MCL coexpression mm9:3106

Phase1 CAGE Peaks

	Short description
Mm9::chr17:56749112..56749138,-	p1@2410015M20Rik
Mm9::chr2:174289564..174289600,-	p1@Atp5e
Mm9::chr9:44728781..44728808,-	p1@Atp5l p1@Gm10221

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:0005753	mitochondrial proton-transporting ATP synthase complex	1.92703815712046e-06
GO:0045259	proton-transporting ATP synthase complex	3.89995817512474e-05
GO:0008553	hydrogen-exporting ATPase activity, phosphorylative mechanism	3.89995817512474e-05
GO:0015985	energy coupled proton transport, down electrochemical gradient	3.89995817512474e-05
GO:0015986	ATP synthesis coupled proton transport	3.89995817512474e-05
GO:0006754	ATP biosynthetic process	3.89995817512474e-05
GO:0006753	nucleoside phosphate metabolic process	3.89995817512474e-05
GO:0046933	hydrogen ion transporting ATP synthase activity, rotational mechanism	3.89995817512474e-05
GO:0016469	proton-transporting two-sector ATPase complex	3.89995817512474e-05
GO:0046961	hydrogen ion transporting ATPase activity, rotational mechanism	3.89995817512474e-05
GO:0046034	ATP metabolic process	3.89995817512474e-05
GO:0044455	mitochondrial membrane part	3.89995817512474e-05
GO:0009206	purine ribonucleoside triphosphate biosynthetic process	3.89995817512474e-05
GO:0009201	ribonucleoside triphosphate biosynthetic process	3.89995817512474e-05
GO:0009145	purine nucleoside triphosphate biosynthetic process	3.89995817512474e-05
GO:0019829	cation-transporting ATPase activity	3.89995817512474e-05
GO:0009142	nucleoside triphosphate biosynthetic process	3.89995817512474e-05
GO:0009205	purine ribonucleoside triphosphate metabolic process	3.89995817512474e-05
GO:0009199	ribonucleoside triphosphate metabolic process	3.89995817512474e-05
GO:0009144	purine nucleoside triphosphate metabolic process	3.89995817512474e-05
GO:0006119	oxidative phosphorylation	3.89995817512474e-05
GO:0015992	proton transport	3.99650956933244e-05
GO:0006752	group transfer coenzyme metabolic process	3.99650956933244e-05
GO:0009141	nucleoside triphosphate metabolic process	4.08383855605144e-05
GO:0009152	purine ribonucleotide biosynthetic process	4.08383855605144e-05
GO:0006818	hydrogen transport	4.08383855605144e-05
GO:0015662	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	4.19819027086957e-05
GO:0009260	ribonucleotide biosynthetic process	4.19819027086957e-05
GO:0009150	purine ribonucleotide metabolic process	4.45359929645617e-05
GO:0006164	purine nucleotide biosynthetic process	4.45359929645617e-05
GO:0009259	ribonucleotide metabolic process	5.00408295639346e-05
GO:0006163	purine nucleotide metabolic process	5.42180214831497e-05
GO:0042625	ATPase activity, coupled to transmembrane movement of ions	6.30667033239424e-05
GO:0009108	coenzyme biosynthetic process	6.42912828302052e-05
GO:0015078	hydrogen ion transmembrane transporter activity	7.51544881276979e-05
GO:0015077	monovalent inorganic cation transmembrane transporter activity	7.91648107790027e-05
GO:0051188	cofactor biosynthetic process	7.91648107790027e-05
GO:0042626	ATPase activity, coupled to transmembrane movement of substances	0.000107111204233279
GO:0043492	ATPase activity, coupled to movement of substances	0.000107111204233279
GO:0016820	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	0.000107111204233279
GO:0009165	nucleotide biosynthetic process	0.000115637956404115
GO:0015399	primary active transmembrane transporter activity	0.000121418342178877
GO:0015405	P-P-bond-hydrolysis-driven transmembrane transporter activity	0.000121418342178877
GO:0022890	inorganic cation transmembrane transporter activity	0.000124308559908187
GO:0006732	coenzyme metabolic process	0.000179300194752519
GO:0009117	nucleotide metabolic process	0.000227474286807915
GO:0051186	cofactor metabolic process	0.000237681706315475
GO:0055086	nucleobase, nucleoside and nucleotide metabolic process	0.000250528342635084
GO:0042623	ATPase activity, coupled	0.000330349398363507
GO:0005743	mitochondrial inner membrane	0.000335381720865245
GO:0019866	organelle inner membrane	0.000355217366962539
GO:0031966	mitochondrial membrane	0.000378341824847984
GO:0016887	ATPase activity	0.000411222670887404
GO:0005740	mitochondrial envelope	0.000425589945589233
GO:0015672	monovalent inorganic cation transport	0.000475978424808754
GO:0022804	active transmembrane transporter activity	0.000560869526782956
GO:0044429	mitochondrial part	0.000560869526782956
GO:0031975	envelope	0.000763466388520182
GO:0031967	organelle envelope	0.000763466388520182
GO:0006091	generation of precursor metabolites and energy	0.000893246420430571
GO:0017111	nucleoside-triphosphatase activity	0.00104497066405382
GO:0008324	cation transmembrane transporter activity	0.00107020604678131
GO:0006812	cation transport	0.00107020604678131
GO:0045261	proton-transporting ATP synthase complex, catalytic core F(1)	0.00107020604678131
GO:0016462	pyrophosphatase activity	0.00107020604678131
GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.00107020604678131
GO:0016817	hydrolase activity, acting on acid anhydrides	0.00107020604678131
GO:0033178	proton-transporting two-sector ATPase complex, catalytic domain	0.00120669429071098
GO:0031090	organelle membrane	0.00126589650069274
GO:0015075	ion transmembrane transporter activity	0.00176085405699926
GO:0016310	phosphorylation	0.00192666858815882
GO:0045263	proton-transporting ATP synthase complex, coupling factor F(o)	0.00192666858815882
GO:0033177	proton-transporting two-sector ATPase complex, proton-transporting domain	0.00192666858815882
GO:0006811	ion transport	0.00207535065240226
GO:0022891	substrate-specific transmembrane transporter activity	0.00218004542022933
GO:0006793	phosphorus metabolic process	0.00254745267999148
GO:0006796	phosphate metabolic process	0.00254745267999148
GO:0022857	transmembrane transporter activity	0.0028127427760797
GO:0044249	cellular biosynthetic process	0.00287201864075143
GO:0022892	substrate-specific transporter activity	0.00329174249201621
GO:0005739	mitochondrion	0.00335241197753541
GO:0009058	biosynthetic process	0.00506789884903883
GO:0043234	protein complex	0.00938678860195132
GO:0032991	macromolecular complex	0.0147258061915926
GO:0016787	hydrolase activity	0.0155938648198645
GO:0006810	transport	0.0190493771834874
GO:0044446	intracellular organelle part	0.0192146507517743
GO:0044422	organelle part	0.0192146507517743
GO:0051234	establishment of localization	0.0194150176935593
GO:0051179	localization	0.0244681815924056
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0302476379639021
GO:0044444	cytoplasmic part	0.0326350405189098
GO:0046872	metal ion binding	0.0405468927473332
GO:0043167	ion binding	0.0417952230836968

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
somatic cell	3.96e-17	118
animal cell	4.41e-16	115
eukaryotic cell	4.41e-16	115
somatic stem cell	8.40e-12	91
multi fate stem cell	8.40e-12	91
embryonic cell	3.51e-10	70
stem cell	6.37e-10	97
motile cell	1.34e-09	54
epithelial cell	1.43e-07	25
connective tissue cell	1.85e-07	46
mesenchymal cell	1.85e-07	46

Uber Anatomy

Ontology term	p-value	n
connective tissue	1.85e-07	46
mucosa	2.02e-07	15

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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