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{{CL
{{CL
|id=CL:0000149
|alt_id=
|name=visual pigment cell
|namespace=cell
|def=
|xref=
|is_a=CL:0000147
|synonym="pigment cell" BROAD []
|comment=
|comment=
|alt_id=
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def=
|subset=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|disjoint_from=
|has_quality=
|has_quality=
|id=CL:0000149
|is_a=CL:0000147
|is_obsolete=
|located_in=
|located_in=
|name=visual pigment cell
|namespace=FANTOM
|obo_creation_date=
|part_of=
|part_of=
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl.owl
|is_obsolete=
|subset=
|preceded_by=
|synonym="pigment cell" BROAD []
|union_of=
|xref=
}}
}}

Latest revision as of 16:30, 12 September 2014

Name:visual pigment cell
Namespace:FANTOM
Synonyms: "pigment cell" BROAD []


Ontology association <br>Each term has an is_a parent in the Cell 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 Cell ontologies.<br><br>link to ontology dataset<br>data

Parents

is_a:CL:0000147(pigment cell)



Children


is a:CL:0002586 (retinal pigment epithelial cell),FF:12739-135I3 (Melanocyte, donor2 (MC+2))

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)


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

Human (Homo sapiens)

  • 11215-116A9 (Retinal Pigment Epithelial Cells, donor0)
  • 11528-119I7 (Retinal Pigment Epithelial Cells, donor1)
  • 11608-120I6 (Retinal Pigment Epithelial Cells, donor2)
  • 11689-122I6 (Retinal Pigment Epithelial Cells, donor3)
  • 12739-135I3 (Melanocyte, donor2 (MC+2))
  • 13663-147C9 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)
  • 13664-147D1 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)
  • 13665-147D2 (ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep2)
  • 13666-147D3 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)
  • 13667-147D4 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)

... further results Mouse (Mus musculus)

  • 11215-116A9 (Retinal Pigment Epithelial Cells, donor0)
  • 11528-119I7 (Retinal Pigment Epithelial Cells, donor1)
  • 11608-120I6 (Retinal Pigment Epithelial Cells, donor2)
  • 11689-122I6 (Retinal Pigment Epithelial Cells, donor3)
  • 12739-135I3 (Melanocyte, donor2 (MC+2))
  • 13663-147C9 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)
  • 13664-147D1 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)
  • 13665-147D2 (ARPE-19 EMT induced with TGF-beta and TNF-alpha, 06hr00min, biol_rep2)
  • 13666-147D3 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)
  • 13667-147D4 (ARPE-19 EMT induced with TGF-beta and TNF-alpha)

... further results


Enrichment analysis: top 100 FFCP enriched with this ontology termTOP 100 FANTOM5 Cage Peaks enriched with CL:0000149 (visual pigment cell), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
6.94e-147FFCP PHASE2:Hg19::chr1:147150847..147150854,-#_27b31ad4bfc71404085a87fd1b6cf4cfp@chr1:147150847..147150854, -
6.94e-147FFCP PHASE1:Hg19::chr1:147150847..147150854,-#_27b31ad4bfc71404085a87fd1b6cf4cfp@chr1:147150847..147150854, -
8.91e-111FFCP PHASE2:Hg19::chr13:51913806..51913817,+#_6b35b22b7bf78a41bbe1199a73692c7cp2@SERPINE3
8.91e-111FFCP PHASE1:Hg19::chr13:51913806..51913817,+#_6b35b22b7bf78a41bbe1199a73692c7cp2@SERPINE3
1.3e-110FFCP PHASE2:Hg19::chr13:99135322..99135327,-#_4a150ca5b2cd3eddb0efe3a14f732c2fp@chr13:99135322..99135327, -
1.3e-110FFCP PHASE1:Hg19::chr13:99135322..99135327,-#_4a150ca5b2cd3eddb0efe3a14f732c2fp@chr13:99135322..99135327, -
1.55e-98FFCP PHASE2:Hg19::chr13:51913893..51913901,+#_0f8a4403c537d6003766c59056d084edp@chr13:51913893..51913901, +
1.55e-98FFCP PHASE1:Hg19::chr13:51913893..51913901,+#_0f8a4403c537d6003766c59056d084edp@chr13:51913893..51913901, +
5.72e-89FFCP PHASE1:Hg19::chr11:109990513..109990520,-#_6659a6ea15b7859749a672dc9fcc8b06p@chr11:109990513..109990520, -
5.72e-89FFCP PHASE2:Hg19::chr11:109990513..109990520,-#_6659a6ea15b7859749a672dc9fcc8b06p@chr11:109990513..109990520, -
1.41e-88FFCP PHASE2:Hg19::chr5:70308745..70308754,-#_6831a3a3b16cb2d5a49e187fa6795adbp@chr5:70308745..70308754, -
1.41e-88FFCP PHASE1:Hg19::chr5:70308745..70308754,-#_6831a3a3b16cb2d5a49e187fa6795adbp@chr5:70308745..70308754, -
2.01e-74FFCP PHASE2:Hg19::chr11:61522844..61522875,+#_599fdb10b1a6ba47e3c09915616f4b0cp2@C11orf9
2.01e-74FFCP PHASE1:Hg19::chr11:61522844..61522875,+#_599fdb10b1a6ba47e3c09915616f4b0cp2@C11orf9
4.26e-74FFCP PHASE1:Hg19::chr2:235591306..235591328,+#_5929dd1320fdbca5deb3b3beaaf08366p@chr2:235591306..235591328, +
4.26e-74FFCP PHASE2:Hg19::chr2:235591306..235591328,+#_5929dd1320fdbca5deb3b3beaaf08366p@chr2:235591306..235591328, +
2.4e-66FFCP PHASE1:Hg19::chr11:61522820..61522823,+#_8ebf6f4f9b9bbc8e271e862337881c9cp9@C11orf9
2.4e-66FFCP PHASE2:Hg19::chr11:61522820..61522823,+#_8ebf6f4f9b9bbc8e271e862337881c9cp9@C11orf9
3.35e-66FFCP PHASE1:Hg19::chr8:75898210..75898219,+#_0175e3344a19061022cea51a88799dc5p11@CRISPLD1
3.35e-66FFCP PHASE2:Hg19::chr8:75898210..75898219,+#_0175e3344a19061022cea51a88799dc5p11@CRISPLD1
4.67e-66FFCP PHASE1:Hg19::chr2:45166274..45166281,-#_23ca983b7460e96bd99aec65a59ab88ep5@ENST00000437916
4.67e-66FFCP PHASE2:Hg19::chr2:45166274..45166281,-#_23ca983b7460e96bd99aec65a59ab88ep5@ENST00000437916
2.61e-64FFCP PHASE2:Hg19::chr13:51913819..51913838,+#_89bc96d50f32790863d350b9c0dc0661p1@SERPINE3
2.61e-64FFCP PHASE1:Hg19::chr13:51913819..51913838,+#_89bc96d50f32790863d350b9c0dc0661p1@SERPINE3
5.98e-57FFCP PHASE1:Hg19::chr5:33984786..33984820,-#_669d7967b0dc3ab662667ad190bbf825p2@SLC45A2
5.98e-57FFCP PHASE2:Hg19::chr5:33984786..33984820,-#_669d7967b0dc3ab662667ad190bbf825p2@SLC45A2
2.6e-56FFCP PHASE2:Hg19::chr3:69928426..69928436,+#_04e0be8c33dd3593b9ebc618ef8609c4p@chr3:69928426..69928436, +
2.6e-56FFCP PHASE1:Hg19::chr3:69928426..69928436,+#_04e0be8c33dd3593b9ebc618ef8609c4p@chr3:69928426..69928436, +
3.14e-56FFCP PHASE1:Hg19::chr3:69928404..69928418,+#_52389035e63c5fa616136e3217f23d1fp@chr3:69928404..69928418, +
3.14e-56FFCP PHASE2:Hg19::chr3:69928404..69928418,+#_52389035e63c5fa616136e3217f23d1fp@chr3:69928404..69928418, +
4.58e-56FFCP PHASE2:Hg19::chr6:168250971..168250985,+#_8c6415fa626e1119712f1560a392d533p@chr6:168250971..168250985, +
4.58e-56FFCP PHASE2:Hg19::chr22:37633537..37633546,-#_8c6415fa626e1119712f1560a392d533p@chr22:37633537..37633546, -
4.58e-56FFCP PHASE1:Hg19::chr6:168250971..168250985,+#_8c6415fa626e1119712f1560a392d533p@chr6:168250971..168250985, +
4.58e-56FFCP PHASE1:Hg19::chr22:37633537..37633546,-#_8c6415fa626e1119712f1560a392d533p@chr22:37633537..37633546, -
6.68e-56FFCP PHASE1:Hg19::chr1:43533230..43533270,+#_2ea341b6b5eeefd1b4a845a98ad0cb9dp@chr1:43533230..43533270, +
6.68e-56FFCP PHASE2:Hg19::chr1:43533230..43533270,+#_2ea341b6b5eeefd1b4a845a98ad0cb9dp@chr1:43533230..43533270, +
3.1e-50FFCP PHASE2:Hg19::chr13:51913997..51914020,+#_6214d31fbe33aa31f9ebbd9d0ebc7a9bp@chr13:51913997..51914020, +
3.1e-50FFCP PHASE1:Hg19::chr13:51913997..51914020,+#_6214d31fbe33aa31f9ebbd9d0ebc7a9bp@chr13:51913997..51914020, +
3.1e-50FFCP PHASE2:Hg19::chrY:14230731..14230736,-#_6214d31fbe33aa31f9ebbd9d0ebc7a9bp@chrY:14230731..14230736, -
3.1e-50FFCP PHASE1:Hg19::chrY:14230731..14230736,-#_6214d31fbe33aa31f9ebbd9d0ebc7a9bp@chrY:14230731..14230736, -
3.69e-50FFCP PHASE1:Hg19::chr21:36041275..36041282,+#_41d2a1759fff0bb17143ce52ef6484f1p5@CLIC6
3.69e-50FFCP PHASE2:Hg19::chr21:36041275..36041282,+#_41d2a1759fff0bb17143ce52ef6484f1p5@CLIC6
7.22e-50FFCP PHASE1:Hg19::chr15:55562656..55562664,-#_9e8dc11d4980aaae9cd9ba5e2849f82ap14@RAB27A
7.22e-50FFCP PHASE2:Hg19::chr15:55562656..55562664,-#_9e8dc11d4980aaae9cd9ba5e2849f82ap14@RAB27A
8.47e-50FFCP PHASE2:Hg19::chr6:168251000..168251007,+#_8f5f58207e6d2c50a4ad7a3b42e32007p@chr6:168251000..168251007, +
8.47e-50FFCP PHASE1:Hg19::chr6:168251000..168251007,+#_8f5f58207e6d2c50a4ad7a3b42e32007p@chr6:168251000..168251007, +
9.18e-50FFCP PHASE2:Hg19::chr5:33984741..33984774,-#_68e9225a33ee7b77d1c1aca163a44440p1@SLC45A2
9.18e-50FFCP PHASE1:Hg19::chr5:33984741..33984774,-#_68e9225a33ee7b77d1c1aca163a44440p1@SLC45A2
1.97e-45FFCP PHASE2:Hg19::chr13:99135278..99135298,-#_c100ed806d2ff8cbe31b607f4e79b551p@chr13:99135278..99135298, -
1.97e-45FFCP PHASE1:Hg19::chr13:99135278..99135298,-#_c100ed806d2ff8cbe31b607f4e79b551p@chr13:99135278..99135298, -
1.67e-41FFCP PHASE2:Hg19::chr3:69928371..69928385,+#_1194d4b5fb7b9c0a7029acf6b8e2944cp@chr3:69928371..69928385, +
1.67e-41FFCP PHASE1:Hg19::chr3:69928371..69928385,+#_1194d4b5fb7b9c0a7029acf6b8e2944cp@chr3:69928371..69928385, +
2.2e-41FFCP PHASE2:Hg19::chr14:87636652..87636657,-#_9565173161b35911519df00479820d7fp@chr14:87636652..87636657, -
2.2e-41FFCP PHASE1:Hg19::chr14:87636652..87636657,-#_9565173161b35911519df00479820d7fp@chr14:87636652..87636657, -
1.81e-40FFCP PHASE1:Hg19::chr2:235591286..235591298,+#_8ad5a192bff3020cbca7d27f235b31d7p@chr2:235591286..235591298, +
1.81e-40FFCP PHASE2:Hg19::chr2:235591286..235591298,+#_8ad5a192bff3020cbca7d27f235b31d7p@chr2:235591286..235591298, +
2.71e-40FFCP PHASE2:Hg19::chr12:56347889..56347893,+#_eac1fc690abb58f68d2bc8f3fa863ce0p@chr12:56347889..56347893, +
2.71e-40FFCP PHASE1:Hg19::chr12:56347889..56347893,+#_eac1fc690abb58f68d2bc8f3fa863ce0p@chr12:56347889..56347893, +
3.55e-40FFCP PHASE2:Hg19::chr11:88911074..88911102,+#_f1c4fe8e86fdc645adac29a0fc97927cp2@TYR
3.55e-40FFCP PHASE1:Hg19::chr11:88911074..88911102,+#_f1c4fe8e86fdc645adac29a0fc97927cp2@TYR
4.94e-40FFCP PHASE2:Hg19::chr11:119217442..119217445,-#_94e9602d46debdb44e7838e7376518bfp5@MFRP, p6@C1QTNF5
4.94e-40FFCP PHASE2:Hg19::chr16:84228961..84228982,+#_94e9602d46debdb44e7838e7376518bfp@chr16:84228961..84228982, +
4.94e-40FFCP PHASE1:Hg19::chr16:84228961..84228982,+#_94e9602d46debdb44e7838e7376518bfp@chr16:84228961..84228982, +
4.94e-40FFCP PHASE1:Hg19::chr11:119217442..119217445,-#_94e9602d46debdb44e7838e7376518bfp5@MFRP, p6@C1QTNF5
7.95e-40FFCP PHASE1:Hg19::chr15:48413211..48413239,+#_2993b0ff60499723705e12cd5e0ff9c0p2@SLC24A5
7.95e-40FFCP PHASE2:Hg19::chr15:48413211..48413239,+#_2993b0ff60499723705e12cd5e0ff9c0p2@SLC24A5
2.78e-38FFCP PHASE2:Hg19::chr21:36041264..36041274,+#_c866eb7192ce0fedbd733bea3945abb5p3@CLIC6
2.78e-38FFCP PHASE1:Hg19::chr21:36041264..36041274,+#_c866eb7192ce0fedbd733bea3945abb5p3@CLIC6
4.61e-38FFCP PHASE2:Hg19::chr11:75201755..75201762,-#_879c6de1903a71ff4fb45386a5d13963p7@GDPD5
4.61e-38FFCP PHASE1:Hg19::chr11:75201755..75201762,-#_879c6de1903a71ff4fb45386a5d13963p7@GDPD5
1.26e-37FFCP PHASE1:Hg19::chr11:119217421..119217435,-#_97bc16d6d565d9d0327362baf6933616p4@MFRP, p5@C1QTNF5
1.26e-37FFCP PHASE2:Hg19::chr11:119217421..119217435,-#_97bc16d6d565d9d0327362baf6933616p4@MFRP, p5@C1QTNF5
1.43e-37FFCP PHASE1:Hg19::chr12:56351196..56351222,-#_e4965cb07789a5524d2feb30ae1658b4p7@PMEL
1.43e-37FFCP PHASE2:Hg19::chr12:56351196..56351222,-#_e4965cb07789a5524d2feb30ae1658b4p7@PMEL
9.55e-37FFCP PHASE2:Hg19::chr11:88911033..88911049,+#_ba4453dba31333bc985f3239b366b642p1@TYR
9.55e-37FFCP PHASE1:Hg19::chr11:88911033..88911049,+#_ba4453dba31333bc985f3239b366b642p1@TYR
8.49e-35FFCP PHASE1:Hg19::chr15:55563100..55563135,-#_d03c58eedc40a41e55bfb7774857bd72p4@RAB27A
8.49e-35FFCP PHASE2:Hg19::chr15:55563100..55563135,-#_d03c58eedc40a41e55bfb7774857bd72p4@RAB27A
8.49e-35FFCP PHASE1:Hg19::chr15:55562582..55562617,-#_d03c58eedc40a41e55bfb7774857bd72p3@RAB27A
8.49e-35FFCP PHASE2:Hg19::chr15:55562582..55562617,-#_d03c58eedc40a41e55bfb7774857bd72p3@RAB27A
5.06e-34FFCP PHASE1:Hg19::chr17:932596..932605,-#_dce7fe3928175e8446521505801338c7p@chr17:932596..932605, -
5.06e-34FFCP PHASE2:Hg19::chr17:932596..932605,-#_dce7fe3928175e8446521505801338c7p@chr17:932596..932605, -
8.36e-34FFCP PHASE2:Hg19::chr22:38480132..38480159,-#_3cccdcb96eb24d77af7ce508d58c5eb3p1@SLC16A8
8.36e-34FFCP PHASE2:Hg19::chr20:52790691..52790695,-#_3cccdcb96eb24d77af7ce508d58c5eb3p5@CYP24A1
8.36e-34FFCP PHASE1:Hg19::chr22:38480132..38480159,-#_3cccdcb96eb24d77af7ce508d58c5eb3p1@SLC16A8
8.36e-34FFCP PHASE1:Hg19::chr17:932340..932343,-#_3cccdcb96eb24d77af7ce508d58c5eb3p@chr17:932340..932343, -
8.36e-34FFCP PHASE2:Hg19::chr17:932340..932343,-#_3cccdcb96eb24d77af7ce508d58c5eb3p@chr17:932340..932343, -
8.36e-34FFCP PHASE1:Hg19::chr20:52790691..52790695,-#_3cccdcb96eb24d77af7ce508d58c5eb3p5@CYP24A1
1.38e-33FFCP PHASE1:Hg19::chr3:98672197..98672201,+#_d7d77e86898ea63c77e6db8e28972f76p@chr3:98672197..98672201, +
1.38e-33FFCP PHASE2:Hg19::chr3:98672197..98672201,+#_d7d77e86898ea63c77e6db8e28972f76p@chr3:98672197..98672201, +
1.63e-33FFCP PHASE1:Hg19::chr3:183733654..183733680,-#_ba15d014d2531b801ce2ee58e5298870p@chr3:183733654..183733680, -
1.63e-33FFCP PHASE2:Hg19::chr9:127025189..127025200,+#_ba15d014d2531b801ce2ee58e5298870p1@ENST00000437461
1.63e-33FFCP PHASE2:Hg19::chr3:183733654..183733680,-#_ba15d014d2531b801ce2ee58e5298870p@chr3:183733654..183733680, -
1.63e-33FFCP PHASE1:Hg19::chr9:127025189..127025200,+#_ba15d014d2531b801ce2ee58e5298870p1@ENST00000437461
2.89e-33FFCP PHASE1:Hg19::chr9:140088882..140088898,-#_c4a7e3a89afe20fb298db99ff68a52b0p@chr9:140088882..140088898, -
2.89e-33FFCP PHASE2:Hg19::chr9:140088882..140088898,-#_c4a7e3a89afe20fb298db99ff68a52b0p@chr9:140088882..140088898, -
6.19e-33FFCP PHASE2:Hg19::chr14:28081776..28081788,+#_f4d02250e757f16563ffe34ab1d8fd42p1@LOC100505967
6.19e-33FFCP PHASE1:Hg19::chr14:28081776..28081788,+#_f4d02250e757f16563ffe34ab1d8fd42p1@LOC100505967
1.18e-32FFCP PHASE1:Hg19::chr2:45169172..45169177,+#_ca05b734b4c8f56bbc39a35cb3debd8cp11@SIX3
1.18e-32FFCP PHASE2:Hg19::chr2:45169172..45169177,+#_ca05b734b4c8f56bbc39a35cb3debd8cp11@SIX3

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