MCL coexpression mm9:1610

Phase1 CAGE Peaks

	Short description
Mm9::chr11:98698076..98698085,+	p3@Rapgefl1
Mm9::chr11:98698089..98698145,+	p1@Rapgefl1
Mm9::chr11:98698150..98698173,+	p2@Rapgefl1
Mm9::chr11:98698181..98698192,+	p4@Rapgefl1
Mm9::chr2:80421152..80421177,-	p4@Nckap1

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:0032879	regulation of localization	0.0013477236618638
GO:0045175	basal protein localization	0.0013477236618638
GO:0030952	establishment and/or maintenance of cytoskeleton polarity	0.0013477236618638
GO:0030950	establishment and/or maintenance of actin cytoskeleton polarity	0.0013477236618638
GO:0032880	regulation of protein localization	0.0013477236618638
GO:0007354	zygotic determination of anterior/posterior axis, embryo	0.00168465457732975
GO:0007509	mesoderm migration	0.00168465457732975
GO:0008078	mesodermal cell migration	0.00168465457732975
GO:0048617	embryonic foregut morphogenesis	0.00210581822166219
GO:0048570	notochord morphogenesis	0.00210581822166219
GO:0010172	embryonic body morphogenesis	0.00210581822166219
GO:0008595	determination of anterior/posterior axis, embryo	0.00210581822166219
GO:0000578	embryonic axis specification	0.00210581822166219
GO:0007351	tripartite regional subdivision	0.00210581822166219
GO:0007440	foregut morphogenesis	0.00210581822166219
GO:0010171	body morphogenesis	0.00210581822166219
GO:0048613	embryonic ectodermal gut morphogenesis	0.00212798472925864
GO:0048611	embryonic ectodermal gut development	0.00212798472925864
GO:0007350	blastoderm segmentation	0.00212798472925864
GO:0045176	apical protein localization	0.00216598445656683
GO:0030903	notochord development	0.00216598445656683
GO:0042074	cell migration involved in gastrulation	0.00216598445656683
GO:0050821	protein stabilization	0.00216598445656683
GO:0048558	embryonic gut morphogenesis	0.00216598445656683
GO:0031647	regulation of protein stability	0.00216598445656683
GO:0048557	embryonic digestive tract morphogenesis	0.00216598445656683
GO:0008105	asymmetric protein localization	0.00216598445656683
GO:0048340	paraxial mesoderm morphogenesis	0.00216598445656683
GO:0007439	ectodermal gut development	0.00224620610310634
GO:0048567	ectodermal gut morphogenesis	0.00224620610310634
GO:0048547	gut morphogenesis	0.00231640004382841
GO:0009948	anterior/posterior axis specification	0.00231640004382841
GO:0048339	paraxial mesoderm development	0.00243338994503187
GO:0035050	embryonic heart tube development	0.00243338994503187
GO:0048566	embryonic gut development	0.00243338994503187
GO:0048546	digestive tract morphogenesis	0.00243338994503187
GO:0030032	lamellipodium biogenesis	0.00273187228756176
GO:0009798	axis specification	0.00293734644252367
GO:0007492	endoderm development	0.00293734644252367
GO:0048565	gut development	0.00303237823919356
GO:0048562	embryonic organ morphogenesis	0.00345148742672437
GO:0001707	mesoderm formation	0.00401108232697561
GO:0048332	mesoderm morphogenesis	0.00407451339633243
GO:0001704	formation of primary germ layer	0.00413506123526394
GO:0001756	somitogenesis	0.00494165342683394
GO:0048568	embryonic organ development	0.00542019298793051
GO:0009880	embryonic pattern specification	0.00573499430580342
GO:0035282	segmentation	0.00589629102065414
GO:0001843	neural tube closure	0.00591348137348403
GO:0014020	primary neural tube formation	0.00606475647838711
GO:0030031	cell projection biogenesis	0.00623004334257796
GO:0030027	lamellipodium	0.00623004334257796
GO:0007498	mesoderm development	0.00623004334257796
GO:0001841	neural tube formation	0.00673861830931902
GO:0001839	neural plate morphogenesis	0.00673861830931902
GO:0001840	neural plate development	0.00673861830931902
GO:0001838	embryonic epithelial tube formation	0.00673861830931902
GO:0007369	gastrulation	0.00720335060651343
GO:0021915	neural tube development	0.00742390152721586
GO:0016331	morphogenesis of embryonic epithelium	0.00819865227633814
GO:0048729	tissue morphogenesis	0.00826024179852008
GO:0031252	leading edge	0.00826024179852008
GO:0009952	anterior/posterior pattern formation	0.0100544463662855
GO:0001701	in utero embryonic development	0.0125296184188901
GO:0002009	morphogenesis of an epithelium	0.0127515392622498
GO:0003002	regionalization	0.0148853061161077
GO:0035239	tube morphogenesis	0.0148853061161077
GO:0030036	actin cytoskeleton organization and biogenesis	0.015260988524046
GO:0030029	actin filament-based process	0.016114087261415
GO:0007507	heart development	0.0163652158940605
GO:0048646	anatomical structure formation	0.0176532817680752
GO:0048598	embryonic morphogenesis	0.0185542778105907
GO:0035295	tube development	0.0185542778105907
GO:0016337	cell-cell adhesion	0.0189409811937616
GO:0043009	chordate embryonic development	0.01985646195146
GO:0009792	embryonic development ending in birth or egg hatching	0.0198611908064139
GO:0007389	pattern specification process	0.02047839849845
GO:0032990	cell part morphogenesis	0.0224901386073522
GO:0030030	cell projection organization and biogenesis	0.0224901386073522
GO:0048858	cell projection morphogenesis	0.0224901386073522
GO:0016477	cell migration	0.0227116394869641
GO:0009888	tissue development	0.0230920944502274
GO:0051674	localization of cell	0.0259918134788019
GO:0006928	cell motility	0.0259918134788019
GO:0042995	cell projection	0.0288571419363779
GO:0009790	embryonic development	0.0346225561409839
GO:0007010	cytoskeleton organization and biogenesis	0.0346225561409839
GO:0000902	cell morphogenesis	0.034828813733559
GO:0032989	cellular structure morphogenesis	0.034828813733559
GO:0009887	organ morphogenesis	0.0372870213115652
GO:0022610	biological adhesion	0.0430685604986911
GO:0007155	cell adhesion	0.0430685604986911
GO:0065008	regulation of biological quality	0.0441995394482215
GO:0007399	nervous system development	0.0443028310123314

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
ecto-epithelium	1.39e-16	73
regional part of nervous system	8.77e-16	54
ectoderm-derived structure	5.66e-15	95
ectoderm	5.66e-15	95
presumptive ectoderm	5.66e-15	95
neural tube	1.24e-14	52
neural rod	1.24e-14	52
future spinal cord	1.24e-14	52
neural keel	1.24e-14	52
neurectoderm	5.75e-14	64
neural plate	5.75e-14	64
presumptive neural plate	5.75e-14	64
gray matter	1.71e-12	34
central nervous system	2.25e-12	73
brain	2.36e-12	47
future brain	2.36e-12	47
regional part of brain	8.53e-12	46
pre-chordal neural plate	1.89e-11	49
nervous system	1.94e-11	75
anterior neural tube	5.87e-11	40
regional part of forebrain	2.19e-10	39
forebrain	2.19e-10	39
future forebrain	2.19e-10	39
brain grey matter	4.79e-10	29
regional part of telencephalon	4.79e-10	29
telencephalon	4.79e-10	29
occipital lobe	6.91e-08	10
visual cortex	6.91e-08	10
neocortex	6.91e-08	10
structure with developmental contribution from neural crest	3.10e-07	92
cerebral cortex	3.93e-07	21
cerebral hemisphere	3.93e-07	21
pallium	3.93e-07	21

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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