UBERON:0003902

Name:	retinal neural layer
Namespace:	FANTOM
Definition:	"The layer of nerve cells in the retina[XAO]. The part of the retina that contains neurons and photoreceptor cells[GO]." [GO:0003407, XAO:0003216]
Xrefs:	Expandlinks: AAO:0011095 BTO:0000929 EHDAA2:0001253 EHDAA:4763 EMAPA:17171 EMAPA:18590 FMA:58628 MA:0000277 ncithesaurus:Neural_Retina TAO:0000046 VHOG:0000535 XAO:0003216 ZFA:0000046
Synonyms:	"neural layer of retina" EXACT [FMA:58628] "neural retina" EXACT [XAO:0003216, ZFA:0000046] "neural retinal epithelium" RELATED [MA:000027] "neuroretina" EXACT [ZFA:0000046] "stratum nervosum (retina)" EXACT [FMA:58628]
Comments:	editor note - we follow ontologies such as FMA and ZFA in first dividing into pigmented and neural layers; the neural layers are further divided into 9 layers. Note that in MA this class is a leaf node.
Subset:	vertebrate_core

Ontology association<br>Each term has an is_a parent in the Uberon Ontology, which has a linkage to an another entity and FANTOM5 samples.Libraries were grouped into mutually exclusive facets according to the FANTOM5 sample ontology mapping to UBERON ontologies.<br><br>link to ontology dataset<br>data

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Parents

is_a:	UBERON:0001781(layer of retina)
develops_from:	UBERON:0005425(presumptive neural retina)

Children

develops from:	UBERON:0000941 (cranial nerve II)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)

FF samples<br>It includes FANTOM5 samples that overlay the Uberon ontology

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Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0003902 (retinal neural layer), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

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P-value	FFCP	Short description

P-value	FFCP	Short description
5.42e-195	FFCP PHASE1:Hg19::chr12:57628762..57628773,-	p@chr12:57628762..57628773, -
5.42e-195	FFCP PHASE2:Hg19::chr12:57628762..57628773,-	p@chr12:57628762..57628773, -
9.37e-99	FFCP PHASE1:Hg19::chr5:151258901..151258902,+	p@chr5:151258901..151258902, +
9.37e-99	FFCP PHASE1:Hg19::chr1:62928606..62928608,+	p@chr1:62928606..62928608, +
9.37e-99	FFCP PHASE2:Hg19::chr5:151258901..151258902,+	p@chr5:151258901..151258902, +
9.37e-99	FFCP PHASE2:Hg19::chr18:74702556..74702558,-	p@chr18:74702556..74702558, -
9.37e-99	FFCP PHASE1:Hg19::chr5:149250331..149250335,-	p@chr5:149250331..149250335, -
9.37e-99	FFCP PHASE2:Hg19::chr1:62928606..62928608,+	p@chr1:62928606..62928608, +
9.37e-99	FFCP PHASE2:Hg19::chr5:149250331..149250335,-	p@chr5:149250331..149250335, -
9.37e-99	FFCP PHASE1:Hg19::chr2:188432107..188432111,+	p@chr2:188432107..188432111, +
9.37e-99	FFCP PHASE2:Hg19::chr2:188432107..188432111,+	p@chr2:188432107..188432111, +
9.37e-99	FFCP PHASE1:Hg19::chr7:15056365..15056368,-	p@chr7:15056365..15056368, -
9.37e-99	FFCP PHASE1:Hg19::chr18:74702556..74702558,-	p@chr18:74702556..74702558, -
9.37e-99	FFCP PHASE2:Hg19::chr7:15056365..15056368,-	p@chr7:15056365..15056368, -
9.37e-99	FFCP PHASE2:Hg19::chr14:105807545..105807554,+	p@chr14:105807545..105807554, +
9.37e-99	FFCP PHASE1:Hg19::chr14:105807545..105807554,+	p@chr14:105807545..105807554, +
9.37e-99	FFCP PHASE1:Hg19::chr2:60133192..60133194,-	p@chr2:60133192..60133194, -
9.37e-99	FFCP PHASE1:Hg19::chr18:25161980..25161984,-	p@chr18:25161980..25161984, -
9.37e-99	FFCP PHASE2:Hg19::chr2:60133192..60133194,-	p@chr2:60133192..60133194, -
9.37e-99	FFCP PHASE2:Hg19::chr18:25161980..25161984,-	p@chr18:25161980..25161984, -
9.37e-99	FFCP PHASE1:Hg19::chr4:127394496..127394500,-	p@chr4:127394496..127394500, -
9.37e-99	FFCP PHASE2:Hg19::chr4:127394496..127394500,-	p@chr4:127394496..127394500, -
2.55e-98	FFCP PHASE2:Hg19::chr8:90420477..90420478,-	p@chr8:90420477..90420478, -
2.55e-98	FFCP PHASE2:Hg19::chr9:19514976..19514978,-	p@chr9:19514976..19514978, -
2.55e-98	FFCP PHASE1:Hg19::chr8:22000519..22000525,-	p@chr8:22000519..22000525, -
2.55e-98	FFCP PHASE1:Hg19::chr1:218214846..218214850,-	p@chr1:218214846..218214850, -
2.55e-98	FFCP PHASE1:Hg19::chr2:133035182..133035195,-	p@chr2:133035182..133035195, -
2.55e-98	FFCP PHASE2:Hg19::chr1:1413227..1413230,+	p2@ATAD3B
2.55e-98	FFCP PHASE2:Hg19::chr2:134472430..134472432,+	p@chr2:134472430..134472432, +
2.55e-98	FFCP PHASE1:Hg19::chr22:30951607..30951613,-	p@chr22:30951607..30951613, -
2.55e-98	FFCP PHASE2:Hg19::chr6:121951983..121951986,+	p@chr6:121951983..121951986, +
2.55e-98	FFCP PHASE1:Hg19::chr16:70563415..70563420,+	p4@SNORD111B
2.55e-98	FFCP PHASE2:Hg19::chr8:22000519..22000525,-	p@chr8:22000519..22000525, -
2.55e-98	FFCP PHASE2:Hg19::chr1:218214846..218214850,-	p@chr1:218214846..218214850, -
2.55e-98	FFCP PHASE1:Hg19::chr5:111570472..111570478,-	p@chr5:111570472..111570478, -
2.55e-98	FFCP PHASE1:Hg19::chr15:36402459..36402465,-	p@chr15:36402459..36402465, -
2.55e-98	FFCP PHASE2:Hg19::chr2:133035182..133035195,-	p@chr2:133035182..133035195, -
2.55e-98	FFCP PHASE2:Hg19::chr14:76447439..76447452,-	p18@TGFB3
2.55e-98	FFCP PHASE2:Hg19::chr22:30951607..30951613,-	p@chr22:30951607..30951613, -
2.55e-98	FFCP PHASE1:Hg19::chr7:95704857..95704906,+	p@chr7:95704857..95704906, +
2.55e-98	FFCP PHASE2:Hg19::chr7:95704857..95704906,+	p@chr7:95704857..95704906, +
2.55e-98	FFCP PHASE1:Hg19::chr2:29484252..29484254,-	p@chr2:29484252..29484254, -
2.55e-98	FFCP PHASE1:Hg19::chr6:168558338..168558388,-	p@chr6:168558338..168558388, -
2.55e-98	FFCP PHASE2:Hg19::chr5:111570472..111570478,-	p@chr5:111570472..111570478, -
2.55e-98	FFCP PHASE1:Hg19::chr5:1414652..1414695,+	p@chr5:1414652..1414695, +
2.55e-98	FFCP PHASE1:Hg19::chr16:66170755..66170759,-	p@chr16:66170755..66170759, -
2.55e-98	FFCP PHASE2:Hg19::chr11:20791058..20791067,+	p10@NELL1
2.55e-98	FFCP PHASE1:Hg19::chr10:118927879..118927891,+	p@chr10:118927879..118927891, +
2.55e-98	FFCP PHASE1:Hg19::chr12:59444098..59444102,+	p@chr12:59444098..59444102, +
2.55e-98	FFCP PHASE2:Hg19::chr12:72875355..72875358,+	p@chr12:72875355..72875358, +
2.55e-98	FFCP PHASE2:Hg19::chr2:29484252..29484254,-	p@chr2:29484252..29484254, -
2.55e-98	FFCP PHASE1:Hg19::chr14:76447439..76447452,-	p18@TGFB3
2.55e-98	FFCP PHASE1:Hg19::chr8:126163123..126163134,+	p@chr8:126163123..126163134, +
2.55e-98	FFCP PHASE2:Hg19::chr16:70563415..70563420,+	p4@SNORD111B
2.55e-98	FFCP PHASE1:Hg19::chr4:188536760..188536764,-	p@chr4:188536760..188536764, -
2.55e-98	FFCP PHASE2:Hg19::chr6:168558338..168558388,-	p@chr6:168558338..168558388, -
2.55e-98	FFCP PHASE2:Hg19::chr5:1414652..1414695,+	p@chr5:1414652..1414695, +
2.55e-98	FFCP PHASE1:Hg19::chr3:39827273..39827281,+	p@chr3:39827273..39827281, +
2.55e-98	FFCP PHASE1:Hg19::chr19:48479835..48479841,-	p@chr19:48479835..48479841, -
2.55e-98	FFCP PHASE1:Hg19::chr7:103086717..103086724,+	p@chr7:103086717..103086724, +
2.55e-98	FFCP PHASE1:Hg19::chr7:77789390..77789399,-	p@chr7:77789390..77789399, -
2.55e-98	FFCP PHASE1:Hg19::chr19:35978717..35978722,-	p@chr19:35978717..35978722, -
2.55e-98	FFCP PHASE2:Hg19::chr3:181328472..181328478,+	p25@SOX2-OT
2.55e-98	FFCP PHASE1:Hg19::chr7:152790347..152790351,+	p@chr7:152790347..152790351, +
2.55e-98	FFCP PHASE1:Hg19::chr18:45498690..45498695,-	p@chr18:45498690..45498695, -
2.55e-98	FFCP PHASE2:Hg19::chr8:126163123..126163134,+	p@chr8:126163123..126163134, +
2.55e-98	FFCP PHASE2:Hg19::chr4:188536760..188536764,-	p@chr4:188536760..188536764, -
2.55e-98	FFCP PHASE1:Hg19::chr12:127992016..127992052,+	p@chr12:127992016..127992052, +
2.55e-98	FFCP PHASE1:Hg19::chr1:7709325..7709329,+	p@chr1:7709325..7709329, +
2.55e-98	FFCP PHASE2:Hg19::chr19:48479835..48479841,-	p@chr19:48479835..48479841, -
2.55e-98	FFCP PHASE2:Hg19::chr7:103086717..103086724,+	p@chr7:103086717..103086724, +
2.55e-98	FFCP PHASE2:Hg19::chr7:77789390..77789399,-	p@chr7:77789390..77789399, -
2.55e-98	FFCP PHASE2:Hg19::chr19:35978717..35978722,-	p@chr19:35978717..35978722, -
2.55e-98	FFCP PHASE1:Hg19::chr12:68567714..68567717,+	p@chr12:68567714..68567717, +
2.55e-98	FFCP PHASE2:Hg19::chr7:152790347..152790351,+	p@chr7:152790347..152790351, +
2.55e-98	FFCP PHASE1:Hg19::chr5:109466651..109466653,+	p@chr5:109466651..109466653, +
2.55e-98	FFCP PHASE2:Hg19::chr14:106176908..106176916,-	p3@BC098451
2.55e-98	FFCP PHASE2:Hg19::chr16:55740953..55740956,+	p@chr16:55740953..55740956, +
2.55e-98	FFCP PHASE2:Hg19::chr1:7709325..7709329,+	p@chr1:7709325..7709329, +
2.55e-98	FFCP PHASE2:Hg19::chr16:19586229..19586233,+	p12@C16orf62
2.55e-98	FFCP PHASE2:Hg19::chr10:22768515..22768517,+	p@chr10:22768515..22768517, +
2.55e-98	FFCP PHASE1:Hg19::chr5:103200303..103200307,+	p@chr5:103200303..103200307, +
2.55e-98	FFCP PHASE2:Hg19::chr5:109466651..109466653,+	p@chr5:109466651..109466653, +
2.55e-98	FFCP PHASE2:Hg19::chr18:45498690..45498695,-	p@chr18:45498690..45498695, -
2.55e-98	FFCP PHASE1:Hg19::chr16:89970522..89970530,+	p9@TCF25
2.55e-98	FFCP PHASE1:Hg19::chr1:44991346..44991355,+	p@chr1:44991346..44991355, +
2.55e-98	FFCP PHASE2:Hg19::chr5:103200303..103200307,+	p@chr5:103200303..103200307, +
2.55e-98	FFCP PHASE1:Hg19::chr14:106176908..106176916,-	p3@BC098451
2.55e-98	FFCP PHASE2:Hg19::chr14:78718132..78718157,+	p@chr14:78718132..78718157, +
2.55e-98	FFCP PHASE2:Hg19::chrX:25873187..25873209,+	p@chrX:25873187..25873209, +
2.55e-98	FFCP PHASE2:Hg19::chr16:89970522..89970530,+	p9@TCF25
2.55e-98	FFCP PHASE2:Hg19::chr1:44991346..44991355,+	p@chr1:44991346..44991355, +
2.55e-98	FFCP PHASE1:Hg19::chr3:181328346..181328351,+	p22@SOX2-OT
2.55e-98	FFCP PHASE1:Hg19::chr11:2435409..2435443,-	p@chr11:2435409..2435443, -
2.55e-98	FFCP PHASE1:Hg19::chr16:55740953..55740956,+	p@chr16:55740953..55740956, +
2.55e-98	FFCP PHASE1:Hg19::chr3:77060783..77060789,+	p@chr3:77060783..77060789, +
2.55e-98	FFCP PHASE2:Hg19::chr12:59444098..59444102,+	p@chr12:59444098..59444102, +
2.55e-98	FFCP PHASE1:Hg19::chr2:165170873..165170919,-	p@chr2:165170873..165170919, -
2.55e-98	FFCP PHASE1:Hg19::chr16:19586229..19586233,+	p12@C16orf62
2.55e-98	FFCP PHASE2:Hg19::chr18:61506836..61506840,+	p@chr18:61506836..61506840, +

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