Personal tools

MCL coexpression mm9:1468: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000077!3.09e-15!35;UBERON:0002370!7.48e-13!23;UBERON:0000974!7.48e-13!23;UBERON:0004807!7.48e-13!23;UBERON:0005058!7.48e-13!23;UBERON:0003351!7.48e-13!23;UBERON:0009113!7.48e-13!23;UBERON:0003295!7.48e-13!23;UBERON:0009722!7.48e-13!23;UBERON:0005562!7.48e-13!23;UBERON:0007690!7.48e-13!23;UBERON:0000072!1.12e-12!27;UBERON:0002193!1.45e-12!48;UBERON:0002405!1.45e-12!48;UBERON:0004177!2.16e-12!29;UBERON:0005057!2.16e-12!29;UBERON:0000065!2.78e-12!41;UBERON:0006562!4.79e-12!24;UBERON:0003408!4.79e-12!24;UBERON:0001557!4.79e-12!24;UBERON:0001042!4.79e-12!24;UBERON:0008814!4.79e-12!24;UBERON:0009145!4.79e-12!24;UBERON:0002390!8.66e-12!45;UBERON:0003061!8.66e-12!45;UBERON:0001004!8.91e-12!42;UBERON:0007811!2.68e-09!36;UBERON:0000063!3.18e-08!35;UBERON:0002384!5.54e-08!46
|ontology_enrichment_uberon=UBERON:0000077!3.09e-15!35;UBERON:0002370!7.48e-13!23;UBERON:0000974!7.48e-13!23;UBERON:0004807!7.48e-13!23;UBERON:0005058!7.48e-13!23;UBERON:0003351!7.48e-13!23;UBERON:0009113!7.48e-13!23;UBERON:0003295!7.48e-13!23;UBERON:0009722!7.48e-13!23;UBERON:0005562!7.48e-13!23;UBERON:0007690!7.48e-13!23;UBERON:0000072!1.12e-12!27;UBERON:0002193!1.45e-12!48;UBERON:0002405!1.45e-12!48;UBERON:0004177!2.16e-12!29;UBERON:0005057!2.16e-12!29;UBERON:0000065!2.78e-12!41;UBERON:0006562!4.79e-12!24;UBERON:0003408!4.79e-12!24;UBERON:0001557!4.79e-12!24;UBERON:0001042!4.79e-12!24;UBERON:0008814!4.79e-12!24;UBERON:0009145!4.79e-12!24;UBERON:0002390!8.66e-12!45;UBERON:0003061!8.66e-12!45;UBERON:0001004!8.91e-12!42;UBERON:0007811!2.68e-09!36;UBERON:0000063!3.18e-08!35;UBERON:0002384!5.54e-08!46
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.217198,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,0.0835344,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.656199,0.143775,1.09054,0.35122,0.657163,0.345236,0.472505,0.686615,0.223823,0.572827,1.02135,0.181062,0.558142,0.960397,0.336199,0.204204,0.364821,0.0363535,0.326478,0.629145,0.820134,0.27383,0.342638,0.56353,0.671603,0.366415,0.161543,0.524258,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.11437,1.156,0.208101,1.08629,0.589776,0.763395,2.12785,0.430551,0.708505,0.874787,1.71704,0.240896,1.03903,0.198949,0.0610418,0.534643,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.244935,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.90315,0.247162,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.106956,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.183562,0.0987301,1.10596,0.783181,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.86867,0.63125,0.0323861
}}
}}

Revision as of 19:57, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr5:144982268..144982276,-p@chr5:144982268..144982276
-
Mm9::chr5:149996530..149996553,-p@chr5:149996530..149996553
-
Mm9::chr8:97050714..97050718,+p@chr8:97050714..97050718
+
Mm9::chr9:13269860..13269869,+p@chr9:13269860..13269869
+
Mm9::chr9:96264718..96264741,-p1@Atp1b3
Mm9::chrX:20723810..20723815,+p1@uc009suo.1


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 cell4.38e-1412
T cell5.00e-1311
pro-T cell5.00e-1311
lymphocyte1.18e-1213
common lymphoid progenitor1.18e-1213
leukocyte2.01e-1217
nongranular leukocyte2.01e-1217
hematopoietic cell2.44e-1232
hematopoietic oligopotent progenitor cell2.44e-1232
hematopoietic stem cell2.44e-1232
angioblastic mesenchymal cell2.44e-1232
hematopoietic multipotent progenitor cell2.44e-1232
mature alpha-beta T cell2.58e-119
alpha-beta T cell2.58e-119
immature T cell2.58e-119
mature T cell2.58e-119
immature alpha-beta T cell2.58e-119
hematopoietic lineage restricted progenitor cell5.54e-1125
CD4-positive, alpha-beta T cell3.45e-108
nucleate cell1.83e-0916
connective tissue cell5.54e-0846
mesenchymal cell5.54e-0846
thymocyte5.64e-086
double negative thymocyte5.64e-086
naive T cell5.64e-086
double-positive, alpha-beta thymocyte5.64e-086
CD4-positive, alpha-beta thymocyte5.64e-086
naive thymus-derived CD4-positive, alpha-beta T cell5.64e-086
DN4 thymocyte5.64e-086
DN1 thymic pro-T cell5.64e-086
DN2 thymocyte5.64e-086
DN3 thymocyte5.64e-086
immature single positive thymocyte5.64e-086
early T lineage precursor5.64e-086
mature CD4 single-positive thymocyte5.64e-086
resting double-positive thymocyte5.64e-086
double-positive blast5.64e-086
CD69-positive double-positive thymocyte5.64e-086
CD69-positive, CD4-positive single-positive thymocyte5.64e-086
CD4-positive, CD8-intermediate double-positive thymocyte5.64e-086
CD24-positive, CD4 single-positive thymocyte5.64e-086
motile cell1.33e-0754

Uber Anatomy
Ontology termp-valuen
mixed endoderm/mesoderm-derived structure3.09e-1535
thymus7.48e-1323
neck7.48e-1323
respiratory system epithelium7.48e-1323
hemolymphoid system gland7.48e-1323
pharyngeal epithelium7.48e-1323
thymic region7.48e-1323
pharyngeal gland7.48e-1323
entire pharyngeal arch endoderm7.48e-1323
thymus primordium7.48e-1323
early pharyngeal endoderm7.48e-1323
segment of respiratory tract1.12e-1227
hemolymphoid system1.45e-1248
immune system1.45e-1248
hemopoietic organ2.16e-1229
immune organ2.16e-1229
respiratory tract2.78e-1241
pharynx4.79e-1224
gland of gut4.79e-1224
upper respiratory tract4.79e-1224
chordate pharynx4.79e-1224
pharyngeal arch system4.79e-1224
pharyngeal region of foregut4.79e-1224
hematopoietic system8.66e-1245
blood island8.66e-1245
respiratory system8.91e-1242
craniocervical region2.68e-0936
organ segment3.18e-0835
connective tissue5.54e-0846


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_mm9:1468&oldid=2562688"