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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!5.52e-17!46;UBERON:0002370!3.66e-14!23;UBERON:0000974!3.66e-14!23;UBERON:0004807!3.66e-14!23;UBERON:0005058!3.66e-14!23;UBERON:0003351!3.66e-14!23;UBERON:0009113!3.66e-14!23;UBERON:0003295!3.66e-14!23;UBERON:0009722!3.66e-14!23;UBERON:0005562!3.66e-14!23;UBERON:0007690!3.66e-14!23;UBERON:0006562!1.49e-13!24;UBERON:0003408!1.49e-13!24;UBERON:0001557!1.49e-13!24;UBERON:0001042!1.49e-13!24;UBERON:0008814!1.49e-13!24;UBERON:0009145!1.49e-13!24;UBERON:0002193!3.84e-13!48;UBERON:0002405!3.84e-13!48;UBERON:0000072!5.40e-12!27;UBERON:0002390!2.19e-11!45;UBERON:0003061!2.19e-11!45;UBERON:0004177!3.92e-11!29;UBERON:0005057!3.92e-11!29;UBERON:0000077!3.91e-09!35;UBERON:0000063!3.91e-09!35;UBERON:0007811!7.26e-09!36;UBERON:0000065!1.02e-07!41;UBERON:0001004!1.61e-07!42;UBERON:0000153!2.48e-07!43
|ontology_enrichment_uberon=UBERON:0002384!5.52e-17!46;UBERON:0002370!3.66e-14!23;UBERON:0000974!3.66e-14!23;UBERON:0004807!3.66e-14!23;UBERON:0005058!3.66e-14!23;UBERON:0003351!3.66e-14!23;UBERON:0009113!3.66e-14!23;UBERON:0003295!3.66e-14!23;UBERON:0009722!3.66e-14!23;UBERON:0005562!3.66e-14!23;UBERON:0007690!3.66e-14!23;UBERON:0006562!1.49e-13!24;UBERON:0003408!1.49e-13!24;UBERON:0001557!1.49e-13!24;UBERON:0001042!1.49e-13!24;UBERON:0008814!1.49e-13!24;UBERON:0009145!1.49e-13!24;UBERON:0002193!3.84e-13!48;UBERON:0002405!3.84e-13!48;UBERON:0000072!5.40e-12!27;UBERON:0002390!2.19e-11!45;UBERON:0003061!2.19e-11!45;UBERON:0004177!3.92e-11!29;UBERON:0005057!3.92e-11!29;UBERON:0000077!3.91e-09!35;UBERON:0000063!3.91e-09!35;UBERON:0007811!7.26e-09!36;UBERON:0000065!1.02e-07!41;UBERON:0001004!1.61e-07!42;UBERON:0000153!2.48e-07!43
|tfbs_overrepresentation_for_novel_motifs=0.317337,0.318152,0.282026,0.376992,0.619074,0.398187,0.538273,0.171073,0.185974,0.705243,0.154519,0.997828,0.569961,0.19087,0.377417,0,0.333505,0.594091,0.512249,0.112549,0.0661203,0.059033,0.190264,0.614199,0.292091,0.209658,0.280346,0.429523,0.198293,0.332722,0.408389,0.416414,0.137902,0.411336,0.166509,0.085061,0.0315753,0.172462,0.263333,0.0838724,0.950664,0.133472,0.189459,0.381604,0.270146,0.360889,0.271716,0.45352,1.18007,0.201733,0.319672,0.228569,1.01744,0.538915,0.554419,0.195691,0.464683,0.166575,0.258637,0.566281,0.39965,0.235329,0.205288,0.310832,0.20328,0.90792,0.678037,1.00855,1.02441,0.867464,0.0740354,0.354986,0.00699494,0.584436,0.116124,0.102175,0.111084,0.263199,0.38541,0.0679477,0.358206,0.347414,0.660928,0.544327,0.48244,0.103202,0.0717289,0.531868,0.275409,1.16606,0.74267,0.486763,0.427209,0.355202,0.104653,0.224705,0.0630984,0.429584,0.271907,0.436104,0.304757,0.416179,0.523506,0.320141,0.31931,0.415447,0.367229,0.877651,0.246199,0.237049,0.636848,0.525078,0.518312,0.927728,0.749248,0.600735,0.0064379,1.25321,0.334542,0.297443,1.43865,0.294572,0.605922,0.726359,0.800032,0.388466,0.188119,0.421488,0.67664,0.361313,0.508573,0.366432,0.649498,0.205008,0.769462,0.516848,0.328991,0.418217,0.723554,1.52843,1.13499,0.682379,0.625834,0.425235,0.31422,0.416785,0.274066,1.4892,0.332285,0.150113,0.189028,0.0172266,0.540306,1.06407,0.204372,0.613593,0.229288,1.0962,0.647931,0.328601,0.732404,0.481698,0.388835,0.0910449,0.311631,0.199302,0.127618,2.24967,0.0680705
}}
}}

Revision as of 18:10, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:13768074..13768075,+p@chr10:13768074..13768075
+
Mm9::chr11:103128707..103128718,-p2@Map3k14
Mm9::chr14:122277963..122277972,+p3@Ubac2
Mm9::chr14:122278717..122278745,-p2@uc007van.1
Mm9::chr14:122278753..122278760,-p8@uc007van.1
Mm9::chr15:44451456..44451458,-p@chr15:44451456..44451458
-
Mm9::chr16:45224642..45224647,-p@chr16:45224642..45224647
-
Mm9::chr17:31927580..31927601,-p@chr17:31927580..31927601
-
Mm9::chr17:35531042..35531044,+p2@H2-Q8
Mm9::chr17:52301956..52301965,-p@chr17:52301956..52301965
-
Mm9::chr19:57552033..57552048,+p@chr19:57552033..57552048
+
Mm9::chr2:11181142..11181148,-p@chr2:11181142..11181148
-
Mm9::chr4:129249619..129249629,-p@chr4:129249619..129249629
-
Mm9::chr4:129250814..129250842,-p3@Lck
Mm9::chr4:129498481..129498506,+p@chr4:129498481..129498506
+
Mm9::chr4:154310249..154310259,+p@chr4:154310249..154310259
+
Mm9::chr4:154311259..154311277,+p@chr4:154311259..154311277
+
Mm9::chr4:154311294..154311308,+p@chr4:154311294..154311308
+
Mm9::chr4:154317073..154317087,+p@chr4:154317073..154317087
+
Mm9::chr4:154318286..154318297,-p@chr4:154318286..154318297
-
Mm9::chr5:105565106..105565127,-p@chr5:105565106..105565127
-
Mm9::chr7:25155103..25155112,+p10@Kcnn4
Mm9::chr8:125074551..125074598,+p@chr8:125074551..125074598
+
Mm9::chr8:86558320..86558323,-p@chr8:86558320..86558323
-
Mm9::chr9:40610449..40610452,+p2@Hspa8


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:0046541saliva secretion0.034478015562577
GO:0050714positive regulation of protein secretion0.034478015562577
GO:0051047positive regulation of secretion0.034478015562577
GO:0007589fluid secretion0.034478015562577
GO:0015269calcium-activated potassium channel activity0.034478015562577
GO:0051085chaperone cofactor-dependent protein folding0.034478015562577
GO:0022600digestive system process0.034478015562577
GO:0022839ion gated channel activity0.034478015562577
GO:0005227calcium activated cation channel activity0.034478015562577
GO:0051084'de novo' posttranslational protein folding0.034478015562577
GO:0050708regulation of protein secretion0.034478015562577
GO:0006458'de novo' protein folding0.034478015562577
GO:0042612MHC class I protein complex0.0358764336457484
GO:0004709MAP kinase kinase kinase activity0.0358764336457484
GO:0002474antigen processing and presentation of peptide antigen via MHC class I0.0374178926128342
GO:0042611MHC protein complex0.049189570075961
GO:0009408response to heat0.049189570075961
GO:0009306protein secretion0.049189570075961



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
mature alpha-beta T cell3.09e-619
alpha-beta T cell3.09e-619
immature T cell3.09e-619
mature T cell3.09e-619
immature alpha-beta T cell3.09e-619
CD4-positive, alpha-beta T cell1.35e-548
T cell5.27e-5011
pro-T cell5.27e-5011
lymphoid lineage restricted progenitor cell8.65e-4612
lymphocyte3.19e-4213
common lymphoid progenitor3.19e-4213
thymocyte2.88e-416
double negative thymocyte2.88e-416
naive T cell2.88e-416
double-positive, alpha-beta thymocyte2.88e-416
CD4-positive, alpha-beta thymocyte2.88e-416
naive thymus-derived CD4-positive, alpha-beta T cell2.88e-416
DN4 thymocyte2.88e-416
DN1 thymic pro-T cell2.88e-416
DN2 thymocyte2.88e-416
DN3 thymocyte2.88e-416
immature single positive thymocyte2.88e-416
early T lineage precursor2.88e-416
mature CD4 single-positive thymocyte2.88e-416
resting double-positive thymocyte2.88e-416
double-positive blast2.88e-416
CD69-positive double-positive thymocyte2.88e-416
CD69-positive, CD4-positive single-positive thymocyte2.88e-416
CD4-positive, CD8-intermediate double-positive thymocyte2.88e-416
CD24-positive, CD4 single-positive thymocyte2.88e-416
nucleate cell3.45e-3416
leukocyte3.87e-3217
nongranular leukocyte3.87e-3217
hematopoietic lineage restricted progenitor cell4.69e-3225
hematopoietic cell7.61e-2532
hematopoietic oligopotent progenitor cell7.61e-2532
hematopoietic stem cell7.61e-2532
angioblastic mesenchymal cell7.61e-2532
hematopoietic multipotent progenitor cell7.61e-2532
connective tissue cell5.52e-1746
mesenchymal cell5.52e-1746
motile cell2.59e-1454
regulatory T cell1.84e-081
CD4-positive, CD25-positive, alpha-beta regulatory T cell1.84e-081
CD8-positive, alpha-beta T cell3.50e-081
somatic stem cell5.05e-0891
multi fate stem cell5.05e-0891
stem cell1.89e-0797

Uber Anatomy
Ontology termp-valuen
connective tissue5.52e-1746
thymus3.66e-1423
neck3.66e-1423
respiratory system epithelium3.66e-1423
hemolymphoid system gland3.66e-1423
pharyngeal epithelium3.66e-1423
thymic region3.66e-1423
pharyngeal gland3.66e-1423
entire pharyngeal arch endoderm3.66e-1423
thymus primordium3.66e-1423
early pharyngeal endoderm3.66e-1423
pharynx1.49e-1324
gland of gut1.49e-1324
upper respiratory tract1.49e-1324
chordate pharynx1.49e-1324
pharyngeal arch system1.49e-1324
pharyngeal region of foregut1.49e-1324
hemolymphoid system3.84e-1348
immune system3.84e-1348
segment of respiratory tract5.40e-1227
hematopoietic system2.19e-1145
blood island2.19e-1145
hemopoietic organ3.92e-1129
immune organ3.92e-1129
mixed endoderm/mesoderm-derived structure3.91e-0935
organ segment3.91e-0935
craniocervical region7.26e-0936
respiratory tract1.02e-0741
respiratory system1.61e-0742
anterior region of body2.48e-0743


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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