MCL coexpression mm9:565

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

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GO ID	GO name	FDR corrected p-value
GO:0003723	RNA binding	2.7068334868066e-07
GO:0030529	ribonucleoprotein complex	5.39890992168826e-06
GO:0003735	structural constituent of ribosome	0.000344208073032711
GO:0005840	ribosome	0.000344208073032711
GO:0008380	RNA splicing	0.000344208073032711
GO:0019843	rRNA binding	0.000344208073032711
GO:0010467	gene expression	0.000477639320630132
GO:0006397	mRNA processing	0.000477639320630132
GO:0003676	nucleic acid binding	0.000477639320630132
GO:0016071	mRNA metabolic process	0.000581313419145666
GO:0005830	cytosolic ribosome (sensu Eukaryota)	0.000833266362289732
GO:0043170	macromolecule metabolic process	0.000973998213762906
GO:0006396	RNA processing	0.0010808190559382
GO:0033279	ribosomal subunit	0.0010808190559382
GO:0032991	macromolecular complex	0.0010808190559382
GO:0006412	translation	0.0016737208799554
GO:0044238	primary metabolic process	0.00181684662869837
GO:0044237	cellular metabolic process	0.00181684662869837
GO:0044445	cytosolic part	0.00185370701054734
GO:0043232	intracellular non-membrane-bound organelle	0.00340499698575161
GO:0043228	non-membrane-bound organelle	0.00340499698575161
GO:0005681	spliceosome	0.00340499698575161
GO:0043229	intracellular organelle	0.00340499698575161
GO:0043226	organelle	0.00340499698575161
GO:0009059	macromolecule biosynthetic process	0.00351279412926422
GO:0044249	cellular biosynthetic process	0.00741740606131899
GO:0005842	cytosolic large ribosomal subunit (sensu Eukaryota)	0.0082982174934516
GO:0044424	intracellular part	0.0102785707572212
GO:0031202	RNA splicing factor activity, transesterification mechanism	0.0102961576755971
GO:0005843	cytosolic small ribosomal subunit (sensu Eukaryota)	0.0116079617877804
GO:0005622	intracellular	0.0116578670353437
GO:0005732	small nucleolar ribonucleoprotein complex	0.0116578670353437
GO:0044446	intracellular organelle part	0.0121640679171278
GO:0044422	organelle part	0.0121640679171278
GO:0005829	cytosol	0.012466216839066
GO:0009058	biosynthetic process	0.0126317215802539
GO:0015935	small ribosomal subunit	0.0201153190906232
GO:0015934	large ribosomal subunit	0.0208848363598456
GO:0044452	nucleolar part	0.0228779551165436
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.024978941652727

Relative expression of the co-expression cluster over median <br>Analyst:

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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>

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Cell Type

Ontology term	p-value	n
motile cell	5.41e-14	54
stem cell	1.23e-13	97
somatic cell	2.02e-13	118
hematopoietic cell	1.08e-12	32
hematopoietic oligopotent progenitor cell	1.08e-12	32
hematopoietic stem cell	1.08e-12	32
angioblastic mesenchymal cell	1.08e-12	32
hematopoietic multipotent progenitor cell	1.08e-12	32
animal cell	1.11e-12	115
eukaryotic cell	1.11e-12	115
connective tissue cell	2.91e-12	46
mesenchymal cell	2.91e-12	46
somatic stem cell	1.97e-11	91
multi fate stem cell	1.97e-11	91
hematopoietic lineage restricted progenitor cell	1.78e-08	25
common myeloid progenitor	2.39e-08	19
nucleate cell	7.97e-07	16

Uber Anatomy

Ontology term	p-value	n
connective tissue	2.91e-12	46
hemolymphoid system	3.16e-08	48
immune system	3.16e-08	48
hematopoietic system	3.35e-08	45
blood island	3.35e-08	45

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

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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