MCL coexpression mm9:248

Phase1 CAGE Peaks

	Short description
Mm9::chr10:81091291..81091312,+	p7@Ankrd24
Mm9::chr11:75751179..75751224,-	p2@Rph3al
Mm9::chr11:97213662..97213677,-	p1@Gpr179
Mm9::chr12:74040716..74040745,+	p3@Six6
Mm9::chr13:98517328..98517339,-	p1@ENSMUST00000123535
Mm9::chr13:98517354..98517369,-	p1@ENSMUST00000144993 p1@uc007rof.1 p1@uc007rog.1
Mm9::chr14:18814327..18814334,+	p10@Thrb
Mm9::chr14:18814381..18814390,+	p7@Thrb
Mm9::chr14:18814402..18814414,+	p@chr14:18814402..18814414 +
Mm9::chr16:65520838..65520853,+	p1@Pou1f1
Mm9::chr16:65523642..65523649,+	p3@Pou1f1
Mm9::chr17:52741567..52741609,+	p2@Kcnh8
Mm9::chr17:52741610..52741620,+	p6@Kcnh8
Mm9::chr17:56381175..56381209,+	p1@uc008dbj.1
Mm9::chr1:167090803..167090816,-	p1@Tbx19
Mm9::chr1:167090905..167090912,-	p2@Tbx19
Mm9::chr1:167090920..167090924,-	p3@Tbx19
Mm9::chr1:74947550..74947553,-	p@chr1:74947550..74947553 -
Mm9::chr1:75438947..75438964,+	p@chr1:75438947..75438964 +
Mm9::chr2:157366618..157366640,-	p@chr2:157366618..157366640 -
Mm9::chr2:174153248..174153264,+	p2@Gnas
Mm9::chr2:174154863..174154912,+	p@chr2:174154863..174154912 +
Mm9::chr2:26062195..26062206,+	p@chr2:26062195..26062206 +
Mm9::chr2:26063801..26063813,-	p2@Lhx3
Mm9::chr3:102586593..102586598,-	p1@Tshb
Mm9::chr3:102586631..102586638,-	p2@Tshb
Mm9::chr5:117863775..117863794,+	p4@Ksr2
Mm9::chr5:117863819..117863831,+	p8@Ksr2
Mm9::chr6:99619574..99619589,-	p@chr6:99619574..99619589 -
Mm9::chr7:52910997..52911006,-	p@chr7:52910997..52911006 -
Mm9::chr7:52911010..52911020,-	p@chr7:52911010..52911020 -
Mm9::chr7:52911023..52911037,-	p@chr7:52911023..52911037 -
Mm9::chr7:86033242..86033245,+	p1@Mir7-2
Mm9::chrX:47150877..47150932,-	p1@Igsf1

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:0050794	regulation of cellular process	0.00590710375771117
GO:0050789	regulation of biological process	0.00590710375771117
GO:0021983	pituitary gland development	0.00590710375771117
GO:0021536	diencephalon development	0.00590710375771117
GO:0065007	biological regulation	0.00590710375771117
GO:0003700	transcription factor activity	0.00590710375771117
GO:0043565	sequence-specific DNA binding	0.00642647008083665
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.0112185472859472
GO:0007417	central nervous system development	0.0112364024618341
GO:0045893	positive regulation of transcription, DNA-dependent	0.0112364024618341
GO:0035270	endocrine system development	0.0112364024618341
GO:0006355	regulation of transcription, DNA-dependent	0.0112364024618341
GO:0006351	transcription, DNA-dependent	0.0112364024618341
GO:0032774	RNA biosynthetic process	0.0112364024618341
GO:0045449	regulation of transcription	0.0112364024618341
GO:0032962	positive regulation of inositol trisphosphate biosynthetic process	0.0112364024618341
GO:0040032	post-embryonic body morphogenesis	0.0112364024618341
GO:0032958	inositol phosphate biosynthetic process	0.0112364024618341
GO:0032960	regulation of inositol trisphosphate biosynthetic process	0.0112364024618341
GO:0032959	inositol trisphosphate biosynthetic process	0.0112364024618341
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0112364024618341
GO:0045941	positive regulation of transcription	0.0112364024618341
GO:0006350	transcription	0.0112364024618341
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0112364024618341
GO:0010468	regulation of gene expression	0.0124911522910315
GO:0048522	positive regulation of cellular process	0.0124911522910315
GO:0048732	gland development	0.0128309556366026
GO:0031323	regulation of cellular metabolic process	0.0128309556366026
GO:0009966	regulation of signal transduction	0.0128309556366026
GO:0007275	multicellular organismal development	0.0128309556366026
GO:0021526	medial motor column neuron differentiation	0.0128309556366026
GO:0006021	inositol biosynthetic process	0.0128309556366026
GO:0043647	inositol phosphate metabolic process	0.0128309556366026
GO:0032957	inositol trisphosphate metabolic process	0.0128309556366026
GO:0060133	somatotropin secreting cell development	0.0128309556366026
GO:0019222	regulation of metabolic process	0.0128309556366026
GO:0031325	positive regulation of cellular metabolic process	0.0128309556366026
GO:0016070	RNA metabolic process	0.0138703516458522
GO:0009893	positive regulation of metabolic process	0.0138703516458522
GO:0048518	positive regulation of biological process	0.0138703516458522
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0147857581625108
GO:0030900	forebrain development	0.0148460829282235
GO:0045165	cell fate commitment	0.0148460829282235
GO:0060126	somatotropin secreting cell differentiation	0.0148460829282235
GO:0021523	somatic motor neuron differentiation	0.0148460829282235
GO:0004887	thyroid hormone receptor activity	0.0148460829282235
GO:0043567	regulation of insulin-like growth factor receptor signaling pathway	0.0148460829282235
GO:0005667	transcription factor complex	0.0164725702998602
GO:0006366	transcription from RNA polymerase II promoter	0.0165816177594602
GO:0017158	regulation of calcium ion-dependent exocytosis	0.0172982678649299
GO:0045913	positive regulation of carbohydrate metabolic process	0.0172982678649299
GO:0045672	positive regulation of osteoclast differentiation	0.0172982678649299
GO:0043255	regulation of carbohydrate biosynthetic process	0.0172982678649299
GO:0048731	system development	0.0172982678649299
GO:0002521	leukocyte differentiation	0.0194933648973085
GO:0000155	two-component sensor activity	0.0202358494253453
GO:0010171	body morphogenesis	0.0202358494253453
GO:0019899	enzyme binding	0.0202358494253453
GO:0005515	protein binding	0.0211253157868178
GO:0010467	gene expression	0.0211253157868178
GO:0021984	adenohypophysis development	0.0211253157868178
GO:0006109	regulation of carbohydrate metabolic process	0.0211253157868178
GO:0021522	spinal cord motor neuron differentiation	0.0211253157868178
GO:0048701	embryonic cranial skeleton morphogenesis	0.0211253157868178
GO:0002763	positive regulation of myeloid leukocyte differentiation	0.0211253157868178
GO:0021517	ventral spinal cord development	0.0211253157868178
GO:0044451	nucleoplasm part	0.0221721459452071
GO:0003677	DNA binding	0.0222761548361811
GO:0045744	negative regulation of G-protein coupled receptor protein signaling pathway	0.0222761548361811
GO:0008340	determination of adult life span	0.0222761548361811
GO:0045669	positive regulation of osteoblast differentiation	0.0222761548361811
GO:0007191	dopamine receptor, adenylate cyclase activating pathway	0.0222761548361811
GO:0021515	cell differentiation in spinal cord	0.0222761548361811
GO:0005654	nucleoplasm	0.0228968227183673
GO:0048856	anatomical structure development	0.0238193328862061
GO:0032502	developmental process	0.0238193328862061
GO:0009886	post-embryonic morphogenesis	0.0238193328862061
GO:0001958	endochondral ossification	0.0238193328862061
GO:0000160	two-component signal transduction system (phosphorelay)	0.0254819134731916
GO:0008045	motor axon guidance	0.0254819134731916
GO:0048009	insulin-like growth factor receptor signaling pathway	0.0254819134731916
GO:0006020	inositol metabolic process	0.0254819134731916
GO:0007420	brain development	0.026621305295221
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0269882116123206
GO:0004673	protein histidine kinase activity	0.0269882116123206
GO:0010259	multicellular organismal aging	0.0269882116123206
GO:0007399	nervous system development	0.0275084067601556
GO:0048704	embryonic skeletal morphogenesis	0.029003590036877
GO:0031981	nuclear lumen	0.0307770382413672
GO:0045667	regulation of osteoblast differentiation	0.0307770382413672
GO:0030097	hemopoiesis	0.0307770382413672
GO:0048513	organ development	0.0320697550064008
GO:0045639	positive regulation of myeloid cell differentiation	0.0320697550064008
GO:0021510	spinal cord development	0.0320697550064008
GO:0035116	embryonic hindlimb morphogenesis	0.0338069629820718
GO:0016775	phosphotransferase activity, nitrogenous group as acceptor	0.0338069629820718
GO:0048534	hemopoietic or lymphoid organ development	0.0354718434540506
GO:0045670	regulation of osteoclast differentiation	0.0354718434540506
GO:0048706	embryonic skeletal development	0.0374431685213606
GO:0043233	organelle lumen	0.0377593851977914
GO:0031974	membrane-enclosed lumen	0.0377593851977914
GO:0002520	immune system development	0.0387961186000068
GO:0007212	dopamine receptor signaling pathway	0.0393181365829893
GO:0008277	regulation of G-protein coupled receptor protein signaling pathway	0.0393181365829893
GO:0002761	regulation of myeloid leukocyte differentiation	0.0393181365829893
GO:0017157	regulation of exocytosis	0.0393181365829893
GO:0017137	Rab GTPase binding	0.0411022280316904
GO:0017156	calcium ion-dependent exocytosis	0.0424588572380158
GO:0030316	osteoclast differentiation	0.0424588572380158
GO:0040018	positive regulation of multicellular organism growth	0.0462383828423891
GO:0043234	protein complex	0.0462383828423891
GO:0048705	skeletal morphogenesis	0.0462383828423891
GO:0035137	hindlimb morphogenesis	0.0462383828423891
GO:0001708	cell fate specification	0.0462383828423891
GO:0019319	hexose biosynthetic process	0.0462383828423891
GO:0046165	alcohol biosynthetic process	0.0493702570149621
GO:0046364	monosaccharide biosynthetic process	0.0493702570149621

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
pituitary gland	4.51e-70	8
gland of diencephalon	4.51e-70	8
neuroendocrine gland	4.51e-70	8
diencephalon	4.68e-56	10
future diencephalon	4.68e-56	10
regional part of forebrain	3.32e-14	39
forebrain	3.32e-14	39
future forebrain	3.32e-14	39
anterior neural tube	7.68e-14	40
regional part of brain	5.50e-12	46
brain	1.01e-11	47
future brain	1.01e-11	47
pre-chordal neural plate	3.16e-11	49
neural tube	1.48e-10	52
neural rod	1.48e-10	52
future spinal cord	1.48e-10	52
neural keel	1.48e-10	52
regional part of nervous system	3.79e-10	54
endocrine gland	4.35e-09	60
neurectoderm	1.73e-08	64
neural plate	1.73e-08	64
presumptive neural plate	1.73e-08	64
gland	2.37e-08	65
endocrine system	1.72e-07	72
ecto-epithelium	2.22e-07	73
central nervous system	2.22e-07	73
nervous system	3.61e-07	75

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)
{{{tfbs_overrepresentation_jaspar}}}