e-1236
lateral plate mesoderm2.39e-1187
foregut1.23e-1080
anterior region of body1.08e-0943
endo-epithelium5.39e-0969
mesoderm8.03e-09120
mesoderm-derived structure8.03e-09120
presumptive mesoderm8.03e-09120


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}}}

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:476&oldid=2156253"