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Revision as of 13:34, 27 June 2012

Name:retinal neural layer
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 PHASE2:Hg19::chr12:57628762..57628773,-#_6092a75c3cc5832f2304dfb768edd4fbp@chr12:57628762..57628773, -
5.42e-195FFCP PHASE1:Hg19::chr12:57628762..57628773,-#_6092a75c3cc5832f2304dfb768edd4fbp@chr12:57628762..57628773, -
9.37e-99FFCP PHASE1:Hg19::chr18:74702556..74702558,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:74702556..74702558, -
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 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::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::chr2:188432107..188432111,+#_c497e6b096e6f3ed0d221e00db461687p@chr2:188432107..188432111, +
9.37e-99FFCP PHASE1:Hg19::chr5:151258901..151258902,+#_c497e6b096e6f3ed0d221e00db461687p@chr5:151258901..151258902, +
9.37e-99FFCP PHASE2: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::chr18:74702556..74702558,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:74702556..74702558, -
9.37e-99FFCP PHASE1:Hg19::chr5:149250331..149250335,-#_c497e6b096e6f3ed0d221e00db461687p@chr5:149250331..149250335, -
9.37e-99FFCP PHASE2:Hg19::chr1:62928606..62928608,+#_c497e6b096e6f3ed0d221e00db461687p@chr1:62928606..62928608, +
9.37e-99FFCP PHASE1:Hg19::chr2:60133192..60133194,-#_c497e6b096e6f3ed0d221e00db461687p@chr2:60133192..60133194, -
9.37e-99FFCP PHASE2:Hg19::chr5:149250331..149250335,-#_c497e6b096e6f3ed0d221e00db461687p@chr5:149250331..149250335, -
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 PHASE2:Hg19::chr7:15056365..15056368,-#_c497e6b096e6f3ed0d221e00db461687p@chr7:15056365..15056368, -
2.55e-98FFCP PHASE1:Hg19::chr11:79291300..79291301,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:79291300..79291301, +
2.55e-98FFCP PHASE1:Hg19::chr11:20791058..20791067,+#_82099c57e0a429e7776f0c5a4c5e0b92p10@NELL1
2.55e-98FFCP PHASE1:Hg19::chr21:22483836..22483880,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr21:22483836..22483880, +
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 PHASE1:Hg19::chr5:33229308..33229311,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:33229308..33229311, -
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 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, -
2.55e-98FFCP PHASE1:Hg19::chr7:73444812..73444816,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:73444812..73444816, +
2.55e-98FFCP PHASE1:Hg19::chr3:27750995..27750997,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:27750995..27750997, -
2.55e-98FFCP PHASE2:Hg19::chr16:66170755..66170759,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr16:66170755..66170759, -
2.55e-98FFCP PHASE2:Hg19::chr12:78359873..78359882,+#_82099c57e0a429e7776f0c5a4c5e0b92p41@NAV3
2.55e-98FFCP PHASE1:Hg19::chr11:57030314..57030346,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:57030314..57030346, +
2.55e-98FFCP PHASE2:Hg19::chr2:21277180..21277193,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:21277180..21277193, +
2.55e-98FFCP PHASE2:Hg19::chr7:73444812..73444816,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:73444812..73444816, +
2.55e-98FFCP PHASE2:Hg19::chr3:27750995..27750997,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:27750995..27750997, -
2.55e-98FFCP PHASE2:Hg19::chr2:29645795..29645797,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:29645795..29645797, +
2.55e-98FFCP PHASE1:Hg19::chr2:30144229..30144240,-#_82099c57e0a429e7776f0c5a4c5e0b92p10@ALK
2.55e-98FFCP PHASE2:Hg19::chr2:171939999..171940009,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:171939999..171940009, -
2.55e-98FFCP PHASE2:Hg19::chr2:192696669..192696673,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:192696669..192696673, +
2.55e-98FFCP PHASE2:Hg19::chr1:203036812..203036840,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:203036812..203036840, +
2.55e-98FFCP PHASE1:Hg19::chr10:22768515..22768517,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:22768515..22768517, +
2.55e-98FFCP PHASE1:Hg19::chr5:126962527..126962529,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:126962527..126962529, -
2.55e-98FFCP PHASE1:Hg19::chr14:37227792..37227796,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:37227792..37227796, -
2.55e-98FFCP PHASE2:Hg19::chrX:131884370..131884375,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chrX:131884370..131884375, -
2.55e-98FFCP PHASE1:Hg19::chrX:25873187..25873209,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chrX:25873187..25873209, +
2.55e-98FFCP PHASE1:Hg19::chr2:134472430..134472432,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:134472430..134472432, +
2.55e-98FFCP PHASE1:Hg19::chr1:203036812..203036840,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:203036812..203036840, +
2.55e-98FFCP PHASE2:Hg19::chr10:37679189..37679193,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:37679189..37679193, +
2.55e-98FFCP PHASE1:Hg19::chr8:130597061..130597068,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr8:130597061..130597068, +
2.55e-98FFCP PHASE2:Hg19::chr1:169073323..169073334,+#_82099c57e0a429e7776f0c5a4c5e0b92p4@ENST00000415637
2.55e-98FFCP PHASE2:Hg19::chr5:126962527..126962529,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:126962527..126962529, -
2.55e-98FFCP PHASE2:Hg19::chr13:64423563..64423566,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr13:64423563..64423566, +
2.55e-98FFCP PHASE1:Hg19::chr6:16317123..16317126,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr6:16317123..16317126, +
2.55e-98FFCP PHASE2:Hg19::chr17:47107522..47107524,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr17:47107522..47107524, +
2.55e-98FFCP PHASE1:Hg19::chr2:133035182..133035195,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:133035182..133035195, -
2.55e-98FFCP PHASE1:Hg19::chr22:30951607..30951613,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr22:30951607..30951613, -
2.55e-98FFCP PHASE1:Hg19::chr1:169073323..169073334,+#_82099c57e0a429e7776f0c5a4c5e0b92p4@ENST00000415637
2.55e-98FFCP PHASE1:Hg19::chr17:47107522..47107524,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr17:47107522..47107524, +
2.55e-98FFCP PHASE2:Hg19::chr6:16317123..16317126,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr6:16317123..16317126, +
2.55e-98FFCP PHASE1:Hg19::chr5:58471631..58471634,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:58471631..58471634, +
2.55e-98FFCP PHASE2:Hg19::chr3:13992334..13992338,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:13992334..13992338, -
2.55e-98FFCP PHASE1:Hg19::chr18:61506836..61506840,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:61506836..61506840, +
2.55e-98FFCP PHASE1:Hg19::chr18:39859562..39859566,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:39859562..39859566, +
2.55e-98FFCP PHASE2:Hg19::chr5:58471631..58471634,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:58471631..58471634, +
2.55e-98FFCP PHASE2:Hg19::chr14:68527802..68527806,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:68527802..68527806, +
2.55e-98FFCP PHASE1:Hg19::chr4:139501766..139501798,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr4:139501766..139501798, -
2.55e-98FFCP PHASE2:Hg19::chr1:1361494..1361497,+#_82099c57e0a429e7776f0c5a4c5e0b92p7@TMEM88B
2.55e-98FFCP PHASE2:Hg19::chr18:39859562..39859566,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:39859562..39859566, +
2.55e-98FFCP PHASE1:Hg19::chr9:79519652..79519664,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr9:79519652..79519664, -
2.55e-98FFCP PHASE1:Hg19::chr5:24554148..24554153,+#_82099c57e0a429e7776f0c5a4c5e0b92p1@ENST00000510391
2.55e-98FFCP PHASE1:Hg19::chr2:29484252..29484254,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:29484252..29484254, -
2.55e-98FFCP PHASE2:Hg19::chr1:66713214..66713221,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:66713214..66713221, +
2.55e-98FFCP PHASE2:Hg19::chr12:127992016..127992052,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:127992016..127992052, +
2.55e-98FFCP PHASE1:Hg19::chr1:1361494..1361497,+#_82099c57e0a429e7776f0c5a4c5e0b92p7@TMEM88B
2.55e-98FFCP PHASE2:Hg19::chr4:139501766..139501798,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr4:139501766..139501798, -
2.55e-98FFCP PHASE1:Hg19::chr3:39827273..39827281,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:39827273..39827281, +
2.55e-98FFCP PHASE2:Hg19::chr9:79519652..79519664,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr9:79519652..79519664, -
2.55e-98FFCP PHASE2:Hg19::chr5:24554148..24554153,+#_82099c57e0a429e7776f0c5a4c5e0b92p1@ENST00000510391
2.55e-98FFCP PHASE1:Hg19::chr13:64423563..64423566,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr13:64423563..64423566, +
2.55e-98FFCP PHASE2:Hg19::chr10:118927879..118927891,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:118927879..118927891, +
2.55e-98FFCP PHASE2:Hg19::chr19:20382476..20382481,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr19:20382476..20382481, -
2.55e-98FFCP PHASE2:Hg19::chr3:39827273..39827281,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:39827273..39827281, +
2.55e-98FFCP PHASE1:Hg19::chr19:20382476..20382481,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr19:20382476..20382481, -
2.55e-98FFCP PHASE2:Hg19::chr17:12935401..12935405,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr17:12935401..12935405, -
2.55e-98FFCP PHASE1:Hg19::chr7:88535666..88535671,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:88535666..88535671, +
2.55e-98FFCP PHASE1:Hg19::chr17:12935401..12935405,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr17:12935401..12935405, -
2.55e-98FFCP PHASE1:Hg19::chr1:7709325..7709329,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:7709325..7709329, +
2.55e-98FFCP PHASE2:Hg19::chr8:130597061..130597068,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr8:130597061..130597068, +
2.55e-98FFCP PHASE1:Hg19::chr10:37679189..37679193,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:37679189..37679193, +
2.55e-98FFCP PHASE1:Hg19::chr4:130221053..130221071,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr4:130221053..130221071, +
2.55e-98FFCP PHASE2:Hg19::chr7:88535666..88535671,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:88535666..88535671, +

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