chip-atlas の紹介とその連携 -...
Post on 29-Jul-2020
0 Views
Preview:
TRANSCRIPT
ChIP-seqとプロテオーム:公共データをつないで使う
ChIP-Atlas の紹介とその連携
2018. 10. 05
トーゴーの日 2018
ワークショップ
九州大学大学院・医学研究院発生再生医学分野・助教
◯ 沖 真弥
九州大学大学院・医学研究院医化学分野・講師
三浦史仁
国立がん研究センターがん分子修飾制御学分野・分野長
浜本隆二
RIKEN・情報基盤センター予防医療・ゲノミクス応用開発ユニット・リーダー
川路英哉JST NBDC 統合化推進プログラム「エピゲノミクス統合データベースの開発と機能拡充」
Licensed under a Creative Commons表示4.0国際ライセンス(c)2018沖 真弥(九州大学大学院医学研究院)
ChIP-Atlas: ��������
注) じっさいは本ではなくWebサービスです。
↓"High'throughput"sequencing" Park PJ (2009) Nat Rev Genet
ChIP-seq: 転写因子の結合部位を同定できるChIP-seq = Chromatin Immunoprecipitation with Sequencing
ChIP-seqデータの報告件数
10,0000 20,000 30,000
As of July. 2018.
0 10000 20000 30000 40000
hg19mm9
rn6dm3ce10
sacCer3
H. sapiens (hg19)
M. musculus (mm9)
D. melanogaster (dm3)
C. elegans (ce10)
S. cerevisiae (sacCer3)
R. norvegicus (rn6)
データ処理・公開しているデータ
Sample metadata
Foxa2
データ統合・データマイニング
AlignmentPeak-call Curation
SRX330668 Ezh2 ES cells
SRX310198 Ctcf Mast cells
SRX1092953 Cebpa Liver
ID 抗原 細胞
SRA (配列生データ)
4つの機能 ��������
4つの機能 ��������
Foxa2 遺伝子の周りに何が結合してる?
Peak Browser
Low High 1 500 1000
MACS2 score
Low High 1 500 1000
MACS2 score
Peak Browser・「なにがどこに結合するか?」がすべてわかる。・シス調節領域の特定に応用できる。
Low High 1 500 1000
MACS2 score
Peak Browser
4億peaks3万
experiments
(Human data)
(Human data)
POU5F1 の標的遺伝子は?
Target Genes
Target Genes
Fig. 3
2/18/16, 23:25ChIP-Atlas | Target genes
Page 1 of 22http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/target/POU5F1.5.html
ChIP-Atlas: Target genesPotential target genes for POU5F1
Query protein: POU5F1Distance from TSS: ± 1 kb ± 5 kb ± 10 kbSort key: POU5F1 | Average Color legends
1000 750 500 250 1 0 (Values = Binding scores of MACS2 and STRING)
Download: TSV (text)Links: Movie and Document for ChIP-Atlas Target Genes
POU5F1'sTarget genes
REST ↻↻ ≫
CD99L2 ↻↻ ≫
ARHGEF38 ↻↻ ≫
STAT3 ↻↻ ≫
SMARCA2 ↻↻ ≫
SOX2 ↻↻ ≫
GIMAP5 ↻↻ ≫
DPPA5 ↻↻ ≫
MAMDC2 ↻↻ ≫
CLDN9 ↻↻ ≫
RNF219 ↻↻ ≫
PCSK1 ↻↻ ≫
TMPRSS11E ↻↻ ≫
GPRC5B ↻↻ ≫
KIAA1919 ↻↻ ≫
SNRPN ↻↻ ≫
PHC1 ↻↻ ≫
PRICKLE1 ↻↻ ≫
PIPOX ↻↻ ≫
SRRM4 ↻↻ ≫
ANKRD1 ↻↻ ≫
AHCYL2 ↻↻ ≫
NANOG ↻↻ ≫
AGO1 ↻↻ ≫
POU5F1 ↻↻ ≫
◣ POU5F1:
Averag
e
◢ SRX1300
60: B
J
◢ SRX1857
75: B
J
◢ SRX1053
369:
Embryonic
Stem Cells
◢ SRX1053
370:
Embryonic
Stem Cells
◢ SRX1053
378:
Embryonic
Stem Cells
◢ SRX1053
379:
Embryonic
Stem Cells
◢ SRX7020
68: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
63: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
64: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
67: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0115
71: h
ESC H1
◢ SRX0115
72: h
ESC H1
◢ SRX0172
76: h
ESC H1
◢ SRX1004
83: h
ESC H1
◢ SRX0210
69: h
ESC H9
◢ SRX0210
70: h
ESC H9
◢ SRX0210
71: h
ESC H9
◢ SRX2668
59: h
ESC HUES64
◢ SRX7020
65: h
ESC HUES64
◢ SRX7020
66: h
ESC HUES64
◢ SRX7020
69: h
ESC HUES64
◢ SRX5123
69: iP
S cells
◢ SRX1234
43: N
CCIT
◢ SRX1234
45: N
CCIT
◢ POU5F1:
STRING
a
b
2/18/16, 23:25ChIP-Atlas | Target genes
Page 1 of 22http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/target/POU5F1.5.html
ChIP-Atlas: Target genesPotential target genes for POU5F1
Query protein: POU5F1Distance from TSS: ± 1 kb ± 5 kb ± 10 kbSort key: POU5F1 | Average Color legends
1000 750 500 250 1 0 (Values = Binding scores of MACS2 and STRING)
Download: TSV (text)Links: Movie and Document for ChIP-Atlas Target Genes
POU5F1'sTarget genes
REST ↻↻ ≫
CD99L2 ↻↻ ≫
ARHGEF38 ↻↻ ≫
STAT3 ↻↻ ≫
SMARCA2 ↻↻ ≫
SOX2 ↻↻ ≫
GIMAP5 ↻↻ ≫
DPPA5 ↻↻ ≫
MAMDC2 ↻↻ ≫
CLDN9 ↻↻ ≫
RNF219 ↻↻ ≫
PCSK1 ↻↻ ≫
TMPRSS11E ↻↻ ≫
GPRC5B ↻↻ ≫
KIAA1919 ↻↻ ≫
SNRPN ↻↻ ≫
PHC1 ↻↻ ≫
PRICKLE1 ↻↻ ≫
PIPOX ↻↻ ≫
SRRM4 ↻↻ ≫
ANKRD1 ↻↻ ≫
AHCYL2 ↻↻ ≫
NANOG ↻↻ ≫
AGO1 ↻↻ ≫
POU5F1 ↻↻ ≫
◣ POU5F1:
Averag
e
◢ SRX1300
60: B
J
◢ SRX1857
75: B
J
◢ SRX1053
369:
Embryonic
Stem Cells
◢ SRX1053
370:
Embryonic
Stem Cells
◢ SRX1053
378:
Embryonic
Stem Cells
◢ SRX1053
379:
Embryonic
Stem Cells
◢ SRX7020
68: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
63: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
64: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
67: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0115
71: h
ESC H1
◢ SRX0115
72: h
ESC H1
◢ SRX0172
76: h
ESC H1
◢ SRX1004
83: h
ESC H1
◢ SRX0210
69: h
ESC H9
◢ SRX0210
70: h
ESC H9
◢ SRX0210
71: h
ESC H9
◢ SRX2668
59: h
ESC HUES64
◢ SRX7020
65: h
ESC HUES64
◢ SRX7020
66: h
ESC HUES64
◢ SRX7020
69: h
ESC HUES64
◢ SRX5123
69: iP
S cells
◢ SRX1234
43: N
CCIT
◢ SRX1234
45: N
CCIT
◢ POU5F1:
STRING
MACS2 score
Non
e
1 500 1000
RPM 0 2
1kbREST
ARHGEF38
CD99L2
STAT3
SOX2
SMARCA2
NANOG POU5F1
–0.3 kb –3.8 kb +2.9kb –0.1 kb +3.7 kb +4.2 kb –0.1 kb –2.4 kb
Pluripotent cells
Pluripotent cellswith less reads
Differentiated cells
Fig. 3
2/18/16, 23:25ChIP-Atlas | Target genes
Page 1 of 22http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/target/POU5F1.5.html
ChIP-Atlas: Target genesPotential target genes for POU5F1
Query protein: POU5F1Distance from TSS: ± 1 kb ± 5 kb ± 10 kbSort key: POU5F1 | Average Color legends
1000 750 500 250 1 0 (Values = Binding scores of MACS2 and STRING)
Download: TSV (text)Links: Movie and Document for ChIP-Atlas Target Genes
POU5F1'sTarget genes
REST ↻↻ ≫
CD99L2 ↻↻ ≫
ARHGEF38 ↻↻ ≫
STAT3 ↻↻ ≫
SMARCA2 ↻↻ ≫
SOX2 ↻↻ ≫
GIMAP5 ↻↻ ≫
DPPA5 ↻↻ ≫
MAMDC2 ↻↻ ≫
CLDN9 ↻↻ ≫
RNF219 ↻↻ ≫
PCSK1 ↻↻ ≫
TMPRSS11E ↻↻ ≫
GPRC5B ↻↻ ≫
KIAA1919 ↻↻ ≫
SNRPN ↻↻ ≫
PHC1 ↻↻ ≫
PRICKLE1 ↻↻ ≫
PIPOX ↻↻ ≫
SRRM4 ↻↻ ≫
ANKRD1 ↻↻ ≫
AHCYL2 ↻↻ ≫
NANOG ↻↻ ≫
AGO1 ↻↻ ≫
POU5F1 ↻↻ ≫
◣ POU5F1:
Averag
e
◢ SRX1300
60: B
J
◢ SRX1857
75: B
J
◢ SRX1053
369:
Embryonic
Stem Cells
◢ SRX1053
370:
Embryonic
Stem Cells
◢ SRX1053
378:
Embryonic
Stem Cells
◢ SRX1053
379:
Embryonic
Stem Cells
◢ SRX7020
68: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
63: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
64: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
67: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0115
71: h
ESC H1
◢ SRX0115
72: h
ESC H1
◢ SRX0172
76: h
ESC H1
◢ SRX1004
83: h
ESC H1
◢ SRX0210
69: h
ESC H9
◢ SRX0210
70: h
ESC H9
◢ SRX0210
71: h
ESC H9
◢ SRX2668
59: h
ESC HUES64
◢ SRX7020
65: h
ESC HUES64
◢ SRX7020
66: h
ESC HUES64
◢ SRX7020
69: h
ESC HUES64
◢ SRX5123
69: iP
S cells
◢ SRX1234
43: N
CCIT
◢ SRX1234
45: N
CCIT
◢ POU5F1:
STRING
a
b
2/18/16, 23:25ChIP-Atlas | Target genes
Page 1 of 22http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/target/POU5F1.5.html
ChIP-Atlas: Target genesPotential target genes for POU5F1
Query protein: POU5F1Distance from TSS: ± 1 kb ± 5 kb ± 10 kbSort key: POU5F1 | Average Color legends
1000 750 500 250 1 0 (Values = Binding scores of MACS2 and STRING)
Download: TSV (text)Links: Movie and Document for ChIP-Atlas Target Genes
POU5F1'sTarget genes
REST ↻↻ ≫
CD99L2 ↻↻ ≫
ARHGEF38 ↻↻ ≫
STAT3 ↻↻ ≫
SMARCA2 ↻↻ ≫
SOX2 ↻↻ ≫
GIMAP5 ↻↻ ≫
DPPA5 ↻↻ ≫
MAMDC2 ↻↻ ≫
CLDN9 ↻↻ ≫
RNF219 ↻↻ ≫
PCSK1 ↻↻ ≫
TMPRSS11E ↻↻ ≫
GPRC5B ↻↻ ≫
KIAA1919 ↻↻ ≫
SNRPN ↻↻ ≫
PHC1 ↻↻ ≫
PRICKLE1 ↻↻ ≫
PIPOX ↻↻ ≫
SRRM4 ↻↻ ≫
ANKRD1 ↻↻ ≫
AHCYL2 ↻↻ ≫
NANOG ↻↻ ≫
AGO1 ↻↻ ≫
POU5F1 ↻↻ ≫
◣ POU5F1:
Averag
e
◢ SRX1300
60: B
J
◢ SRX1857
75: B
J
◢ SRX1053
369:
Embryonic
Stem Cells
◢ SRX1053
370:
Embryonic
Stem Cells
◢ SRX1053
378:
Embryonic
Stem Cells
◢ SRX1053
379:
Embryonic
Stem Cells
◢ SRX7020
68: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
63: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
64: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
67: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0115
71: h
ESC H1
◢ SRX0115
72: h
ESC H1
◢ SRX0172
76: h
ESC H1
◢ SRX1004
83: h
ESC H1
◢ SRX0210
69: h
ESC H9
◢ SRX0210
70: h
ESC H9
◢ SRX0210
71: h
ESC H9
◢ SRX2668
59: h
ESC HUES64
◢ SRX7020
65: h
ESC HUES64
◢ SRX7020
66: h
ESC HUES64
◢ SRX7020
69: h
ESC HUES64
◢ SRX5123
69: iP
S cells
◢ SRX1234
43: N
CCIT
◢ SRX1234
45: N
CCIT
◢ POU5F1:
STRING
MACS2 score
Non
e
1 500 1000
RPM 0 2
1kbREST
ARHGEF38
CD99L2
STAT3
SOX2
SMARCA2
NANOG POU5F1
–0.3 kb –3.8 kb +2.9kb –0.1 kb +3.7 kb +4.2 kb –0.1 kb –2.4 kb
Pluripotent cells
Pluripotent cellswith less reads
Differentiated cells
Target Genes
結合度高低
例) POU5F1 の標的遺伝子 (TSS ± 5 kb)
in silico ChIPTarget GenesNANOG STAT3 IL10
SRX021071 POU5F1 hESC H9SRX021069 POU5F1 hESC H9SRX021070 POU5F1 hESC H9SRX017276 POU5F1 hESC H1SRX011572 POU5F1 hESC H1SRX100483 POU5F1 hESC H1SRX011571 POU5F1 hESC H1SRX702067 POU5F1 hESC derived cellsSRX702069 POU5F1 hESC HUES64SRX702068 POU5F1 hESC derived cellsSRX1053379 POU5F1 Embryonic Stem CellsSRX1053370 POU5F1 Embryonic Stem CellsSRX1053378 POU5F1 Embryonic Stem CellsSRX1813578 POU5F1 iPS cellsSRX1053369 POU5F1 Embryonic Stem CellsSRX123443 POU5F1 NCCITSRX1813579 POU5F1 iPS cellsSRX123445 POU5F1 NCCITSRX266859 POU5F1 hESC HUES64SRX512369 POU5F1 iPS cellsSRX702063 POU5F1 hESC derived cellsSRX2881139 POU5F1 hESC H9SRX702065 POU5F1 hESC HUES64SRX702066 POU5F1 hESC HUES64SRX2881140 POU5F1 hESC H9SRX702064 POU5F1 hESC derived cells
ID TF Cell
NANOG と共局在する転写因子は?
Colocalization
Colocalization
POU5F1 REST
2017/06/13 10)04ChIP-Atlas | Colocalization
Page 1 of 7http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/NANOG.Pluripotent_stem_cell.html
ChIP-Atlas: Colocalization analysisColocalization analysis for NANOG
Query protein: NANOGCell class: Pluripotent stem cellSort key: NANOG | Average Color legends
ChIP-seq data: H-H H-M M-M H-L M-L L-L N.D. Same (Peak intensities are High, Middle or Low)
STRING data: 1000 750 500 250 0 N.D. (Values = STRING's binding scores)
Downloads: TSV (text), GML (Cytoscape)Links: Movie and Document for ChIP-Atlas Colocalization
Cell types Exp. IDsNANOG'sColocalizationpartners
iPS cells SRX512370 SOX2 ↻↻ ≫
hESC H9 SRX1047413 SOX2 ↻↻ ≫
Embryonic Stem Cells SRX1053379 POU5F1 ↻↻ ≫
Embryonic Stem Cells SRX1053378 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX702043 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702042 NANOG ↻↻ ≫
hESC HUES64 SRX702041 NANOG ↻↻ ≫
hESC HUES64 SRX702040 NANOG ↻↻ ≫
hESC HUES64 SRX702039 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702037 NANOG ↻↻ ≫
hESC HUES64 SRX702036 NANOG ↻↻ ≫
hESC HUES64 SRX266863 NANOG ↻↻ ≫
hESC HUES64 SRX266862 NANOG ↻↻ ≫
hESC H9 SRX1303985 NANOG ↻↻ ≫
hESC H1 SRX100482 NANOG ↻↻ ≫
hESC H1 SRX017277 NANOG ↻↻ ≫
hESC H1 SRX011618 NANOG ↻↻ ≫
hESC H1 SRX011617 NANOG ↻↻ ≫
hESC H9 SRX027488 SMARCA4 ↻↻ ≫
hESC H1 SRX833403 CTNNB1 ↻↻ ≫
hESC H1 SRX833420 NIPBL ↻↻ ≫
hESC H9 SRX027482 EP300 ↻↻ ≫
hESC HUES64 SRX702045 OTX2 ↻↻ ≫
hESC HUES64 SRX702069 POU5F1 ↻↻ ≫
hESC HUES64 SRX266859 POU5F1 ↻↻ ≫
hESC HUES64 SRX702132 TCF4 ↻↻ ≫
hESC H1 SRX833422 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053369 POU5F1 ↻↻ ≫
NCCIT SRX123445 POU5F1 ↻↻ ≫
hESC H1 SRX833421 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053370 POU5F1 ↻↻ ≫
hESC H1 SRX833401 LEF1 ↻↻ ≫
hESC H1 SRX833423 NIPBL ↻↻ ≫
iPS cells SRX512369 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX684516 T ↻↻ ≫
hESC HUES64 SRX702052 OTX2 ↻↻ ≫
hESC derived mesendodermal cells SRX701971 EOMES ↻↻ ≫
hESC HUES64 SRX702053 OTX2 ↻↻ ≫
hESC H1 SRX011616 SOX2 ↻↻ ≫
hESC H1 SRX100390 HDAC2 ↻↻ ≫
hESC derived mesendodermal cells SRX701972 EOMES ↻↻ ≫
hESC H1 SRX100587 EP300 ↻↻ ≫
hESC H1 SRX100472 TCF12 ↻↻ ≫
hESC derived mesendodermal cells SRX764809 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX702047 OTX2 ↻↻ ≫
hESC derived neural cells SRX1047416 SOX2 ↻↻ ≫
hESC derived mesendodermal cells SRX764810 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266856 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266855 FOXA2 ↻↻ ≫
◣ NANOG: Ave
rage
◢ SRX7020
44: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
37: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
38: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
42: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
43: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0116
17: h
ESC H1
◢ SRX0116
18: h
ESC H1
◢ SRX0172
77: h
ESC H1
◢ SRX1004
82: h
ESC H1
◢ SRX1303
985:
hESC H9
◢ SRX2668
62: h
ESC HUES64
◢ SRX2668
63: h
ESC HUES64
◢ SRX7020
36: h
ESC HUES64
◢ SRX7020
39: h
ESC HUES64
◢ SRX7020
40: h
ESC HUES64
◢ SRX7020
41: h
ESC HUES64
◢ NANOG: STR
ING
2017/06/13 10)04ChIP-Atlas | Colocalization
Page 1 of 7http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/NANOG.Pluripotent_stem_cell.html
ChIP-Atlas: Colocalization analysisColocalization analysis for NANOG
Query protein: NANOGCell class: Pluripotent stem cellSort key: NANOG | Average Color legends
ChIP-seq data: H-H H-M M-M H-L M-L L-L N.D. Same (Peak intensities are High, Middle or Low)
STRING data: 1000 750 500 250 0 N.D. (Values = STRING's binding scores)
Downloads: TSV (text), GML (Cytoscape)Links: Movie and Document for ChIP-Atlas Colocalization
Cell types Exp. IDsNANOG'sColocalizationpartners
iPS cells SRX512370 SOX2 ↻↻ ≫
hESC H9 SRX1047413 SOX2 ↻↻ ≫
Embryonic Stem Cells SRX1053379 POU5F1 ↻↻ ≫
Embryonic Stem Cells SRX1053378 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX702043 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702042 NANOG ↻↻ ≫
hESC HUES64 SRX702041 NANOG ↻↻ ≫
hESC HUES64 SRX702040 NANOG ↻↻ ≫
hESC HUES64 SRX702039 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702037 NANOG ↻↻ ≫
hESC HUES64 SRX702036 NANOG ↻↻ ≫
hESC HUES64 SRX266863 NANOG ↻↻ ≫
hESC HUES64 SRX266862 NANOG ↻↻ ≫
hESC H9 SRX1303985 NANOG ↻↻ ≫
hESC H1 SRX100482 NANOG ↻↻ ≫
hESC H1 SRX017277 NANOG ↻↻ ≫
hESC H1 SRX011618 NANOG ↻↻ ≫
hESC H1 SRX011617 NANOG ↻↻ ≫
hESC H9 SRX027488 SMARCA4 ↻↻ ≫
hESC H1 SRX833403 CTNNB1 ↻↻ ≫
hESC H1 SRX833420 NIPBL ↻↻ ≫
hESC H9 SRX027482 EP300 ↻↻ ≫
hESC HUES64 SRX702045 OTX2 ↻↻ ≫
hESC HUES64 SRX702069 POU5F1 ↻↻ ≫
hESC HUES64 SRX266859 POU5F1 ↻↻ ≫
hESC HUES64 SRX702132 TCF4 ↻↻ ≫
hESC H1 SRX833422 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053369 POU5F1 ↻↻ ≫
NCCIT SRX123445 POU5F1 ↻↻ ≫
hESC H1 SRX833421 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053370 POU5F1 ↻↻ ≫
hESC H1 SRX833401 LEF1 ↻↻ ≫
hESC H1 SRX833423 NIPBL ↻↻ ≫
iPS cells SRX512369 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX684516 T ↻↻ ≫
hESC HUES64 SRX702052 OTX2 ↻↻ ≫
hESC derived mesendodermal cells SRX701971 EOMES ↻↻ ≫
hESC HUES64 SRX702053 OTX2 ↻↻ ≫
hESC H1 SRX011616 SOX2 ↻↻ ≫
hESC H1 SRX100390 HDAC2 ↻↻ ≫
hESC derived mesendodermal cells SRX701972 EOMES ↻↻ ≫
hESC H1 SRX100587 EP300 ↻↻ ≫
hESC H1 SRX100472 TCF12 ↻↻ ≫
hESC derived mesendodermal cells SRX764809 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX702047 OTX2 ↻↻ ≫
hESC derived neural cells SRX1047416 SOX2 ↻↻ ≫
hESC derived mesendodermal cells SRX764810 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266856 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266855 FOXA2 ↻↻ ≫
◣ NANOG: Ave
rage
◢ SRX7020
44: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
37: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
38: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
42: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
43: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0116
17: h
ESC H1
◢ SRX0116
18: h
ESC H1
◢ SRX0172
77: h
ESC H1
◢ SRX1004
82: h
ESC H1
◢ SRX1303
985:
hESC H9
◢ SRX2668
62: h
ESC HUES64
◢ SRX2668
63: h
ESC HUES64
◢ SRX7020
36: h
ESC HUES64
◢ SRX7020
39: h
ESC HUES64
◢ SRX7020
40: h
ESC HUES64
◢ SRX7020
41: h
ESC HUES64
◢ NANOG: STR
ING 2 kb
CoLocalization score1 9
None
Same SRX
STRING PPI score1 1,000500
Fig. S3
POU5F1 REST
2017/06/13 10)04ChIP-Atlas | Colocalization
Page 1 of 7http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/NANOG.Pluripotent_stem_cell.html
ChIP-Atlas: Colocalization analysisColocalization analysis for NANOG
Query protein: NANOGCell class: Pluripotent stem cellSort key: NANOG | Average Color legends
ChIP-seq data: H-H H-M M-M H-L M-L L-L N.D. Same (Peak intensities are High, Middle or Low)
STRING data: 1000 750 500 250 0 N.D. (Values = STRING's binding scores)
Downloads: TSV (text), GML (Cytoscape)Links: Movie and Document for ChIP-Atlas Colocalization
Cell types Exp. IDsNANOG'sColocalizationpartners
iPS cells SRX512370 SOX2 ↻↻ ≫
hESC H9 SRX1047413 SOX2 ↻↻ ≫
Embryonic Stem Cells SRX1053379 POU5F1 ↻↻ ≫
Embryonic Stem Cells SRX1053378 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX702043 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702042 NANOG ↻↻ ≫
hESC HUES64 SRX702041 NANOG ↻↻ ≫
hESC HUES64 SRX702040 NANOG ↻↻ ≫
hESC HUES64 SRX702039 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702037 NANOG ↻↻ ≫
hESC HUES64 SRX702036 NANOG ↻↻ ≫
hESC HUES64 SRX266863 NANOG ↻↻ ≫
hESC HUES64 SRX266862 NANOG ↻↻ ≫
hESC H9 SRX1303985 NANOG ↻↻ ≫
hESC H1 SRX100482 NANOG ↻↻ ≫
hESC H1 SRX017277 NANOG ↻↻ ≫
hESC H1 SRX011618 NANOG ↻↻ ≫
hESC H1 SRX011617 NANOG ↻↻ ≫
hESC H9 SRX027488 SMARCA4 ↻↻ ≫
hESC H1 SRX833403 CTNNB1 ↻↻ ≫
hESC H1 SRX833420 NIPBL ↻↻ ≫
hESC H9 SRX027482 EP300 ↻↻ ≫
hESC HUES64 SRX702045 OTX2 ↻↻ ≫
hESC HUES64 SRX702069 POU5F1 ↻↻ ≫
hESC HUES64 SRX266859 POU5F1 ↻↻ ≫
hESC HUES64 SRX702132 TCF4 ↻↻ ≫
hESC H1 SRX833422 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053369 POU5F1 ↻↻ ≫
NCCIT SRX123445 POU5F1 ↻↻ ≫
hESC H1 SRX833421 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053370 POU5F1 ↻↻ ≫
hESC H1 SRX833401 LEF1 ↻↻ ≫
hESC H1 SRX833423 NIPBL ↻↻ ≫
iPS cells SRX512369 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX684516 T ↻↻ ≫
hESC HUES64 SRX702052 OTX2 ↻↻ ≫
hESC derived mesendodermal cells SRX701971 EOMES ↻↻ ≫
hESC HUES64 SRX702053 OTX2 ↻↻ ≫
hESC H1 SRX011616 SOX2 ↻↻ ≫
hESC H1 SRX100390 HDAC2 ↻↻ ≫
hESC derived mesendodermal cells SRX701972 EOMES ↻↻ ≫
hESC H1 SRX100587 EP300 ↻↻ ≫
hESC H1 SRX100472 TCF12 ↻↻ ≫
hESC derived mesendodermal cells SRX764809 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX702047 OTX2 ↻↻ ≫
hESC derived neural cells SRX1047416 SOX2 ↻↻ ≫
hESC derived mesendodermal cells SRX764810 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266856 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266855 FOXA2 ↻↻ ≫
◣ NANOG: Ave
rage
◢ SRX7020
44: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
37: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
38: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
42: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
43: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0116
17: h
ESC H1
◢ SRX0116
18: h
ESC H1
◢ SRX0172
77: h
ESC H1
◢ SRX1004
82: h
ESC H1
◢ SRX1303
985:
hESC H9
◢ SRX2668
62: h
ESC HUES64
◢ SRX2668
63: h
ESC HUES64
◢ SRX7020
36: h
ESC HUES64
◢ SRX7020
39: h
ESC HUES64
◢ SRX7020
40: h
ESC HUES64
◢ SRX7020
41: h
ESC HUES64
◢ NANOG: STR
ING
2017/06/13 10)04ChIP-Atlas | Colocalization
Page 1 of 7http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/NANOG.Pluripotent_stem_cell.html
ChIP-Atlas: Colocalization analysisColocalization analysis for NANOG
Query protein: NANOGCell class: Pluripotent stem cellSort key: NANOG | Average Color legends
ChIP-seq data: H-H H-M M-M H-L M-L L-L N.D. Same (Peak intensities are High, Middle or Low)
STRING data: 1000 750 500 250 0 N.D. (Values = STRING's binding scores)
Downloads: TSV (text), GML (Cytoscape)Links: Movie and Document for ChIP-Atlas Colocalization
Cell types Exp. IDsNANOG'sColocalizationpartners
iPS cells SRX512370 SOX2 ↻↻ ≫
hESC H9 SRX1047413 SOX2 ↻↻ ≫
Embryonic Stem Cells SRX1053379 POU5F1 ↻↻ ≫
Embryonic Stem Cells SRX1053378 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX702043 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702042 NANOG ↻↻ ≫
hESC HUES64 SRX702041 NANOG ↻↻ ≫
hESC HUES64 SRX702040 NANOG ↻↻ ≫
hESC HUES64 SRX702039 NANOG ↻↻ ≫
hESC derived mesendodermal cells SRX702037 NANOG ↻↻ ≫
hESC HUES64 SRX702036 NANOG ↻↻ ≫
hESC HUES64 SRX266863 NANOG ↻↻ ≫
hESC HUES64 SRX266862 NANOG ↻↻ ≫
hESC H9 SRX1303985 NANOG ↻↻ ≫
hESC H1 SRX100482 NANOG ↻↻ ≫
hESC H1 SRX017277 NANOG ↻↻ ≫
hESC H1 SRX011618 NANOG ↻↻ ≫
hESC H1 SRX011617 NANOG ↻↻ ≫
hESC H9 SRX027488 SMARCA4 ↻↻ ≫
hESC H1 SRX833403 CTNNB1 ↻↻ ≫
hESC H1 SRX833420 NIPBL ↻↻ ≫
hESC H9 SRX027482 EP300 ↻↻ ≫
hESC HUES64 SRX702045 OTX2 ↻↻ ≫
hESC HUES64 SRX702069 POU5F1 ↻↻ ≫
hESC HUES64 SRX266859 POU5F1 ↻↻ ≫
hESC HUES64 SRX702132 TCF4 ↻↻ ≫
hESC H1 SRX833422 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053369 POU5F1 ↻↻ ≫
NCCIT SRX123445 POU5F1 ↻↻ ≫
hESC H1 SRX833421 NIPBL ↻↻ ≫
Embryonic Stem Cells SRX1053370 POU5F1 ↻↻ ≫
hESC H1 SRX833401 LEF1 ↻↻ ≫
hESC H1 SRX833423 NIPBL ↻↻ ≫
iPS cells SRX512369 POU5F1 ↻↻ ≫
hESC derived mesendodermal cells SRX684516 T ↻↻ ≫
hESC HUES64 SRX702052 OTX2 ↻↻ ≫
hESC derived mesendodermal cells SRX701971 EOMES ↻↻ ≫
hESC HUES64 SRX702053 OTX2 ↻↻ ≫
hESC H1 SRX011616 SOX2 ↻↻ ≫
hESC H1 SRX100390 HDAC2 ↻↻ ≫
hESC derived mesendodermal cells SRX701972 EOMES ↻↻ ≫
hESC H1 SRX100587 EP300 ↻↻ ≫
hESC H1 SRX100472 TCF12 ↻↻ ≫
hESC derived mesendodermal cells SRX764809 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX702047 OTX2 ↻↻ ≫
hESC derived neural cells SRX1047416 SOX2 ↻↻ ≫
hESC derived mesendodermal cells SRX764810 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266856 FOXA2 ↻↻ ≫
hESC derived mesendodermal cells SRX266855 FOXA2 ↻↻ ≫
◣ NANOG: Ave
rage
◢ SRX7020
44: h
ESC derive
d ectod
ermal
cells
◢ SRX7020
37: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
38: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
42: h
ESC derive
d mes
endod
ermal
cells
◢ SRX7020
43: h
ESC derive
d mes
endod
ermal
cells
◢ SRX0116
17: h
ESC H1
◢ SRX0116
18: h
ESC H1
◢ SRX0172
77: h
ESC H1
◢ SRX1004
82: h
ESC H1
◢ SRX1303
985:
hESC H9
◢ SRX2668
62: h
ESC HUES64
◢ SRX2668
63: h
ESC HUES64
◢ SRX7020
36: h
ESC HUES64
◢ SRX7020
39: h
ESC HUES64
◢ SRX7020
40: h
ESC HUES64
◢ SRX7020
41: h
ESC HUES64
◢ NANOG: STR
ING 2 kb
CoLocalization score1 9
None
Same SRX
STRING PPI score1 1,000500
Fig. S3
類似度高低
Colocalization
in silico ChIPColocalization例) NANOG と共局在する転写因子
SRX702043 NANOG hESC derived cellsSRX702042 NANOG hESC derived cellsSRX702041 NANOG hESC HUES64SRX702040 NANOG hESC HUES64SRX702039 NANOG hESC HUES64SRX702037 NANOG hESC derived cellsSRX702036 NANOG hESC HUES64SRX266863 NANOG hESC HUES64SRX266862 NANOG hESC HUES64SRX1303985 NANOG hESC H9SRX100482 NANOG hESC H1SRX017277 NANOG hESC H1SRX011618 NANOG hESC H1SRX011617 NANOG hESC H1SRX512370 SOX2 iPS cellsSRX1047413 SOX2 hESC H9SRX1053379 POU5F1 Embryonic Stem CellsSRX1053378 POU5F1 Embryonic Stem CellsSRX027488 SMARCA4 hESC H9SRX833403 CTNNB1 hESC H1SRX833420 NIPBL hESC H1SRX027482 EP300 hESC H9SRX702045 OTX2 hESC HUES64SRX702069 POU5F1 hESC HUES64SRX266859 POU5F1 hESC HUES64SRX702132 TCF4 hESC HUES64SRX833422 NIPBL hESC H1SRX1053369 POU5F1 Embryonic Stem CellsSRX123445 POU5F1 NCCITSRX833421 NIPBL hESC H1SRX1053370 POU5F1 Embryonic Stem CellsSRX833401 LEF1 hESC H1SRX833423 NIPBL hESC H1SRX512369 POU5F1 iPS cellsSRX684516 T hESC derived cellsSRX702052 OTX2 hESC HUES64SRX701971 EOMES hESC derived cellsSRX702053 OTX2 hESC HUES64SRX011616 SOX2 hESC H1
ID TF CellSOX2
Enrichment Analysis
自分のデータを解析できる
こんな方におすすめ
遺伝子群の上流を知りたい!
Enrichment Analysis
発現が上昇する遺伝子群
発現が低下する遺伝子群
乳がん SNP のゲノム座標
その他の SNP のゲノム座標
ゲノム座標を入れることもできるEnrichment Analysis
Enrichment Analysis の利用例
0 5 10 15
1
2
3
4
5
6
7
8
9
10
0 10 20 30
1
2
3
4
5
6
7
8
9
10
0 4 8
1
2
3
4
5
6
7
8
9
10
SRX371474 ESR1 BT-474 SRX1469952 ESR1 T-47D SRX371475 ESR1 BT-474 SRX371476 ESR1 MCF-7 SRX128100 TFAP2C BT-474 SRX100559 GATA3 T-47D SRX1531791 ESR1 MCF-7 SRX1961164 FOXA1 T-47D SRX1161182 NR3C1 ZR-75-1 SRX666556 HIF1A T-47D
SRX212650 STAT1 Monocytes
SRX831873 STAT5B CD8+ T cells
SRX1023792 PU.1 Macrophages
SRX831874 STAT5B CD8+ T cells
SRX212648 STAT1 Monocytes
SRX2770855 PU.1 Macrophages
SRX2770857 PU.1 Macrophages
SRX831878 STAT5B CD8+ T cells
SRX212649 STAT1 Monocytes
SRX831879 STAT5B CD8+ T cells
SRX1023792 PU.1 Macrophages
SRX1023790 PU.1 Macrophages
SRX2770854 PU.1 Macrophages
SRX212650 STAT1 Monocytes
SRX2770855 PU.1 Macrophages
SRX100443 PU.1 GM12891
SRX682376 ERG TSU-1621MT SRX1023793 PU.1 Macrophages
SRX190187 FOXM1 GM12878
SRX117009 FLI1 NB-4
実験 ID TF Cell 0 5 10 0 10 20 0 5 10実験 ID TF Cell 実験 ID TF Cell–Log10P –Log10P –Log10P
A 乳がん B 炎症性腸疾患 C乾癬乳がん SNPs の結果 炎症性腸疾患 SNPs の結果
Enrichment Analysis の利用例
解析された遺伝子群-薬剤投与で変動する遺伝子群 (Anan et al, 2018, NAR)
-若い vs 老化細胞 (Onodera et al, 2018, Aging Cell)
-がん化のステージ特異的遺伝子群 (Chatterjee et al, 2018, BCRT)
解析されたゲノム領域群-疾患と関連する SNPs (Oki et al, in preparation)
-遺伝子発現に影響する SNPs (Ishigaki et al, 2018, Nat Genet)
-ユーザの ChIP-seqデータ (Anan et al, 2018, NAR)
-進化的保存領域 (Ferris et al, 2018, Cell Rep)
Peak Browser
Target Genes Enrichment Analysis Colocalization
… …
ChIP-Atlas でできること
運営状況
ちゃんと更新しています!!
毎月更新中(1,500 件/月)
0
20,000
40,000
60,000
80,000
0
20,000
40,000
60,000
80,000
Jan-14 Jan-15 Jan-16 Jan-17 Jan-18
2014 2015 2016 2017 2018
公開
データ数(累積)
Year
ちゃんと使われています!!海外グループ 国内グループ
Wang H 2018 J. Biol. Chem. Nishizawa Y 2018 OncotargetStudd JB 2018 Leukemia Miura I 2018 J. Psychiatr. Res.
Romero SL 2018 Sci. Rep. Misawa A 2018 Calcif. Tissue Int.Raffield LM 2018 PLoS Genet. Kawaji H 2018 BioRxivPeggion C 2018 Mol. Neurobiol. Chishima T 2018 GenesOchsner S 2018 BioRxiv Anan K 2018 NARMourad R 2018 Genome Biol. Yoshihara M 2017 Cell Rep.
Mao F 2018 NAR Umeyama T 2017 Cell Rep.Lareau CA 2018 BioRxiv Tanegashima K 2017 Genes to Cells
Kehl T 2018 Int. J. Cancer Sanosaka T 2017 Cell Rep.Kehl T 2018 Bioinformatics Onodera Y 2017 Aging Cell
Imrichova H 2018 BioRxiv Matsuda K 2017 DevelopmentFiziev P 2018 Genome Biol. Ishigaki K 2017 Nat. Genet.Ferris E 2018 Cell Rep. Sugeno N 2016 Sci. Rep.Dréos R 2018 NAR
Cui C 2018 GPBChèneby 2018 NAR
Chatterjee S 2018 BCRTBocci M 2018 AngiogenesisBaldi S 2018 BioRxiv
Åkerborg Ö 2018 BioRxivYevshin I 2017 NAR
Turrell FK 2017 Genes Dev.Naderi A 2017 Oncotarget
Kehl T 2017 NARKalender 2017 Genome Med.Guo MH 2017 PNAS
Govaere O 2017 OncogeneChen Y 2017 Genome Biol. 43 報 (as of Sep 2018)
つながれています!!
布教活動してます!!
発生生物学会発生における代謝研究会AMED 老化拠点会議トーゴーの日Keystone symposium
CSHL meeting
NGS 現場の会個性創発脳班会議ConBio 2017
日本再生医療学会
学会・シンポジウム名古屋大学東京大学大阪大学CiRA
横浜理研徳島大学国立がんセンター先端医療センター東京医科歯科大学医薬基盤研
出張講義旭川医科大学慶應義塾大学東京農業大学岩手医科大学九州工業大学
Supported by JST 統合化推進プログラム
謝辞Web UI の作製, 様々な提言大田 達郎 (DBCLS)
構想, 提案塩井 剛 (RIKEN)
CoLoの提供仲木 竜 (東大)
データ可視化川路 英哉 (RIKEN)
計算機NIG supercomputer
WABI の作製小笠原 理奥田 喜広 (DDBJ)
サーバ提供畠中 秀樹 (NBDC)
統計解析瀬々 潤 (産総研)
データ考察目野 主税 (九大)
H27 年度 統合化推進プログラムH29 年度 統合化推進プログラム
研究費
老化メカニズムの解明・制御プロジェクト老化研究推進・支援拠点
公益信託加藤記念難病研究助成基金その他、ご協力いただいた方々
基盤研究 B (特設分野)
ChIP-Atlas をつないで使う
Peak Browser
Target Genes Colocalization
ChIP-Atlas とつないだ DB, ツール
Peak Browser データの中身
染色体 Start End 結合度 抗原名 細胞名chr10 71759707 71760025 461 Ctcf AML12chr10 71759797 71760092 297 Ctcf CH12chr10 71759915 71760052 138 H3K9me3 Embryonic Stem Cellschr10 79896742 79897040 185 H3K27me3 CD4-Positive T-Lymphocyteschr10 95540252 95540329 232 H3K4me3 Neuro-2achr10 110669400 110669772 255 Nanog Embryonic Stem Cellschr11 3000446 3000513 427 H3K4me3 iPS cellschr11 3001313 3002392 267 H3K4me2 iPS cellschr11 3096207 3096278 244 Rai1 Cortexchr11 34495358 34495532 913 Cebpb Hematopoietic progenitorschr11 53953995 53954137 302 Gata2 Uteruschr11 108872998 108873368 281 DNase-Seq CH12chr11 108873002 108873397 269 Nfia Brown adipocyteschr11 121843522 121843856 318 Cebpa Brown adipocyteschr11 121843543 121843856 380 Cebpb Brown adipocyteschr12 3109672 3110298 302 Rag1 B-Lymphocyteschr12 3109719 3110271 258 Sall4 Spermatogoniachr12 3109794 3110163 271 Ebf4 Olfactory Nervechr12 3109842 3110121 309 Lhx2 Olfactory Nervechr12 3109852 3110137 152 Tead4 Liver
ゲノム座標 + 抗原・細胞名
…
�説明のため少し簡略化しています
UCSC Browser との連携
共同開発:川路英哉 (RIKEN)
DBKEROとの連携
共同開発:鈴木穣 (東大)
DeepBlueとの連携
共同開発:Felipe Albrecht (MPI)
Target Genes データの中身転写因子↔標的遺伝子の対応表
…
転写因子 標的遺伝子 結合度SOX2 ABCB7 322SOX2 HADHB 639SOX2 HADHA 639SOX2 PYCR2 334SOX2 GIMAP5 854SOX2 PDE6D 350SOX2 COPS7B 350SOX2 ACSL5 567SOX2 RIOK2 522SOX2 RNF180 166SOX2 FNBP4 455SOX2 CGAS 771SOX2 TMEM19 572SOX2 RPE 356POU5F1 WNT5B 833POU5F1 BCL10 764POU5F1 OSBPL3 612POU5F1 CAV1 804POU5F1 SAMHD1 659POU5F1 S100Z 515
�説明のため少し簡略化しています
RegulatorTrailとの連携
RegulatorTrailとの連携
いつのまにか連携していた。
Colocalization データの中身転写因子↔共局在候補因子の対応表
…
転写因子 類似因子 細胞名 類似度SOX2 POU3F2 Neural progenitor 7SOX2 SOX2 ReN-VM 1SOX2 FOXP1 OF4155 9SOX2 DYRK1A T98G 4SOX2 MYC BT168 3SOX2 MYC D54 9SOX2 SVIL SH-SY5Y 7SOX2 KDM1A SH-SY5Y 6SOX2 BRD4 Retina 8SOX2 KLF4 Glioblastoma 4SOX2 SMARCC1 BT-16 1SOX2 YY1 SK-N-SH 2SOX2 MYCN NB-1643 1SOX2 MYCN KELLY 7SOX2 MYCN NGP 9BRD4 MYCN Neuroblastoma 5BRD4 MYCN BE(2)-C 8BRD4 MYCN IMR-5 1BRD4 MYCN SK-N-BE(2) 8BRD4 GATA3 BE(2)-C 1
�説明のため少し簡略化しています
jPOSTとの連携(予定)
TF–TF 共局在予測
ChIP-AtlasPPI データ
jPOST
相互リンク
つなぎかたのトリセツ
つなぎかたのトリセツ
つなぎかたのトリセツ
つなぎかたのトリセツ
沖 の 片想い ❤
TogoVar・DPV・TASUKE+SNP における転写因子結合
TargetMine薬剤で変動する遺伝子の上流探索
KEGGパスウェイのハブ因子の特定
RefEx・SHOGoiN・SCPortalen・FANTOM組織特異的遺伝子の上流探索
CRISPRdirectエピゲノムに基づく標的領域の候補づけ
Plant GARDEN植物ゲノムの ChIP-seq データ
top related