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MCL coexpression mm9:776: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0003735;structural constituent of ribosome;1.12158341245474e-09;67671,67115,67427,67186,26961!GO:0005840;ribosome;1.12158341245474e-09;67671,67115,67427,67186,26961!GO:0006412;translation;8.64843970314163e-08;67671,67115,67427,67186,26961!GO:0030529;ribonucleoprotein complex;8.64843970314163e-08;67671,67115,67427,67186,26961!GO:0009059;macromolecule biosynthetic process;4.38474181368054e-07;67671,67115,67427,67186,26961!GO:0044249;cellular biosynthetic process;1.43704854847439e-06;67671,67115,67427,67186,26961!GO:0009058;biosynthetic process;5.6054167329473e-06;67671,67115,67427,67186,26961!GO:0043232;intracellular non-membrane-bound organelle;1.53399351754213e-05;67671,67115,67427,67186,26961!GO:0043228;non-membrane-bound organelle;1.53399351754213e-05;67671,67115,67427,67186,26961!GO:0032991;macromolecular complex;6.01455326125107e-05;67671,67115,67427,67186,26961!GO:0044267;cellular protein metabolic process;0.000202127295949223;67671,67115,67427,67186,26961!GO:0044260;cellular macromolecule metabolic process;0.000202127295949223;67671,67115,67427,67186,26961!GO:0010467;gene expression;0.000202127295949223;67671,67115,67427,67186,26961!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.000202127295949223;67427,26961!GO:0019538;protein metabolic process;0.000202848986937148;67671,67115,67427,67186,26961!GO:0033279;ribosomal subunit;0.000296038486067175;67427,26961!GO:0044444;cytoplasmic part;0.000325187293197688;67671,67115,67427,67186,26961!GO:0044445;cytosolic part;0.000606120219334295;67427,26961!GO:0005737;cytoplasm;0.00444001011736896;67671,67115,67427,67186,26961!GO:0043170;macromolecule metabolic process;0.00444001011736896;67671,67115,67427,67186,26961!GO:0005842;cytosolic large ribosomal subunit (sensu Eukaryota);0.00492637565283138;26961!GO:0005829;cytosol;0.00625365607878693;67427,26961!GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.00699304871529693;67427!GO:0044238;primary metabolic process;0.00740623914031388;67671,67115,67427,67186,26961!GO:0044237;cellular metabolic process;0.00740623914031388;67671,67115,67427,67186,26961!GO:0019843;rRNA binding;0.0101529563835987;26961!GO:0003723;RNA binding;0.0118358102948665;67427,26961!GO:0015935;small ribosomal subunit;0.0118358102948665;67427!GO:0043229;intracellular organelle;0.0118358102948665;67671,67115,67427,67186,26961!GO:0043226;organelle;0.0118358102948665;67671,67115,67427,67186,26961!GO:0015934;large ribosomal subunit;0.0118358102948665;26961!GO:0006414;translational elongation;0.0164570234412212;67186!GO:0043284;biopolymer biosynthetic process;0.0225029067506786;67186!GO:0044424;intracellular part;0.0257399456334986;67671,67115,67427,67186,26961!GO:0005622;intracellular;0.0296374758110184;67671,67115,67427,67186,26961!
|gostat_on_MCL_coexpression=GO:0003735;structural constituent of ribosome;1.12158341245474e-09;67671,67115,67427,67186,26961!GO:0005840;ribosome;1.12158341245474e-09;67671,67115,67427,67186,26961!GO:0006412;translation;8.64843970314163e-08;67671,67115,67427,67186,26961!GO:0030529;ribonucleoprotein complex;8.64843970314163e-08;67671,67115,67427,67186,26961!GO:0009059;macromolecule biosynthetic process;4.38474181368054e-07;67671,67115,67427,67186,26961!GO:0044249;cellular biosynthetic process;1.43704854847439e-06;67671,67115,67427,67186,26961!GO:0009058;biosynthetic process;5.6054167329473e-06;67671,67115,67427,67186,26961!GO:0043232;intracellular non-membrane-bound organelle;1.53399351754213e-05;67671,67115,67427,67186,26961!GO:0043228;non-membrane-bound organelle;1.53399351754213e-05;67671,67115,67427,67186,26961!GO:0032991;macromolecular complex;6.01455326125107e-05;67671,67115,67427,67186,26961!GO:0044267;cellular protein metabolic process;0.000202127295949223;67671,67115,67427,67186,26961!GO:0044260;cellular macromolecule metabolic process;0.000202127295949223;67671,67115,67427,67186,26961!GO:0010467;gene expression;0.000202127295949223;67671,67115,67427,67186,26961!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.000202127295949223;67427,26961!GO:0019538;protein metabolic process;0.000202848986937148;67671,67115,67427,67186,26961!GO:0033279;ribosomal subunit;0.000296038486067175;67427,26961!GO:0044444;cytoplasmic part;0.000325187293197688;67671,67115,67427,67186,26961!GO:0044445;cytosolic part;0.000606120219334295;67427,26961!GO:0005737;cytoplasm;0.00444001011736896;67671,67115,67427,67186,26961!GO:0043170;macromolecule metabolic process;0.00444001011736896;67671,67115,67427,67186,26961!GO:0005842;cytosolic large ribosomal subunit (sensu Eukaryota);0.00492637565283138;26961!GO:0005829;cytosol;0.00625365607878693;67427,26961!GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.00699304871529693;67427!GO:0044238;primary metabolic process;0.00740623914031388;67671,67115,67427,67186,26961!GO:0044237;cellular metabolic process;0.00740623914031388;67671,67115,67427,67186,26961!GO:0019843;rRNA binding;0.0101529563835987;26961!GO:0003723;RNA binding;0.0118358102948665;67427,26961!GO:0015935;small ribosomal subunit;0.0118358102948665;67427!GO:0043229;intracellular organelle;0.0118358102948665;67671,67115,67427,67186,26961!GO:0043226;organelle;0.0118358102948665;67671,67115,67427,67186,26961!GO:0015934;large ribosomal subunit;0.0118358102948665;26961!GO:0006414;translational elongation;0.0164570234412212;67186!GO:0043284;biopolymer biosynthetic process;0.0225029067506786;67186!GO:0044424;intracellular part;0.0257399456334986;67671,67115,67427,67186,26961!GO:0005622;intracellular;0.0296374758110184;67671,67115,67427,67186,26961!
}}
}}

Revision as of 12:46, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:114529884..114529921,+p1@Rpl38
Mm9::chr15:76734500..76734522,+p1@Rpl8
Mm9::chr17:34092603..34092631,-p1@Gm10260
p1@Rps18
Mm9::chr1:72757833..72757870,+p1@Gm14173
p1@Rpl37a
Mm9::chr2:179992110..179992133,+p1@Gm5963
p1@Rps21
Mm9::chr4:3762742..3762749,-p1@Rps20
Mm9::chr7:148633544..148633554,+p1@Rplp2
Mm9::chr8:105389768..105389776,-p1@Gm8730
Mm9::chr9:120480615..120480639,+p1@Rpl14


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:0003735structural constituent of ribosome1.12158341245474e-09
GO:0005840ribosome1.12158341245474e-09
GO:0006412translation8.64843970314163e-08
GO:0030529ribonucleoprotein complex8.64843970314163e-08
GO:0009059macromolecule biosynthetic process4.38474181368054e-07
GO:0044249cellular biosynthetic process1.43704854847439e-06
GO:0009058biosynthetic process5.6054167329473e-06
GO:0043232intracellular non-membrane-bound organelle1.53399351754213e-05
GO:0043228non-membrane-bound organelle1.53399351754213e-05
GO:0032991macromolecular complex6.01455326125107e-05
GO:0044267cellular protein metabolic process0.000202127295949223
GO:0044260cellular macromolecule metabolic process0.000202127295949223
GO:0010467gene expression0.000202127295949223
GO:0005830cytosolic ribosome (sensu Eukaryota)0.000202127295949223
GO:0019538protein metabolic process0.000202848986937148
GO:0033279ribosomal subunit0.000296038486067175
GO:0044444cytoplasmic part0.000325187293197688
GO:0044445cytosolic part0.000606120219334295
GO:0005737cytoplasm0.00444001011736896
GO:0043170macromolecule metabolic process0.00444001011736896
GO:0005842cytosolic large ribosomal subunit (sensu Eukaryota)0.00492637565283138
GO:0005829cytosol0.00625365607878693
GO:0005843cytosolic small ribosomal subunit (sensu Eukaryota)0.00699304871529693
GO:0044238primary metabolic process0.00740623914031388
GO:0044237cellular metabolic process0.00740623914031388
GO:0019843rRNA binding0.0101529563835987
GO:0003723RNA binding0.0118358102948665
GO:0015935small ribosomal subunit0.0118358102948665
GO:0043229intracellular organelle0.0118358102948665
GO:0043226organelle0.0118358102948665
GO:0015934large ribosomal subunit0.0118358102948665
GO:0006414translational elongation0.0164570234412212
GO:0043284biopolymer biosynthetic process0.0225029067506786
GO:0044424intracellular part0.0257399456334986
GO:0005622intracellular0.0296374758110184



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}}}