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MCL coexpression mm9:284: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002370!2.64e-12!23;UBERON:0000974!2.64e-12!23;UBERON:0004807!2.64e-12!23;UBERON:0005058!2.64e-12!23;UBERON:0003351!2.64e-12!23;UBERON:0009113!2.64e-12!23;UBERON:0003295!2.64e-12!23;UBERON:0009722!2.64e-12!23;UBERON:0005562!2.64e-12!23;UBERON:0007690!2.64e-12!23;UBERON:0006562!8.73e-12!24;UBERON:0003408!8.73e-12!24;UBERON:0001557!8.73e-12!24;UBERON:0001042!8.73e-12!24;UBERON:0008814!8.73e-12!24;UBERON:0009145!8.73e-12!24;UBERON:0002390!7.90e-11!45;UBERON:0003061!7.90e-11!45;UBERON:0002384!8.15e-11!46;UBERON:0000072!1.86e-10!27;UBERON:0002193!4.06e-10!48;UBERON:0002405!4.06e-10!48;UBERON:0004177!1.01e-09!29;UBERON:0005057!1.01e-09!29;UBERON:0000077!5.10e-08!35;UBERON:0000063!5.10e-08!35;UBERON:0007811!8.64e-08!36;UBERON:0000065!8.26e-07!41
|ontology_enrichment_uberon=UBERON:0002370!2.64e-12!23;UBERON:0000974!2.64e-12!23;UBERON:0004807!2.64e-12!23;UBERON:0005058!2.64e-12!23;UBERON:0003351!2.64e-12!23;UBERON:0009113!2.64e-12!23;UBERON:0003295!2.64e-12!23;UBERON:0009722!2.64e-12!23;UBERON:0005562!2.64e-12!23;UBERON:0007690!2.64e-12!23;UBERON:0006562!8.73e-12!24;UBERON:0003408!8.73e-12!24;UBERON:0001557!8.73e-12!24;UBERON:0001042!8.73e-12!24;UBERON:0008814!8.73e-12!24;UBERON:0009145!8.73e-12!24;UBERON:0002390!7.90e-11!45;UBERON:0003061!7.90e-11!45;UBERON:0002384!8.15e-11!46;UBERON:0000072!1.86e-10!27;UBERON:0002193!4.06e-10!48;UBERON:0002405!4.06e-10!48;UBERON:0004177!1.01e-09!29;UBERON:0005057!1.01e-09!29;UBERON:0000077!5.10e-08!35;UBERON:0000063!5.10e-08!35;UBERON:0007811!8.64e-08!36;UBERON:0000065!8.26e-07!41
|tfbs_overrepresentation_for_novel_motifs=0.0719497,0.0640434,0.220186,1.05672,0.778742,0.324459,0.148388,0.943591,0.263357,0.0042994,0.38953,0.435892,0.115878,0.155782,0.846378,0,0.288299,0.462025,0.00617798,0.241413,0.710633,0.0303668,0.155233,0.255788,0.495614,0.17289,0.348681,0.716363,0.0373647,0.0499757,0.101869,0.367297,0.0974128,0.0697721,0.0292504,0.0079125,0.0899817,0.139162,0.19064,0.0548666,1.52298,0.340818,0.191074,0.122302,0.0262293,0.0859418,0.230231,0.117576,0.133379,0.347605,0.27523,0.190239,0.107542,0.485586,0.500658,0.160159,1.44442,0.13388,0.176454,0.158905,0.351242,0.196469,0.758909,0.266898,0.167068,0.80545,0.621417,0.947606,0.347523,0.807939,0.0538018,0.255354,0.00298617,0.529888,0.073438,0.144287,0.069705,0.222296,0.337634,0.410777,0.258045,0.301475,1.701,0.905356,0.430864,1.34795e-05,0.548383,0.015138,0.233678,1.10402,0.684894,0.435043,0.377655,1.58849,0.01524,0.814454,0.236902,0.379937,0.23041,0.0871454,0.225558,0.367072,0.470627,0.275672,0.274889,0.10429,0.320303,1.22078,0.050559,0.047957,0.52086,0.472153,0.413098,0.125988,0.691366,0.248416,0.00234927,0.0930994,0.28928,0.420265,0.534627,1.29609,0.994733,0.631319,1.75578,0.340552,0.466031,0.372164,0.620047,0.11356,1.15543,0.615552,0.593454,0.503994,0.711262,0.0291867,0.555322,0.342749,0.6661,1.46501,1.07314,0.625675,1.0259,0.375761,0.743723,0.341439,0.656561,1.42588,0.0766814,0.0252905,0.121985,0.000196948,0.486938,0.167204,0.502569,0.558342,0.1909,0.895883,0.248498,0.0755084,0.674799,0.430147,0.903461,2.4239,0.738132,1.51762,0.0891063,0.140344,1.77152e-05
}}
}}

Revision as of 18:06, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:118070499..118070503,-p@chr10:118070499..118070503
-
Mm9::chr11:3005173..3005182,+p@chr11:3005173..3005182
+
Mm9::chr11:63788797..63788806,-p@chr11:63788797..63788806
-
Mm9::chr11:63803193..63803202,+p@chr11:63803193..63803202
+
Mm9::chr11:63803209..63803231,+p@chr11:63803209..63803231
+
Mm9::chr11:63803242..63803245,+p@chr11:63803242..63803245
+
Mm9::chr11:63803269..63803274,+p@chr11:63803269..63803274
+
Mm9::chr11:63803295..63803303,+p@chr11:63803295..63803303
+
Mm9::chr11:63803376..63803385,+p@chr11:63803376..63803385
+
Mm9::chr12:114684617..114684621,+p@chr12:114684617..114684621
+
Mm9::chr17:35868798..35868840,-p@chr17:35868798..35868840
-
Mm9::chr17:5089896..5089901,+p@chr17:5089896..5089901
+
Mm9::chr17:75169401..75169411,+p@chr17:75169401..75169411
+
Mm9::chr18:80794300..80794313,-p@chr18:80794300..80794313
-
Mm9::chr19:11592983..11593024,+p1@Ms4a6b
Mm9::chr19:32261023..32261030,-p@chr19:32261023..32261030
-
Mm9::chr1:130509383..130509420,+p@chr1:130509383..130509420
+
Mm9::chr1:161977100..161977102,-p@chr1:161977100..161977102
-
Mm9::chr1:78534537..78534547,+p@chr1:78534537..78534547
+
Mm9::chr2:122294867..122294874,-p@chr2:122294867..122294874
-
Mm9::chr4:32335313..32335316,-p@chr4:32335313..32335316
-
Mm9::chr4:45421980..45421983,+p@chr4:45421980..45421983
+
Mm9::chr5:107926893..107926904,+p@chr5:107926893..107926904
+
Mm9::chr6:22394429..22394437,-p@chr6:22394429..22394437
-
Mm9::chr6:48504656..48504665,-p@chr6:48504656..48504665
-
Mm9::chr7:90296900..90296911,+p2@uc009idk.1
Mm9::chr8:35209201..35209215,-p@chr8:35209201..35209215
-
Mm9::chr9:110819395..110819404,-p1@Gm590
Mm9::chrX:45451921..45451922,-p@chrX:45451921..45451922
-


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
mature alpha-beta T cell1.87e-329
alpha-beta T cell1.87e-329
immature T cell1.87e-329
mature T cell1.87e-329
immature alpha-beta T cell1.87e-329
T cell1.48e-2611
pro-T cell1.48e-2611
CD4-positive, alpha-beta T cell1.74e-258
lymphoid lineage restricted progenitor cell2.42e-2412
lymphocyte1.82e-2213
common lymphoid progenitor1.82e-2213
hematopoietic lineage restricted progenitor cell2.66e-2025
nucleate cell3.04e-1816
leukocyte3.65e-1717
nongranular leukocyte3.65e-1717
hematopoietic cell9.12e-1632
hematopoietic oligopotent progenitor cell9.12e-1632
hematopoietic stem cell9.12e-1632
angioblastic mesenchymal cell9.12e-1632
hematopoietic multipotent progenitor cell9.12e-1632
thymocyte5.78e-136
double negative thymocyte5.78e-136
naive T cell5.78e-136
double-positive, alpha-beta thymocyte5.78e-136
CD4-positive, alpha-beta thymocyte5.78e-136
naive thymus-derived CD4-positive, alpha-beta T cell5.78e-136
DN4 thymocyte5.78e-136
DN1 thymic pro-T cell5.78e-136
DN2 thymocyte5.78e-136
DN3 thymocyte5.78e-136
immature single positive thymocyte5.78e-136
early T lineage precursor5.78e-136
mature CD4 single-positive thymocyte5.78e-136
resting double-positive thymocyte5.78e-136
double-positive blast5.78e-136
CD69-positive double-positive thymocyte5.78e-136
CD69-positive, CD4-positive single-positive thymocyte5.78e-136
CD4-positive, CD8-intermediate double-positive thymocyte5.78e-136
CD24-positive, CD4 single-positive thymocyte5.78e-136
connective tissue cell8.15e-1146
mesenchymal cell8.15e-1146
CD8-positive, alpha-beta T cell1.19e-091
regulatory T cell3.65e-091
CD4-positive, CD25-positive, alpha-beta regulatory T cell3.65e-091
motile cell3.96e-0954

Uber Anatomy
Ontology termp-valuen
thymus2.64e-1223
neck2.64e-1223
respiratory system epithelium2.64e-1223
hemolymphoid system gland2.64e-1223
pharyngeal epithelium2.64e-1223
thymic region2.64e-1223
pharyngeal gland2.64e-1223
entire pharyngeal arch endoderm2.64e-1223
thymus primordium2.64e-1223
early pharyngeal endoderm2.64e-1223
pharynx8.73e-1224
gland of gut8.73e-1224
upper respiratory tract8.73e-1224
chordate pharynx8.73e-1224
pharyngeal arch system8.73e-1224
pharyngeal region of foregut8.73e-1224
hematopoietic system7.90e-1145
blood island7.90e-1145
connective tissue8.15e-1146
segment of respiratory tract1.86e-1027
hemolymphoid system4.06e-1048
immune system4.06e-1048
hemopoietic organ1.01e-0929
immune organ1.01e-0929
mixed endoderm/mesoderm-derived structure5.10e-0835
organ segment5.10e-0835
craniocervical region8.64e-0836
respiratory tract8.26e-0741


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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