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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 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::chr18:74702556..74702558,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:74702556..74702558, -
9.37e-99FFCP PHASE1:Hg19::chr7:15056365..15056368,-#_c497e6b096e6f3ed0d221e00db461687p@chr7:15056365..15056368, -
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::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::chr14:105807545..105807554,+#_c497e6b096e6f3ed0d221e00db461687p@chr14:105807545..105807554, +
9.37e-99FFCP PHASE1:Hg19::chr18:25161980..25161984,-#_c497e6b096e6f3ed0d221e00db461687p@chr18:25161980..25161984, -
9.37e-99FFCP PHASE1:Hg19::chr1:62928606..62928608,+#_c497e6b096e6f3ed0d221e00db461687p@chr1:62928606..62928608, +
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 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, +
2.55e-98FFCP PHASE1:Hg19::chr3:181328346..181328351,+#_82099c57e0a429e7776f0c5a4c5e0b92p22@SOX2-OT
2.55e-98FFCP PHASE1:Hg19::chr12:296753..296755,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:296753..296755, -
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 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::chr10:37679189..37679193,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:37679189..37679193, +
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 PHASE1:Hg19::chr14:85119696..85119699,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:85119696..85119699, +
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::chr16:51174920..51174928,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr16:51174920..51174928, -
2.55e-98FFCP PHASE2:Hg19::chr12:68567714..68567717,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:68567714..68567717, +
2.55e-98FFCP PHASE2:Hg19::chr3:131712314..131712315,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:131712314..131712315, -
2.55e-98FFCP PHASE1:Hg19::chr12:72875355..72875358,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:72875355..72875358, +
2.55e-98FFCP PHASE1:Hg19::chr1:86911063..86911068,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:86911063..86911068, +
2.55e-98FFCP PHASE1:Hg19::chr5:54763740..54763746,-#_82099c57e0a429e7776f0c5a4c5e0b92p10@PPAP2A
2.55e-98FFCP PHASE1:Hg19::chr14:68589926..68589929,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr14:68589926..68589929, +
2.55e-98FFCP PHASE2:Hg19::chr1:86911063..86911068,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:86911063..86911068, +
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::chr10:62149979..62149980,-#_82099c57e0a429e7776f0c5a4c5e0b92p59@ANK3
2.55e-98FFCP PHASE2:Hg19::chr5:54763740..54763746,-#_82099c57e0a429e7776f0c5a4c5e0b92p10@PPAP2A
2.55e-98FFCP PHASE1:Hg19::chr16:70563415..70563420,+#_82099c57e0a429e7776f0c5a4c5e0b92p4@SNORD111B
2.55e-98FFCP PHASE1:Hg19::chr2:240176859..240176904,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:240176859..240176904, -
2.55e-98FFCP PHASE1:Hg19::chr15:36402459..36402465,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr15:36402459..36402465, -
2.55e-98FFCP PHASE2:Hg19::chr2:242808350..242808356,+#_82099c57e0a429e7776f0c5a4c5e0b92p2@LOC100131763
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 PHASE1:Hg19::chr3:163246025..163246029,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr3:163246025..163246029, +
2.55e-98FFCP PHASE1:Hg19::chr16:66170755..66170759,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr16:66170755..66170759, -
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::chr3:181328472..181328478,+#_82099c57e0a429e7776f0c5a4c5e0b92p25@SOX2-OT
2.55e-98FFCP PHASE1:Hg19::chr12:59444098..59444102,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:59444098..59444102, +
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 PHASE1:Hg19::chr14:76447439..76447452,-#_82099c57e0a429e7776f0c5a4c5e0b92p18@TGFB3
2.55e-98FFCP PHASE2:Hg19::chr12:296753..296755,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:296753..296755, -
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::chr18:45498690..45498695,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:45498690..45498695, -
2.55e-98FFCP PHASE1:Hg19::chr12:127992016..127992052,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:127992016..127992052, +
2.55e-98FFCP PHASE1:Hg19::chr2:21277180..21277193,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:21277180..21277193, +
2.55e-98FFCP PHASE1:Hg19::chr7:73444812..73444816,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr7:73444812..73444816, +
2.55e-98FFCP PHASE1:Hg19::chr2:29645795..29645797,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:29645795..29645797, +
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::chr12:68567714..68567717,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr12:68567714..68567717, +
2.55e-98FFCP PHASE1:Hg19::chr1:203036812..203036840,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr1:203036812..203036840, +
2.55e-98FFCP PHASE1:Hg19::chr2:171939999..171940009,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:171939999..171940009, -
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 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::chr1:169073323..169073334,+#_82099c57e0a429e7776f0c5a4c5e0b92p4@ENST00000415637
2.55e-98FFCP PHASE2:Hg19::chr2:171939999..171940009,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr2:171939999..171940009, -
2.55e-98FFCP PHASE1:Hg19::chr16:89970522..89970530,+#_82099c57e0a429e7776f0c5a4c5e0b92p9@TCF25
2.55e-98FFCP PHASE1:Hg19::chr10:118927879..118927891,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr10:118927879..118927891, +
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 PHASE1:Hg19::chr14:106176908..106176916,-#_82099c57e0a429e7776f0c5a4c5e0b92p3@BC098451
2.55e-98FFCP PHASE2:Hg19::chr1:169073323..169073334,+#_82099c57e0a429e7776f0c5a4c5e0b92p4@ENST00000415637
2.55e-98FFCP PHASE1:Hg19::chr18:61506836..61506840,+#_82099c57e0a429e7776f0c5a4c5e0b92p@chr18:61506836..61506840, +
2.55e-98FFCP PHASE1:Hg19::chr5:126962527..126962529,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr5:126962527..126962529, -
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::chr11:2435409..2435443,-#_82099c57e0a429e7776f0c5a4c5e0b92p@chr11:2435409..2435443, -

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