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CL:0000129

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Name:microglial cell
Namespace:FANTOM
Definition:"A central nervous system macrophage found in the parenchyma of the central nervous system. Marker include CD11b-positive, F4/80-positive, and CD68-positive." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, MESH:D017628, PMID:11517395, PMID:12430718, PMID:14561199, PMID:14612429, PMID:16177057, PMID:19461673, PMID:2089275]
Xrefs:
links:

BTO:0000078
BTO:0000962
FMA:54539

FMA:54540
Synonyms: "brain macrophage" BROAD []
"brain-resident macrophage" EXACT []
"hortega cells" EXACT [1]
"MF.microglia.CNS" RELATED []
"microglia" EXACT []
"microgliocyte" EXACT [2]
Comments:Markers: Mouse: CD11b+, F4/80+, CD68+. They represent ~12% of the cells in the CNS, but they are not uniformly distributed within the CNS. A normal adult mouse brain has approximately 3.5x10e6 microglia. Microglia are also reportedly CD3-negative, CD4-positive, CD8-negative, CD11b-positive, CD19-negative, CD56-negative, CD163-negative, CD200R-positive, CD281-positive, CD282-positive, CD283-positive, CD284-positive, CD285-positive, CD286-positive, CD287-positive, CD288-positive, CD289-positive, Gr1-negative, nestin-positive, and PU.1-positive.


Ontology association
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.

link to ontology dataset
data


Parents

is_a:CL:0000243(glial cell (sensu Vertebrata)),CL:0000878(central nervous system macrophage)
develops_from:CL:0002453(oligodendrocyte precursor cell)
part_of:UBERON:0001017(central nervous system)



Children


is a:FF:0000100 (microglial cell)
derives from:FF:0000113 (mouse microglial cell sample)

Ontology Tree: Loaded from BioPortal


FF samples
It includes FANTOM5 samples that overlay the Cell ontology.


Human (Homo sapiens)

Mouse (Mus musculus)


Enrichment analysis: top 100 FFCP enriched with this ontology termTOP 100 FANTOM5 Cage Peaks enriched with CL:0000129 (microglial cell), sorted by p-values
Analyst: Hideya Kawaji

link to source dataset
human : data
mouse : data


P-valueFFCPShort description
1.87e-86FFCP PHASE2:Mm9::chr8:113227136..113227143,+#_830011477e36205b441e1057fa5cfac0p@chr8:113227136..113227143, +
1.87e-86FFCP PHASE2:Mm9::chr12:112646729..112646768,+#_830011477e36205b441e1057fa5cfac0p@chr12:112646729..112646768, +
1.87e-86FFCP PHASE1:Mm9::chr12:112646729..112646768,+#_830011477e36205b441e1057fa5cfac0p@chr12:112646729..112646768, +
1.87e-86FFCP PHASE1:Mm9::chr8:113227136..113227143,+#_830011477e36205b441e1057fa5cfac0p@chr8:113227136..113227143, +
1.68e-58FFCP PHASE1:Mm9::chr10:75403311..75403323,-#_28ea8393181c10719994f4a75930ce42p3@ENSMUST00000059658, p3@uc007fts.1
1.68e-58FFCP PHASE2:Mm9::chr10:75403311..75403323,-#_28ea8393181c10719994f4a75930ce42p3@ENSMUST00000059658, p3@uc007fts.1
1.66e-44FFCP PHASE1:Mm9::chr15:88808274..88808289,-#_d7d647ed8914ba0368313c83290ea8f2p@chr15:88808274..88808289, -
1.66e-44FFCP PHASE1:Mm9::chr10:59862550..59862553,+#_d7d647ed8914ba0368313c83290ea8f2p3@Gm17455
1.66e-44FFCP PHASE1:Mm9::chr11:102749101..102749112,-#_d7d647ed8914ba0368313c83290ea8f2p@chr11:102749101..102749112, -
1.66e-44FFCP PHASE2:Mm9::chr10:59862550..59862553,+#_d7d647ed8914ba0368313c83290ea8f2p3@Gm17455
1.66e-44FFCP PHASE2:Mm9::chr11:102749101..102749112,-#_d7d647ed8914ba0368313c83290ea8f2p@chr11:102749101..102749112, -
1.66e-44FFCP PHASE2:Mm9::chr15:88808274..88808289,-#_d7d647ed8914ba0368313c83290ea8f2p@chr15:88808274..88808289, -
2.75e-44FFCP PHASE2:Mm9::chr4:135525988..135526004,-#_789dc8a1cafa9b3433ad6ae1881dbe8bp@chr4:135525988..135526004, -
2.75e-44FFCP PHASE1:Mm9::chr4:135525988..135526004,-#_789dc8a1cafa9b3433ad6ae1881dbe8bp@chr4:135525988..135526004, -
4.55e-44FFCP PHASE1:Mm9::chr17:48934179..48934192,-#_c223dd1033647d17eb528d81bc0add21p@chr17:48934179..48934192, -
4.55e-44FFCP PHASE2:Mm9::chr17:48934179..48934192,-#_c223dd1033647d17eb528d81bc0add21p@chr17:48934179..48934192, -
7.52e-44FFCP PHASE2:Mm9::chr11:94506584..94506586,+#_5b9440d6aab0e4294ad2b8cdf5a9f300p@chr11:94506584..94506586, +
7.52e-44FFCP PHASE1:Mm9::chr11:94506584..94506586,+#_5b9440d6aab0e4294ad2b8cdf5a9f300p@chr11:94506584..94506586, +
4.23e-36FFCP PHASE2:Mm9::chr11:102749254..102749263,-#_84e5c698051da5e29039fbea880bf1a2p@chr11:102749254..102749263, -
4.23e-36FFCP PHASE1:Mm9::chr11:102749254..102749263,-#_84e5c698051da5e29039fbea880bf1a2p@chr11:102749254..102749263, -
2.13e-35FFCP PHASE1:Mm9::chr16:15895800..15895814,-#_597f78a11b1bcb98437d407aa61c274cp@chr16:15895800..15895814, -
2.13e-35FFCP PHASE2:Mm9::chr16:15895800..15895814,-#_597f78a11b1bcb98437d407aa61c274cp@chr16:15895800..15895814, -
4.75e-35FFCP PHASE1:Mm9::chr11:75244815..75244826,-#_a747405c4367765b2716e96e6c2870cap@chr11:75244815..75244826, -
4.75e-35FFCP PHASE2:Mm9::chr11:75244815..75244826,-#_a747405c4367765b2716e96e6c2870cap@chr11:75244815..75244826, -
1.73e-30FFCP PHASE1:Mm9::chr11:45567111..45567116,-#_15eeb93f8b2c3b8fd2ed55553b7b2e21p@chr11:45567111..45567116, -
1.73e-30FFCP PHASE2:Mm9::chr11:45567111..45567116,-#_15eeb93f8b2c3b8fd2ed55553b7b2e21p@chr11:45567111..45567116, -
3.41e-30FFCP PHASE2:Mm9::chr9:103595089..103595100,-#_ac5d173e60a8dd4e71f23e36522464a8p4@Tmem108
3.41e-30FFCP PHASE2:Mm9::chr17:35822365..35822376,-#_ac5d173e60a8dd4e71f23e36522464a8p@chr17:35822365..35822376, -
3.41e-30FFCP PHASE1:Mm9::chr9:103595089..103595100,-#_ac5d173e60a8dd4e71f23e36522464a8p4@Tmem108
3.41e-30FFCP PHASE1:Mm9::chr17:35822365..35822376,-#_ac5d173e60a8dd4e71f23e36522464a8p@chr17:35822365..35822376, -
4.77e-30FFCP PHASE1:Mm9::chr11:102754448..102754459,-#_d07d88075d714adae8b5a562bc7e142dp@chr11:102754448..102754459, -
4.77e-30FFCP PHASE2:Mm9::chr11:102754448..102754459,-#_d07d88075d714adae8b5a562bc7e142dp@chr11:102754448..102754459, -
6.69e-30FFCP PHASE1:Mm9::chr7:56865136..56865147,+#_2fdb027034483b4be917c37eb2f5673bp@chr7:56865136..56865147, +
6.69e-30FFCP PHASE2:Mm9::chr7:56865136..56865147,+#_2fdb027034483b4be917c37eb2f5673b+, p@chr7:56865136..56865147
1.31e-29FFCP PHASE1:Mm9::chr4:136452258..136452269,-#_7510679e9b1beeb9c5564a2fad398056p@chr4:136452258..136452269, -
1.31e-29FFCP PHASE2:Mm9::chr4:136452258..136452269,-#_7510679e9b1beeb9c5564a2fad398056-, p@chr4:136452258..136452269
1.78e-26FFCP PHASE2:Mm9::chr11:102754827..102754845,-#_cb16ab5f71908387d8318199614e5b94p@chr11:102754827..102754845, -
1.78e-26FFCP PHASE1:Mm9::chr11:102754827..102754845,-#_cb16ab5f71908387d8318199614e5b94p@chr11:102754827..102754845, -
2.38e-26FFCP PHASE1:Mm9::chr11:102750776..102750792,-#_40ff247d9f82cfbbdd1273d2e4299277p@chr11:102750776..102750792, -
2.38e-26FFCP PHASE2:Mm9::chr11:102750776..102750792,-#_40ff247d9f82cfbbdd1273d2e4299277p@chr11:102750776..102750792, -
4.27e-26FFCP PHASE1:Mm9::chr11:102807862..102807882,-#_92cb1c5120b11059ddf717e0dac5b08bp4@C1ql1
4.27e-26FFCP PHASE2:Mm9::chr11:102807862..102807882,-#_92cb1c5120b11059ddf717e0dac5b08bp4@C1ql1
7.61e-26FFCP PHASE2:Mm9::chr11:32036107..32036145,-#_36042962e11a2cb1dccb6c25798cf3bb-, p@chr11:32036107..32036145
7.61e-26FFCP PHASE1:Mm9::chr11:32036107..32036145,-#_36042962e11a2cb1dccb6c25798cf3bbp@chr11:32036107..32036145, -
1.02e-25FFCP PHASE1:Mm9::chr7:31844871..31844895,+#_a0bd3a20f343bfbf9ce9f59bc6268723p9@Lgi4
1.02e-25FFCP PHASE2:Mm9::chr7:31844871..31844895,+#_a0bd3a20f343bfbf9ce9f59bc6268723p9@Lgi4
1.35e-25FFCP PHASE2:Mm9::chr8:125951458..125951466,-#_5512d0cfe5fd816038f4b4cf5812cd17p@chr8:125951458..125951466, -
1.35e-25FFCP PHASE2:Mm9::chr1:72873192..72873206,+#_5512d0cfe5fd816038f4b4cf5812cd17p@chr1:72873192..72873206, +
1.35e-25FFCP PHASE2:Mm9::chr8:28132545..28132551,+#_5512d0cfe5fd816038f4b4cf5812cd17p@chr8:28132545..28132551, +
1.35e-25FFCP PHASE1:Mm9::chr1:72873192..72873206,+#_5512d0cfe5fd816038f4b4cf5812cd17p@chr1:72873192..72873206, +
1.35e-25FFCP PHASE1:Mm9::chr8:125951458..125951466,-#_5512d0cfe5fd816038f4b4cf5812cd17p@chr8:125951458..125951466, -
1.35e-25FFCP PHASE1:Mm9::chr8:28132545..28132551,+#_5512d0cfe5fd816038f4b4cf5812cd17p@chr8:28132545..28132551, +
1.8e-25FFCP PHASE1:Mm9::chr1:34754390..34754396,+#_e07a33bc9870f15df3e7295ff29219d3p@chr1:34754390..34754396, +
1.8e-25FFCP PHASE2:Mm9::chr1:174128785..174128802,+#_e07a33bc9870f15df3e7295ff29219d3p@chr1:174128785..174128802, +
1.8e-25FFCP PHASE1:Mm9::chr1:174128785..174128802,+#_e07a33bc9870f15df3e7295ff29219d3p@chr1:174128785..174128802, +
1.8e-25FFCP PHASE2:Mm9::chr1:34754390..34754396,+#_e07a33bc9870f15df3e7295ff29219d3p@chr1:34754390..34754396, +
3.19e-25FFCP PHASE2:Mm9::chr8:125951545..125951559,-#_0ae253533b8a3b95bec135e8925edee9p@chr8:125951545..125951559, -
3.19e-25FFCP PHASE2:Mm9::chr8:125952002..125952012,-#_0ae253533b8a3b95bec135e8925edee9p@chr8:125952002..125952012, -
3.19e-25FFCP PHASE1:Mm9::chr8:125956332..125956339,-#_0ae253533b8a3b95bec135e8925edee9p@chr8:125956332..125956339, -
3.19e-25FFCP PHASE2:Mm9::chr8:125952310..125952320,+#_0ae253533b8a3b95bec135e8925edee9p@chr8:125952310..125952320, +
3.19e-25FFCP PHASE1:Mm9::chr8:125952002..125952012,-#_0ae253533b8a3b95bec135e8925edee9p@chr8:125952002..125952012, -
3.19e-25FFCP PHASE2:Mm9::chr8:125956332..125956339,-#_0ae253533b8a3b95bec135e8925edee9p@chr8:125956332..125956339, -
3.19e-25FFCP PHASE1:Mm9::chr8:125951545..125951559,-#_0ae253533b8a3b95bec135e8925edee9p@chr8:125951545..125951559, -
3.19e-25FFCP PHASE1:Mm9::chr8:125952310..125952320,+#_0ae253533b8a3b95bec135e8925edee9p@chr8:125952310..125952320, +
5.1e-23FFCP PHASE2:Mm9::chr11:69414608..69414617,-#_3c22ef516fd677815646f6cf8d91a1a9p@chr11:69414608..69414617, -
5.1e-23FFCP PHASE1:Mm9::chr11:69414608..69414617,-#_3c22ef516fd677815646f6cf8d91a1a9p@chr11:69414608..69414617, -
8.47e-23FFCP PHASE2:Mm9::chr4:136436677..136436688,-#_98615a4c24dcb3f5a76f622bddd00996p@chr4:136436677..136436688, -
8.47e-23FFCP PHASE1:Mm9::chr3:87067576..87067584,-#_98615a4c24dcb3f5a76f622bddd00996p3@Fcrls
8.47e-23FFCP PHASE1:Mm9::chr4:136452194..136452198,-#_98615a4c24dcb3f5a76f622bddd00996p@chr4:136452194..136452198, -
8.47e-23FFCP PHASE1:Mm9::chr4:136436677..136436688,-#_98615a4c24dcb3f5a76f622bddd00996p@chr4:136436677..136436688, -
8.47e-23FFCP PHASE1:Mm9::chr3:87067625..87067636,-#_98615a4c24dcb3f5a76f622bddd00996p2@Fcrls
8.47e-23FFCP PHASE2:Mm9::chr4:136452194..136452198,-#_98615a4c24dcb3f5a76f622bddd00996-, p@chr4:136452194..136452198
8.47e-23FFCP PHASE2:Mm9::chr3:87067576..87067584,-#_98615a4c24dcb3f5a76f622bddd00996p3@Fcrls
8.47e-23FFCP PHASE2:Mm9::chr3:87067625..87067636,-#_98615a4c24dcb3f5a76f622bddd00996p2@Fcrls
9.5e-23FFCP PHASE2:Mm9::chr9:106363021..106363029,+#_9f0301db9f49f031e6f463c0207de1d8p11@Pcbp4
9.5e-23FFCP PHASE1:Mm9::chr5:123689685..123689727,+#_9f0301db9f49f031e6f463c0207de1d8p@chr5:123689685..123689727, +
9.5e-23FFCP PHASE2:Mm9::chr8:87232404..87232415,-#_9f0301db9f49f031e6f463c0207de1d8p22@Nfix
9.5e-23FFCP PHASE1:Mm9::chr15:103345675..103345685,+#_9f0301db9f49f031e6f463c0207de1d8p10@Pde1b
9.5e-23FFCP PHASE1:Mm9::chr17:24856898..24856901,+#_9f0301db9f49f031e6f463c0207de1d8p3@Gm10420, p3@Gm5786, p3@Gm8842, p3@Rps2
9.5e-23FFCP PHASE1:Mm9::chr8:96678044..96678046,-#_9f0301db9f49f031e6f463c0207de1d8p@chr8:96678044..96678046, -
9.5e-23FFCP PHASE2:Mm9::chr17:24856898..24856901,+#_9f0301db9f49f031e6f463c0207de1d8p3@Gm10420, p3@Gm5786, p3@Gm8842, p3@Rps2
9.5e-23FFCP PHASE2:Mm9::chr5:123689685..123689727,+#_9f0301db9f49f031e6f463c0207de1d8p@chr5:123689685..123689727, +
9.5e-23FFCP PHASE2:Mm9::chr8:96678044..96678046,-#_9f0301db9f49f031e6f463c0207de1d8p@chr8:96678044..96678046, -
9.5e-23FFCP PHASE1:Mm9::chr9:106363021..106363029,+#_9f0301db9f49f031e6f463c0207de1d8p11@Pcbp4
9.5e-23FFCP PHASE1:Mm9::chr19:6497758..6497764,+#_9f0301db9f49f031e6f463c0207de1d8p17@Nrxn2
9.5e-23FFCP PHASE1:Mm9::chr8:87232404..87232415,-#_9f0301db9f49f031e6f463c0207de1d8p22@Nfix
9.5e-23FFCP PHASE2:Mm9::chr19:6497758..6497764,+#_9f0301db9f49f031e6f463c0207de1d8p17@Nrxn2
9.5e-23FFCP PHASE2:Mm9::chr15:103345675..103345685,+#_9f0301db9f49f031e6f463c0207de1d8p10@Pde1b
1.4e-22FFCP PHASE1:Mm9::chr8:11006242..11006246,-#_e143c7b16aeaaa9a7892ef783d7f18ecp@chr8:11006242..11006246, -
1.4e-22FFCP PHASE2:Mm9::chr8:11006242..11006246,-#_e143c7b16aeaaa9a7892ef783d7f18ecp@chr8:11006242..11006246, -
1.8e-22FFCP PHASE1:Mm9::chr19:8788816..8788826,-#_4921b90938d728205d57b23d6acc96c4p14@Slc3a2
1.8e-22FFCP PHASE2:Mm9::chr19:8788816..8788826,-#_4921b90938d728205d57b23d6acc96c4p14@Slc3a2
2.32e-22FFCP PHASE1:Mm9::chr6:48997958..48997979,-#_6df47730ba1dce20c41605653c38d7dbp@chr6:48997958..48997979, -
2.32e-22FFCP PHASE2:Mm9::chr11:69478859..69478867,-#_6df47730ba1dce20c41605653c38d7dbp@chr11:69478859..69478867, -
2.32e-22FFCP PHASE2:Mm9::chr6:48997958..48997979,-#_6df47730ba1dce20c41605653c38d7dbp@chr6:48997958..48997979, -
2.32e-22FFCP PHASE1:Mm9::chr11:69478859..69478867,-#_6df47730ba1dce20c41605653c38d7dbp@chr11:69478859..69478867, -
2.97e-22FFCP PHASE2:Mm9::chr1:173164773..173164781,-#_5431e08ccc95008716559dc8eb96b4cfp3@Fcer1g
2.97e-22FFCP PHASE1:Mm9::chr1:173164773..173164781,-#_5431e08ccc95008716559dc8eb96b4cfp3@Fcer1g
4.07e-21FFCP PHASE1:Mm9::chr11:102749020..102749031,-#_b9dcf1da762ed0fb51bbab08c109366dp@chr11:102749020..102749031, -
4.07e-21FFCP PHASE2:Mm9::chr11:102749020..102749031,-#_b9dcf1da762ed0fb51bbab08c109366d-, p@chr11:102749020..102749031