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MCL coexpression mm9:565: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0003723;RNA binding;2.7068334868066e-07;20643,27207,20044,50783,66055,67025!GO:0030529;ribonucleoprotein complex;5.39890992168826e-06;20643,27207,20044,50783,67025!GO:0003735;structural constituent of ribosome;0.000344208073032711;27207,20044,67025!GO:0005840;ribosome;0.000344208073032711;27207,20044,67025!GO:0008380;RNA splicing;0.000344208073032711;20643,50783,66055!GO:0019843;rRNA binding;0.000344208073032711;27207,67025!GO:0010467;gene expression;0.000477639320630132;20643,27207,20044,50783,66055,67025!GO:0006397;mRNA processing;0.000477639320630132;20643,50783,66055!GO:0003676;nucleic acid binding;0.000477639320630132;20643,27207,20044,50783,66055,67025!GO:0016071;mRNA metabolic process;0.000581313419145666;20643,50783,66055!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.000833266362289732;20044,67025!GO:0043170;macromolecule metabolic process;0.000973998213762906;68240,20643,27207,20044,50783,66055,67025!GO:0006396;RNA processing;0.0010808190559382;20643,50783,66055!GO:0033279;ribosomal subunit;0.0010808190559382;20044,67025!GO:0032991;macromolecular complex;0.0010808190559382;20643,27207,20044,50783,67025!GO:0006412;translation;0.0016737208799554;27207,20044,67025!GO:0044238;primary metabolic process;0.00181684662869837;68240,20643,27207,20044,50783,66055,67025!GO:0044237;cellular metabolic process;0.00181684662869837;68240,20643,27207,20044,50783,66055,67025!GO:0044445;cytosolic part;0.00185370701054734;20044,67025!GO:0043232;intracellular non-membrane-bound organelle;0.00340499698575161;20643,27207,20044,67025!GO:0043228;non-membrane-bound organelle;0.00340499698575161;20643,27207,20044,67025!GO:0005681;spliceosome;0.00340499698575161;20643,50783!GO:0043229;intracellular organelle;0.00340499698575161;68240,20643,27207,20044,50783,66055,67025!GO:0043226;organelle;0.00340499698575161;68240,20643,27207,20044,50783,66055,67025!GO:0009059;macromolecule biosynthetic process;0.00351279412926422;27207,20044,67025!GO:0044249;cellular biosynthetic process;0.00741740606131899;27207,20044,67025!GO:0005842;cytosolic large ribosomal subunit (sensu Eukaryota);0.0082982174934516;67025!GO:0044424;intracellular part;0.0102785707572212;68240,20643,27207,20044,50783,66055,67025!GO:0031202;RNA splicing factor activity, transesterification mechanism;0.0102961576755971;20643!GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.0116079617877804;20044!GO:0005622;intracellular;0.0116578670353437;68240,20643,27207,20044,50783,66055,67025!GO:0005732;small nucleolar ribonucleoprotein complex;0.0116578670353437;20643!GO:0044446;intracellular organelle part;0.0121640679171278;20643,20044,50783,67025!GO:0044422;organelle part;0.0121640679171278;20643,20044,50783,67025!GO:0005829;cytosol;0.012466216839066;20044,67025!GO:0009058;biosynthetic process;0.0126317215802539;27207,20044,67025!GO:0015935;small ribosomal subunit;0.0201153190906232;20044!GO:0015934;large ribosomal subunit;0.0208848363598456;67025!GO:0044452;nucleolar part;0.0228779551165436;20643!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.024978941652727;68240,20643,50783,66055!
|gostat_on_MCL_coexpression=GO:0003723;RNA binding;2.7068334868066e-07;20643,27207,20044,50783,66055,67025!GO:0030529;ribonucleoprotein complex;5.39890992168826e-06;20643,27207,20044,50783,67025!GO:0003735;structural constituent of ribosome;0.000344208073032711;27207,20044,67025!GO:0005840;ribosome;0.000344208073032711;27207,20044,67025!GO:0008380;RNA splicing;0.000344208073032711;20643,50783,66055!GO:0019843;rRNA binding;0.000344208073032711;27207,67025!GO:0010467;gene expression;0.000477639320630132;20643,27207,20044,50783,66055,67025!GO:0006397;mRNA processing;0.000477639320630132;20643,50783,66055!GO:0003676;nucleic acid binding;0.000477639320630132;20643,27207,20044,50783,66055,67025!GO:0016071;mRNA metabolic process;0.000581313419145666;20643,50783,66055!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.000833266362289732;20044,67025!GO:0043170;macromolecule metabolic process;0.000973998213762906;68240,20643,27207,20044,50783,66055,67025!GO:0006396;RNA processing;0.0010808190559382;20643,50783,66055!GO:0033279;ribosomal subunit;0.0010808190559382;20044,67025!GO:0032991;macromolecular complex;0.0010808190559382;20643,27207,20044,50783,67025!GO:0006412;translation;0.0016737208799554;27207,20044,67025!GO:0044238;primary metabolic process;0.00181684662869837;68240,20643,27207,20044,50783,66055,67025!GO:0044237;cellular metabolic process;0.00181684662869837;68240,20643,27207,20044,50783,66055,67025!GO:0044445;cytosolic part;0.00185370701054734;20044,67025!GO:0043232;intracellular non-membrane-bound organelle;0.00340499698575161;20643,27207,20044,67025!GO:0043228;non-membrane-bound organelle;0.00340499698575161;20643,27207,20044,67025!GO:0005681;spliceosome;0.00340499698575161;20643,50783!GO:0043229;intracellular organelle;0.00340499698575161;68240,20643,27207,20044,50783,66055,67025!GO:0043226;organelle;0.00340499698575161;68240,20643,27207,20044,50783,66055,67025!GO:0009059;macromolecule biosynthetic process;0.00351279412926422;27207,20044,67025!GO:0044249;cellular biosynthetic process;0.00741740606131899;27207,20044,67025!GO:0005842;cytosolic large ribosomal subunit (sensu Eukaryota);0.0082982174934516;67025!GO:0044424;intracellular part;0.0102785707572212;68240,20643,27207,20044,50783,66055,67025!GO:0031202;RNA splicing factor activity, transesterification mechanism;0.0102961576755971;20643!GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.0116079617877804;20044!GO:0005622;intracellular;0.0116578670353437;68240,20643,27207,20044,50783,66055,67025!GO:0005732;small nucleolar ribonucleoprotein complex;0.0116578670353437;20643!GO:0044446;intracellular organelle part;0.0121640679171278;20643,20044,50783,67025!GO:0044422;organelle part;0.0121640679171278;20643,20044,50783,67025!GO:0005829;cytosol;0.012466216839066;20044,67025!GO:0009058;biosynthetic process;0.0126317215802539;27207,20044,67025!GO:0015935;small ribosomal subunit;0.0201153190906232;20044!GO:0015934;large ribosomal subunit;0.0208848363598456;67025!GO:0044452;nucleolar part;0.0228779551165436;20643!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.024978941652727;68240,20643,50783,66055!
|ontology_enrichment_celltype=CL:0000219!5.41e-14!54;CL:0000034!1.23e-13!97;CL:0002371!2.02e-13!118;CL:0000988!1.08e-12!32;CL:0002032!1.08e-12!32;CL:0000037!1.08e-12!32;CL:0000566!1.08e-12!32;CL:0000837!1.08e-12!32;CL:0000548!1.11e-12!115;CL:0000255!1.11e-12!115;CL:0002320!2.91e-12!46;CL:0000134!2.91e-12!46;CL:0000723!1.97e-11!91;CL:0000048!1.97e-11!91;CL:0002031!1.78e-08!25;CL:0000049!2.39e-08!19;CL:0002242!7.97e-07!16
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!2.91e-12!46;UBERON:0002193!3.16e-08!48;UBERON:0002405!3.16e-08!48;UBERON:0002390!3.35e-08!45;UBERON:0003061!3.35e-08!45
}}
}}

Revision as of 20:54, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:97888253..97888282,+p1@LOC100045367
p1@LOC100505098
p1@Rpl19
Mm9::chr12:4824351..4824384,+p1@0610009D07Rik
Mm9::chr13:91062727..91062775,+p1@Gm10186
p1@Gm15450
p1@Rps23
Mm9::chr16:33056542..33056581,+p1@Gm11810
p1@Gm14279
p1@LOC100505045
p1@LOC100505110
p1@Rpl35a-ps7
p1@Rpl35a
Mm9::chr18:60934268..60934279,+p2@Rps14
Mm9::chr1:135506830..135506871,-p1@Snrpe
Mm9::chr3:130433228..130433270,-p1@Gm10086
p1@Gm4705
p1@Rpl34-ps1
p1@Rpl34
Mm9::chr4:135609258..135609330,-p1@Rpl11
Mm9::chr6:8209098..8209153,-p1@Rpa3
Mm9::chr6:86321483..86321544,+p1@Gm8186
p1@Snrpg
Mm9::chr7:125259685..125259712,-p1@Gm10196
p1@Gm14166
p1@Rps15a
Mm9::chr7:52379703..52379724,-p2@Rps11
Mm9::chr8:73197263..73197327,+p1@Lsm4


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:0003723RNA binding2.7068334868066e-07
GO:0030529ribonucleoprotein complex5.39890992168826e-06
GO:0003735structural constituent of ribosome0.000344208073032711
GO:0005840ribosome0.000344208073032711
GO:0008380RNA splicing0.000344208073032711
GO:0019843rRNA binding0.000344208073032711
GO:0010467gene expression0.000477639320630132
GO:0006397mRNA processing0.000477639320630132
GO:0003676nucleic acid binding0.000477639320630132
GO:0016071mRNA metabolic process0.000581313419145666
GO:0005830cytosolic ribosome (sensu Eukaryota)0.000833266362289732
GO:0043170macromolecule metabolic process0.000973998213762906
GO:0006396RNA processing0.0010808190559382
GO:0033279ribosomal subunit0.0010808190559382
GO:0032991macromolecular complex0.0010808190559382
GO:0006412translation0.0016737208799554
GO:0044238primary metabolic process0.00181684662869837
GO:0044237cellular metabolic process0.00181684662869837
GO:0044445cytosolic part0.00185370701054734
GO:0043232intracellular non-membrane-bound organelle0.00340499698575161
GO:0043228non-membrane-bound organelle0.00340499698575161
GO:0005681spliceosome0.00340499698575161
GO:0043229intracellular organelle0.00340499698575161
GO:0043226organelle0.00340499698575161
GO:0009059macromolecule biosynthetic process0.00351279412926422
GO:0044249cellular biosynthetic process0.00741740606131899
GO:0005842cytosolic large ribosomal subunit (sensu Eukaryota)0.0082982174934516
GO:0044424intracellular part0.0102785707572212
GO:0031202RNA splicing factor activity, transesterification mechanism0.0102961576755971
GO:0005843cytosolic small ribosomal subunit (sensu Eukaryota)0.0116079617877804
GO:0005622intracellular0.0116578670353437
GO:0005732small nucleolar ribonucleoprotein complex0.0116578670353437
GO:0044446intracellular organelle part0.0121640679171278
GO:0044422organelle part0.0121640679171278
GO:0005829cytosol0.012466216839066
GO:0009058biosynthetic process0.0126317215802539
GO:0015935small ribosomal subunit0.0201153190906232
GO:0015934large ribosomal subunit0.0208848363598456
GO:0044452nucleolar part0.0228779551165436
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.024978941652727



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>

Uber Anatomy
Ontology termp-valuen
connective tissue2.91e-1246
hemolymphoid system3.16e-0848
immune system3.16e-0848
hematopoietic system3.35e-0845
blood island3.35e-0845


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)

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