MCL coexpression mm9:653

Phase1 CAGE Peaks

	Short description
Mm9::chr11:48613859..48613871,+	p1@Gnb2l1
Mm9::chr17:27772183..27772212,-	p1@Rps10
Mm9::chr1:63223693..63223719,+	p1@Eef1b2
Mm9::chr2:38860646..38860665,-	p1@Rpl35
Mm9::chr6:115758754..115758772,-	p1@Gm6251 p1@LOC100504872 p1@Rpl32
Mm9::chr7:106632155..106632164,-	p1@Rps3
Mm9::chr7:13507664..13507669,+	p1@Rps5
Mm9::chr7:148364406..148364417,-	p@chr7:148364406..148364417 -
Mm9::chr7:29766806..29766840,-	p1@Eif3k
Mm9::chr7:31270201..31270202,-	p@chr7:31270201..31270202 -
Mm9::chr7:52384095..52384117,-	p1@Rpl13a

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:0003735	structural constituent of ribosome	2.14227013399588e-07
GO:0006412	translation	2.14227013399588e-07
GO:0009059	macromolecule biosynthetic process	1.62782180421349e-06
GO:0044249	cellular biosynthetic process	6.19899724867458e-06
GO:0005840	ribosome	7.3803168895522e-06
GO:0030529	ribonucleoprotein complex	7.3803168895522e-06
GO:0032991	macromolecular complex	1.74087010791727e-05
GO:0009058	biosynthetic process	1.8565482700779e-05
GO:0033279	ribosomal subunit	2.34000542491042e-05
GO:0005737	cytoplasm	0.000524415379759629
GO:0015935	small ribosomal subunit	0.000673866954367357
GO:0044267	cellular protein metabolic process	0.00146823999856862
GO:0044260	cellular macromolecule metabolic process	0.00146823999856862
GO:0010467	gene expression	0.00146823999856862
GO:0019538	protein metabolic process	0.00156058478201128
GO:0008135	translation factor activity, nucleic acid binding	0.00697090241983966
GO:0044424	intracellular part	0.0112810809464035
GO:0005853	eukaryotic translation elongation factor 1 complex	0.0112810809464035
GO:0043232	intracellular non-membrane-bound organelle	0.0112810809464035
GO:0043228	non-membrane-bound organelle	0.0112810809464035
GO:0005622	intracellular	0.0127110624320008
GO:0043234	protein complex	0.0127110624320008
GO:0022613	ribonucleoprotein complex biogenesis and assembly	0.0127110624320008
GO:0005080	protein kinase C binding	0.0130239586364739
GO:0044444	cytoplasmic part	0.0192100984712154
GO:0007205	protein kinase C activation	0.0205895928338391
GO:0043170	macromolecule metabolic process	0.036778582067945
GO:0007200	G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)	0.0458200732709139
GO:0032147	activation of protein kinase activity	0.0458200732709139
GO:0003746	translation elongation factor activity	0.0458200732709139
GO:0015934	large ribosomal subunit	0.0458200732709139
GO:0005834	heterotrimeric G-protein complex	0.0458200732709139

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	4.65e-16	54
connective tissue cell	2.90e-15	46
mesenchymal cell	2.90e-15	46
hematopoietic cell	3.03e-15	32
hematopoietic oligopotent progenitor cell	3.03e-15	32
hematopoietic stem cell	3.03e-15	32
angioblastic mesenchymal cell	3.03e-15	32
hematopoietic multipotent progenitor cell	3.03e-15	32
stem cell	2.78e-13	97
somatic cell	1.60e-12	118
animal cell	2.89e-12	115
eukaryotic cell	2.89e-12	115
somatic stem cell	1.34e-11	91
multi fate stem cell	1.34e-11	91
hematopoietic lineage restricted progenitor cell	3.48e-11	25
nucleate cell	1.11e-08	16
lymphocyte	1.71e-08	13
common lymphoid progenitor	1.71e-08	13
leukocyte	1.90e-08	17
nongranular leukocyte	1.90e-08	17
lymphoid lineage restricted progenitor cell	2.22e-08	12
common myeloid progenitor	4.54e-08	19
T cell	7.43e-08	11
pro-T cell	7.43e-08	11
mature alpha-beta T cell	8.03e-07	9
alpha-beta T cell	8.03e-07	9
immature T cell	8.03e-07	9
mature T cell	8.03e-07	9
immature alpha-beta T cell	8.03e-07	9

Uber Anatomy

Ontology term	p-value	n
connective tissue	2.90e-15	46
hemolymphoid system	7.36e-08	48
immune system	7.36e-08	48
hematopoietic system	1.11e-07	45
blood island	1.11e-07	45
bone marrow	4.66e-07	16

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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