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{{UBERON
{{UBERON
|id=UBERON:0003902
|alt_id=
|name=retinal neural layer
|namespace=
|def="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]
|xref=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
|is_a=UBERON:0001781
|synonym="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]
|comment=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.
|comment=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.
|alt_id=
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="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]
|subset=vertebrate_core
|derives_from=
|derives_from=
|develops_from=
|develops_from=UBERON:0005425
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0003902
|is_a=UBERON:0001781
|is_obsolete=
|located_in=
|located_in=
|name=retinal neural layer
|namespace=FANTOM
|obo_creation_date=
|part_of=
|part_of=
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|is_obsolete=
|subset=vertebrate_core
|preceded_by=
|synonym="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]
|union_of=
|xref=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
}}
}}

Latest revision as of 17:42, 12 September 2014

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:
links:

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

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



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

P-valueFFCPShort description
5.42e-195FFCP PHASE1:Hg19::chr12:57628762..57628773,-#_6092a75c3cc5832f2304dfb768edd4fbp@chr12:57628762..57628773, -
5.42e-195FFCP PHASE2:Hg19::chr12:57628762..57628773,-#_6092a75c3cc5832f2304dfb768edd4fbp@chr12:57628762..57628773, -
9.37e-99FFCP PHASE2:Hg19::chr1:62928606..62928608,+#_c497e6b096e6f3ed0d221e00db461687p@chr1:62928606..62928608, +
9.37e-99FFCP PHASE2:Hg19::chr5:149250331..149250335,-#_c497e6b096e6f3ed0d221e00db461687p@chr5:149250331..149250335, -
9.37e-99FFCP PHASE1:Hg19::chr2:188432107..188432111,+#_c497e6b096e6f3ed0d221e00db461687p@chr2:188432107..188432111, +
9.37e-99FFCP PHASE2:Hg19::chr2:188432107..188432111,+#_c497e6b096e6f3ed0d221e00db461687p@chr2:188432107..188432111, +
9.37e-99FFCP PHASE1:Hg19::chr7:15056365..15056368,-#_c497e6b096e6f3ed0d221e00db461687p@chr7:15056365..15056368, -
9.37e-99FFCP PHASE1:Hg19::chr18:74702556..74702558,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:74702556..74702558, -
9.37e-99FFCP PHASE2:Hg19::chr7:15056365..15056368,-#_c497e6b096e6f3ed0d221e00db461687p@chr7:15056365..15056368, -
9.37e-99FFCP PHASE2:Hg19::chr14:105807545..105807554,+#_c497e6b096e6f3ed0d221e00db461687p@chr14:105807545..105807554, +
9.37e-99FFCP PHASE1:Hg19::chr14:105807545..105807554,+#_c497e6b096e6f3ed0d221e00db461687p@chr14:105807545..105807554, +
9.37e-99FFCP PHASE1:Hg19::chr18:25161980..25161984,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:25161980..25161984, -
9.37e-99FFCP PHASE1:Hg19::chr2:60133192..60133194,-#_c497e6b096e6f3ed0d221e00db461687p@chr2:60133192..60133194, -
9.37e-99FFCP PHASE2:Hg19::chr2:60133192..60133194,-#_c497e6b096e6f3ed0d221e00db461687p@chr2:60133192..60133194, -
9.37e-99FFCP PHASE2:Hg19::chr18:25161980..25161984,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:25161980..25161984, -
9.37e-99FFCP PHASE1:Hg19::chr4:127394496..127394500,-#_c497e6b096e6f3ed0d221e00db461687p@chr4:127394496..127394500, -
9.37e-99FFCP PHASE2:Hg19::chr4:127394496..127394500,-#_c497e6b096e6f3ed0d221e00db461687p@chr4:127394496..127394500, -
9.37e-99FFCP PHASE1:Hg19::chr5:151258901..151258902,+#_c497e6b096e6f3ed0d221e00db461687p@chr5:151258901..151258902, +
9.37e-99FFCP PHASE1:Hg19::chr1:62928606..62928608,+#_c497e6b096e6f3ed0d221e00db461687p@chr1:62928606..62928608, +
9.37e-99FFCP PHASE2:Hg19::chr5:151258901..151258902,+#_c497e6b096e6f3ed0d221e00db461687p@chr5:151258901..151258902, +
9.37e-99FFCP PHASE2:Hg19::chr18:74702556..74702558,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:74702556..74702558, -
9.37e-99FFCP PHASE1:Hg19::chr5:149250331..149250335,-#_c497e6b096e6f3ed0d221e00db461687p@chr5:149250331..149250335, -
2.55e-98FFCP PHASE1:Hg19::chr19:48479835..48479841,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr19:48479835..48479841, -
2.55e-98FFCP PHASE1:Hg19::chr7:103086717..103086724,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:103086717..103086724, +
2.55e-98FFCP PHASE1:Hg19::chr7:77789390..77789399,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:77789390..77789399, -
2.55e-98FFCP PHASE1:Hg19::chr19:35978717..35978722,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr19:35978717..35978722, -
2.55e-98FFCP PHASE2:Hg19::chr3:181328472..181328478,+#_82099c57e0a429e7776f0c5a4c5e0b92p25@SOX2-OT
2.55e-98FFCP PHASE1:Hg19::chr7:152790347..152790351,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:152790347..152790351, +
2.55e-98FFCP PHASE1:Hg19::chr18:45498690..45498695,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:45498690..45498695, -
2.55e-98FFCP PHASE2:Hg19::chr8:126163123..126163134,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr8:126163123..126163134, +
2.55e-98FFCP PHASE2:Hg19::chr4:188536760..188536764,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr4:188536760..188536764, -
2.55e-98FFCP PHASE1:Hg19::chr12:127992016..127992052,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:127992016..127992052, +
2.55e-98FFCP PHASE2:Hg19::chr14:106176908..106176916,-#_82099c57e0a429e7776f0c5a4c5e0b92p3@BC098451
2.55e-98FFCP PHASE1:Hg19::chr1:7709325..7709329,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:7709325..7709329, +
2.55e-98FFCP PHASE2:Hg19::chr19:48479835..48479841,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr19:48479835..48479841, -
2.55e-98FFCP PHASE2:Hg19::chr7:103086717..103086724,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:103086717..103086724, +
2.55e-98FFCP PHASE2:Hg19::chr7:77789390..77789399,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:77789390..77789399, -
2.55e-98FFCP PHASE2:Hg19::chr19:35978717..35978722,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr19:35978717..35978722, -
2.55e-98FFCP PHASE1:Hg19::chr12:68567714..68567717,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:68567714..68567717, +
2.55e-98FFCP PHASE2:Hg19::chr7:152790347..152790351,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:152790347..152790351, +
2.55e-98FFCP PHASE1:Hg19::chr5:109466651..109466653,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:109466651..109466653, +
2.55e-98FFCP PHASE2:Hg19::chr16:55740953..55740956,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr16:55740953..55740956, +
2.55e-98FFCP PHASE2:Hg19::chr1:7709325..7709329,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:7709325..7709329, +
2.55e-98FFCP PHASE2:Hg19::chr16:19586229..19586233,+#_82099c57e0a429e7776f0c5a4c5e0b92p12@C16orf62
2.55e-98FFCP PHASE2:Hg19::chr10:22768515..22768517,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:22768515..22768517, +
2.55e-98FFCP PHASE1:Hg19::chr5:103200303..103200307,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:103200303..103200307, +
2.55e-98FFCP PHASE2:Hg19::chr5:109466651..109466653,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:109466651..109466653, +
2.55e-98FFCP PHASE2:Hg19::chr18:45498690..45498695,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:45498690..45498695, -
2.55e-98FFCP PHASE1:Hg19::chr16:89970522..89970530,+#_82099c57e0a429e7776f0c5a4c5e0b92p9@TCF25
2.55e-98FFCP PHASE2:Hg19::chr14:78718132..78718157,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:78718132..78718157, +
2.55e-98FFCP PHASE1:Hg19::chr1:44991346..44991355,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:44991346..44991355, +
2.55e-98FFCP PHASE2:Hg19::chr5:103200303..103200307,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:103200303..103200307, +
2.55e-98FFCP PHASE1:Hg19::chr14:106176908..106176916,-#_82099c57e0a429e7776f0c5a4c5e0b92p3@BC098451
2.55e-98FFCP PHASE2:Hg19::chrX:25873187..25873209,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chrX:25873187..25873209, +
2.55e-98FFCP PHASE2:Hg19::chr16:89970522..89970530,+#_82099c57e0a429e7776f0c5a4c5e0b92p9@TCF25
2.55e-98FFCP PHASE2:Hg19::chr1:44991346..44991355,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:44991346..44991355, +
2.55e-98FFCP PHASE1:Hg19::chr3:181328346..181328351,+#_82099c57e0a429e7776f0c5a4c5e0b92p22@SOX2-OT
2.55e-98FFCP PHASE1:Hg19::chr11:2435409..2435443,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:2435409..2435443, -
2.55e-98FFCP PHASE1:Hg19::chr16:55740953..55740956,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr16:55740953..55740956, +
2.55e-98FFCP PHASE1:Hg19::chr3:77060783..77060789,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:77060783..77060789, +
2.55e-98FFCP PHASE2:Hg19::chr12:59444098..59444102,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:59444098..59444102, +
2.55e-98FFCP PHASE1:Hg19::chr2:165170873..165170919,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:165170873..165170919, -
2.55e-98FFCP PHASE1:Hg19::chr16:19586229..19586233,+#_82099c57e0a429e7776f0c5a4c5e0b92p12@C16orf62
2.55e-98FFCP PHASE1:Hg19::chr3:131712314..131712315,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:131712314..131712315, -
2.55e-98FFCP PHASE2:Hg19::chr18:61506836..61506840,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:61506836..61506840, +
2.55e-98FFCP PHASE1:Hg19::chr14:78718132..78718157,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:78718132..78718157, +
2.55e-98FFCP PHASE2:Hg19::chr11:57030314..57030346,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:57030314..57030346, +
2.55e-98FFCP PHASE2:Hg19::chr3:77060783..77060789,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:77060783..77060789, +
2.55e-98FFCP PHASE2:Hg19::chr2:165170873..165170919,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:165170873..165170919, -
2.55e-98FFCP PHASE2:Hg19::chr3:131712314..131712315,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:131712314..131712315, -
2.55e-98FFCP PHASE1:Hg19::chr1:86911063..86911068,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:86911063..86911068, +
2.55e-98FFCP PHASE2:Hg19::chr12:68567714..68567717,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:68567714..68567717, +
2.55e-98FFCP PHASE1:Hg19::chr12:78359873..78359882,+#_82099c57e0a429e7776f0c5a4c5e0b92p41@NAV3
2.55e-98FFCP PHASE1:Hg19::chr5:54763740..54763746,-#_82099c57e0a429e7776f0c5a4c5e0b92p10@PPAP2A
2.55e-98FFCP PHASE2:Hg19::chr1:86911063..86911068,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:86911063..86911068, +
2.55e-98FFCP PHASE2:Hg19::chr10:62149979..62149980,-#_82099c57e0a429e7776f0c5a4c5e0b92p59@ANK3
2.55e-98FFCP PHASE1:Hg19::chr10:22768515..22768517,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:22768515..22768517, +
2.55e-98FFCP PHASE1:Hg19::chr11:79291300..79291301,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:79291300..79291301, +
2.55e-98FFCP PHASE2:Hg19::chr5:54763740..54763746,-#_82099c57e0a429e7776f0c5a4c5e0b92p10@PPAP2A
2.55e-98FFCP PHASE1:Hg19::chr11:20791058..20791067,+#_82099c57e0a429e7776f0c5a4c5e0b92p10@NELL1
2.55e-98FFCP PHASE1:Hg19::chr2:192696669..192696673,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:192696669..192696673, +
2.55e-98FFCP PHASE1:Hg19::chr2:242808350..242808356,+#_82099c57e0a429e7776f0c5a4c5e0b92p2@LOC100131763
2.55e-98FFCP PHASE2:Hg19::chr2:242808350..242808356,+#_82099c57e0a429e7776f0c5a4c5e0b92p2@LOC100131763
2.55e-98FFCP PHASE1:Hg19::chr2:240176859..240176904,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:240176859..240176904, -
2.55e-98FFCP PHASE1:Hg19::chr5:33229308..33229311,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:33229308..33229311, -
2.55e-98FFCP PHASE1:Hg19::chr3:163246025..163246029,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:163246025..163246029, +
2.55e-98FFCP PHASE1:Hg19::chr11:57030314..57030346,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:57030314..57030346, +
2.55e-98FFCP PHASE1:Hg19::chr2:97626726..97626741,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:97626726..97626741, +
2.55e-98FFCP PHASE1:Hg19::chr21:45724075..45724081,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr21:45724075..45724081, +
2.55e-98FFCP PHASE1:Hg19::chr5:172318159..172318160,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:172318159..172318160, +
2.55e-98FFCP PHASE2:Hg19::chr2:240176859..240176904,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:240176859..240176904, -
2.55e-98FFCP PHASE2:Hg19::chr5:33229308..33229311,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:33229308..33229311, -
2.55e-98FFCP PHASE2:Hg19::chr3:163246025..163246029,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:163246025..163246029, +
2.55e-98FFCP PHASE2:Hg19::chr11:30166055..30166059,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:30166055..30166059, -
2.55e-98FFCP PHASE2:Hg19::chr2:97626726..97626741,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:97626726..97626741, +
2.55e-98FFCP PHASE2:Hg19::chr21:45724075..45724081,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr21:45724075..45724081, +
2.55e-98FFCP PHASE1:Hg19::chr3:181328472..181328478,+#_82099c57e0a429e7776f0c5a4c5e0b92p25@SOX2-OT
2.55e-98FFCP PHASE2:Hg19::chr5:172318159..172318160,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:172318159..172318160, +
2.55e-98FFCP PHASE2:Hg19::chr14:37227792..37227796,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:37227792..37227796, -
2.55e-98FFCP PHASE2:Hg19::chr12:296753..296755,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:296753..296755, -

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