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MCL coexpression mm9:649: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.810883335763931,0.743554642610748,0.539236892592921,0.948159903002093,1.26070668589662,1.22719768561047,1.98501511365912,0.664952637948134,0.292821961622594,0.220741404606391,0.265997903580453,0.0308601632142933,0.374676111415838,0.31155146000515,0.252027408767717,2.92135257308247,3.18989283056851,1.80239917231224,1.67920958367167,2.1587065255896,-0.0256418577456794,0.0786677159214676,2.25142097055838,1.86534733155814,1.95881387190377,1.14825097159751,1.15154112739894,1.25709204015298,1.82500620909338,1.38055937957761,1.55129912445376,2.95777352808951,0.975338896034522,2.61212470585181,1.34324385499386,1.78116152231492,1.49775291307588,1.89923341773801,2.31785228848082,1.81775661068104,1.78191793475469,2.00194390625548,1.86329383339591,-0.0824580172145032,-0.0738469187787116,-0.0206744382128989,0,0,-0.0824580172145032,0,0,0,1.462352272188,1.30156526761832,1.12181216515942,0,-0.0274228022756363,-0.0824580172145032,0,-0.0824580172145032,0,0,0,0,0,0,0,0,0.0116820785307501,0,0.013486854255689,0,0,0.0079248510678831,0,0,-0.0824580172145032,-0.0302693131050551,-0.0204003102785558,0,0,-0.0824580172145032,-0.0824580172145032,-0.0824580172145032,-0.0321065485164266,0,0,-0.0196289210479374,0.800089151351361,1.44643371794682,0.716552890099035,0.804857073721729,0,-0.0824580172145032,-0.0824580172145032,-0.0824580172145032,-0.0367857315376142,0,1.71390316171286,1.86684196916922,0.950672828417644,1.40812116606797,0.785052424066859,0.770056354826395,2.14986083321475,2.12275587702094,2.17570432911134,-0.0355011465228727,0,-0.0223488978035033,0,-0.00035030423275953,0,-0.0135678047740423,0,0,-0.0824580172145032,-0.0824580172145032,0,0,0.0866592903778752,0.178628326227282,-0.0824580172145032,-0.0164688253551936,-0.0824580172145032,0,2.09953118992521,2.385420043397,2.06307497069236,-0.0332410875301344,-0.0824580172145032,-0.0310529624139607,-0.0824580172145032,-0.0824580172145032,-0.000467290838967321,-0.0285635660670959,0.0219230383409482,0.0732163004917585,0,-0.053899948522979,0.00412746214819926,0.036300893646229,0.107597474864934,0,0.0285860945550467,0,0.0910435544309824,0,0.00232123895512171,0,0.0151623957662186,0.029883379559071,0,0,0,0,2.05720566716461,2.4647469842776,0.173896132862772,0.0136827806068505,0,0,0,0,0,0,0,-0.0246329372803299,0,-0.00468612538060666,-0.0600065187241483,-0.0824580172145032,-0.0824580172145032,-0.0277659164754894,-0.0109704297111734,-0.0345042925381914,-0.0824580172145032,0,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.0369125433248194,0.162726734143407,0.0341338616092191,0,0,0,0,-0.0175277079138073,-0.0824580172145032,-0.0646608363850562,-0.0433265330655093,0,0.093788204380499,0.25193883318552,0.161285395992561,0.251937321299881,0.093833775061694,0.164010416821659,0.193596690272608,0.0652566657696677,0.10536076625968,0,0,0,0,0,-0.0824580172145032,-0.0543658310247723,0.129227489598321,0.00673768692733312,0.0397567244420746,0,0,0,0,0,0,-0.0515290834498885,-0.0137352155412299,-0.0588123544738702,-0.0351875007825326,0.73127443491908,1.15303019520077,0,0,-0.0633296411206927,-0.0457243862167001,0,-0.0412325641219715,0,0.0063079795288582,0,0,0,0.0143927050070104,0,0,0,0,-0.0703503996731072,0.049843692865734,-0.00552424671025176,0,-0.0824580172145032,0.0780307128764162,0,0,0,0,-0.0391717438400925,0,0,0,-0.0824580172145032,-0.0824580172145032,0,0,0.014419543530728,0,0,-0.0111767756767146,-0.0132868633222744,0,0,-0.044551275997217,-0.0414458292079775,0,0,0,0,0,0,-0.0824580172145032,0.306473340882971,0,0,0.291609489810862,0.104960908225686,0.312820804260811,1.68885585385291,1.70474981442647,1.71428585084659,0,0.0406522343816334,0,0,0,0,0,0,-0.0824580172145032,-0.0367388378896606,0,0,0,0.0302911099702978,0,0,0,0.0371398716488571,0,0,-0.0428677317094594,0,0,0.0801664161057822,0.0670209255935549,0.0537593708481755,0.19518178646368,0.160138157665671,0.133726109153694,0.119146128463336,0.228923176031612,0.115553010147073,0.196100990406572,0.19996001625447,0.0425787028129274,0.00254290135134638,-0.0270337725498147,1.71948087544043,1.27719120982051,1.29470808251158,-0.0512842606501925,0,-0.0208194519311612,0,0,0,0,0,0.708418137904444,-0.0824580172145032,-0.0824580172145032,0,-0.0824580172145032,0,-0.0824580172145032,0.0425394685600358,0,0,0.0562982881015257,0.0240579404831036,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0219999164043604,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0233695602934963,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0006334;nucleosome assembly;1.36092384170213e-08;319155,15267,319159,665433!GO:0000786;nucleosome;1.36092384170213e-08;319155,15267,319159,665433!GO:0031497;chromatin assembly;1.36092384170213e-08;319155,15267,319159,665433!GO:0065004;protein-DNA complex assembly;1.68781729974058e-08;319155,15267,319159,665433!GO:0006333;chromatin assembly or disassembly;1.92589973053561e-08;319155,15267,319159,665433!GO:0000785;chromatin;7.6750922537972e-08;319155,15267,319159,665433!GO:0006325;establishment and/or maintenance of chromatin architecture;2.39504771253207e-07;319155,15267,319159,665433!GO:0006323;DNA packaging;2.39504771253207e-07;319155,15267,319159,665433!GO:0044427;chromosomal part;3.02073060572191e-07;319155,15267,319159,665433!GO:0065003;macromolecular complex assembly;3.30771804293327e-07;319155,15267,319159,665433!GO:0005694;chromosome;4.86122415955161e-07;319155,15267,319159,665433!GO:0022607;cellular component assembly;5.29295570108079e-07;319155,15267,319159,665433!GO:0051276;chromosome organization and biogenesis;5.29295570108079e-07;319155,15267,319159,665433!GO:0006259;DNA metabolic process;3.3315282502706e-06;319155,15267,319159,665433!GO:0006996;organelle organization and biogenesis;3.31219047587105e-05;319155,15267,319159,665433!GO:0043232;intracellular non-membrane-bound organelle;9.19041659126887e-05;319155,15267,319159,665433!GO:0043228;non-membrane-bound organelle;9.19041659126887e-05;319155,15267,319159,665433!GO:0043234;protein complex;0.000111663926635138;319155,15267,319159,665433!GO:0003677;DNA binding;0.000208617178318726;319155,15267,319159,665433!GO:0032991;macromolecular complex;0.000253461686821122;319155,15267,319159,665433!GO:0044446;intracellular organelle part;0.000425046946605353;319155,15267,319159,665433!GO:0044422;organelle part;0.000425046946605353;319155,15267,319159,665433!GO:0016043;cellular component organization and biogenesis;0.000425046946605353;319155,15267,319159,665433!GO:0003676;nucleic acid binding;0.00077584897085914;319155,15267,319159,665433!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.00100471602029284;319155,15267,319159,665433!GO:0005634;nucleus;0.00314665442940148;319155,15267,319159,665433!GO:0043283;biopolymer metabolic process;0.00342409833126973;319155,15267,319159,665433!GO:0043170;macromolecule metabolic process;0.00983723022032124;319155,15267,319159,665433!GO:0044238;primary metabolic process;0.01592009323515;319155,15267,319159,665433!GO:0044237;cellular metabolic process;0.01592009323515;319155,15267,319159,665433!GO:0043231;intracellular membrane-bound organelle;0.01592009323515;319155,15267,319159,665433!GO:0043227;membrane-bound organelle;0.01592009323515;319155,15267,319159,665433!GO:0043229;intracellular organelle;0.0246068068402387;319155,15267,319159,665433!GO:0043226;organelle;0.0246068068402387;319155,15267,319159,665433!GO:0044424;intracellular part;0.0490728166954524;319155,15267,319159,665433!
|gostat_on_MCL_coexpression=GO:0006334;nucleosome assembly;1.36092384170213e-08;319155,15267,319159,665433!GO:0000786;nucleosome;1.36092384170213e-08;319155,15267,319159,665433!GO:0031497;chromatin assembly;1.36092384170213e-08;319155,15267,319159,665433!GO:0065004;protein-DNA complex assembly;1.68781729974058e-08;319155,15267,319159,665433!GO:0006333;chromatin assembly or disassembly;1.92589973053561e-08;319155,15267,319159,665433!GO:0000785;chromatin;7.6750922537972e-08;319155,15267,319159,665433!GO:0006325;establishment and/or maintenance of chromatin architecture;2.39504771253207e-07;319155,15267,319159,665433!GO:0006323;DNA packaging;2.39504771253207e-07;319155,15267,319159,665433!GO:0044427;chromosomal part;3.02073060572191e-07;319155,15267,319159,665433!GO:0065003;macromolecular complex assembly;3.30771804293327e-07;319155,15267,319159,665433!GO:0005694;chromosome;4.86122415955161e-07;319155,15267,319159,665433!GO:0022607;cellular component assembly;5.29295570108079e-07;319155,15267,319159,665433!GO:0051276;chromosome organization and biogenesis;5.29295570108079e-07;319155,15267,319159,665433!GO:0006259;DNA metabolic process;3.3315282502706e-06;319155,15267,319159,665433!GO:0006996;organelle organization and biogenesis;3.31219047587105e-05;319155,15267,319159,665433!GO:0043232;intracellular non-membrane-bound organelle;9.19041659126887e-05;319155,15267,319159,665433!GO:0043228;non-membrane-bound organelle;9.19041659126887e-05;319155,15267,319159,665433!GO:0043234;protein complex;0.000111663926635138;319155,15267,319159,665433!GO:0003677;DNA binding;0.000208617178318726;319155,15267,319159,665433!GO:0032991;macromolecular complex;0.000253461686821122;319155,15267,319159,665433!GO:0044446;intracellular organelle part;0.000425046946605353;319155,15267,319159,665433!GO:0044422;organelle part;0.000425046946605353;319155,15267,319159,665433!GO:0016043;cellular component organization and biogenesis;0.000425046946605353;319155,15267,319159,665433!GO:0003676;nucleic acid binding;0.00077584897085914;319155,15267,319159,665433!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.00100471602029284;319155,15267,319159,665433!GO:0005634;nucleus;0.00314665442940148;319155,15267,319159,665433!GO:0043283;biopolymer metabolic process;0.00342409833126973;319155,15267,319159,665433!GO:0043170;macromolecule metabolic process;0.00983723022032124;319155,15267,319159,665433!GO:0044238;primary metabolic process;0.01592009323515;319155,15267,319159,665433!GO:0044237;cellular metabolic process;0.01592009323515;319155,15267,319159,665433!GO:0043231;intracellular membrane-bound organelle;0.01592009323515;319155,15267,319159,665433!GO:0043227;membrane-bound organelle;0.01592009323515;319155,15267,319159,665433!GO:0043229;intracellular organelle;0.0246068068402387;319155,15267,319159,665433!GO:0043226;organelle;0.0246068068402387;319155,15267,319159,665433!GO:0044424;intracellular part;0.0490728166954524;319155,15267,319159,665433!
}}
}}

Revision as of 12:44, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:17805943..17805945,+p@chr11:17805943..17805945
+
Mm9::chr13:117839387..117839413,+p@chr13:117839387..117839413
+
Mm9::chr13:21826924..21826939,+p8@Hist1h4c
p8@Hist1h4d
p8@Hist1h4f
p8@Hist1h4h
p8@Hist1h4i
p8@Hist1h4j
p8@Hist1h4k
p8@Hist1h4m
p8@Hist1h4n
p9@Hist1h4a
p9@Hist1h4b
p9@Hist2h4
p9@Hist4h4
Mm9::chr13:21902297..21902311,+p7@Hist1h2ap
Mm9::chr13:21903606..21903623,+p6@Hist1h4c
p6@Hist1h4d
p6@Hist1h4f
p6@Hist1h4h
p6@Hist1h4i
p6@Hist1h4j
p6@Hist1h4k
p6@Hist1h4m
p6@Hist1h4n
p7@Hist1h4a
p7@Hist1h4b
p7@Hist2h4
p7@Hist4h4
Mm9::chr13:21925605..21925620,+p1@Hist1h2bq
p1@Hist1h2br
p5@Hist1h2bf
p5@Hist1h2bj
p5@Hist1h2bl
p5@Hist1h2bn
Mm9::chr17:17026218..17026227,+p@chr17:17026218..17026227
+
Mm9::chr1:129690056..129690058,+p@chr1:129690056..129690058
+
Mm9::chr3:96049453..96049469,+p1@Hist2h2aa1
p1@Hist2h2aa2
Mm9::chr3:96050759..96050773,+p4@Hist2h3c1
Mm9::chr5:74733727..74733734,+p@chr5:74733727..74733734
+


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:0006334nucleosome assembly1.36092384170213e-08
GO:0000786nucleosome1.36092384170213e-08
GO:0031497chromatin assembly1.36092384170213e-08
GO:0065004protein-DNA complex assembly1.68781729974058e-08
GO:0006333chromatin assembly or disassembly1.92589973053561e-08
GO:0000785chromatin7.6750922537972e-08
GO:0006325establishment and/or maintenance of chromatin architecture2.39504771253207e-07
GO:0006323DNA packaging2.39504771253207e-07
GO:0044427chromosomal part3.02073060572191e-07
GO:0065003macromolecular complex assembly3.30771804293327e-07
GO:0005694chromosome4.86122415955161e-07
GO:0022607cellular component assembly5.29295570108079e-07
GO:0051276chromosome organization and biogenesis5.29295570108079e-07
GO:0006259DNA metabolic process3.3315282502706e-06
GO:0006996organelle organization and biogenesis3.31219047587105e-05
GO:0043232intracellular non-membrane-bound organelle9.19041659126887e-05
GO:0043228non-membrane-bound organelle9.19041659126887e-05
GO:0043234protein complex0.000111663926635138
GO:0003677DNA binding0.000208617178318726
GO:0032991macromolecular complex0.000253461686821122
GO:0044446intracellular organelle part0.000425046946605353
GO:0044422organelle part0.000425046946605353
GO:0016043cellular component organization and biogenesis0.000425046946605353
GO:0003676nucleic acid binding0.00077584897085914
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.00100471602029284
GO:0005634nucleus0.00314665442940148
GO:0043283biopolymer metabolic process0.00342409833126973
GO:0043170macromolecule metabolic process0.00983723022032124
GO:0044238primary metabolic process0.01592009323515
GO:0044237cellular metabolic process0.01592009323515
GO:0043231intracellular membrane-bound organelle0.01592009323515
GO:0043227membrane-bound organelle0.01592009323515
GO:0043229intracellular organelle0.0246068068402387
GO:0043226organelle0.0246068068402387
GO:0044424intracellular part0.0490728166954524



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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