|
Dataset ID |
Species |
Tissue / Organ |
Experiment type |
Sample |
Source dataset ID |
Project ID |
1. |
PRJNA554650 (6.5dpf) |
Danio rerio |
brain |
baseline |
6.5dpf, whole brain of nr1d1:VNP fish |
SRR9685040
|
PRJNA554650 |
2. |
PRJNA415636 (brain) |
Danio rerio |
brain |
baseline |
adult, Zebrabow M, brain |
SRR6811819
|
PRJNA415636 |
3. |
GSE158142 (15dpf) |
Danio rerio |
brain, eye |
baseline |
15dpf, untreatment |
GSM4793238
|
GSE158142 |
4. |
GSE158142 (5dpf) |
Danio rerio |
brain, eye |
baseline |
5dpf, untreatment |
GSM4793216
|
GSE158142 |
5. |
GSE158142 (8dpf) |
Danio rerio |
brain, eye |
baseline |
8dpf, untreatment |
GSM4793234
|
GSE158142 |
6. |
GSE151354 (wild type) |
Danio rerio |
cartilage |
baseline |
21dpf, wild type |
GSM4575942
|
GSE151354 |
7. |
GSE151354 (nkx3.2 mutant) |
Danio rerio |
cartilage |
growth |
21dpf, nkx3.2 mutant |
GSM4575943
|
GSE151354 |
8. |
PRJNA610520 (3.5dpf) |
Danio rerio |
caudal hematopoietic tissue |
baseline |
3.5dpf, the mixture of same amount of kdrl:mCherry+ cells, CD41:GFP+ cells and double negative cells. |
SRR11243177
|
PRJNA610520 |
9. |
PRJNA610520 (4.5dpf) |
Danio rerio |
caudal hematopoietic tissue |
baseline |
4.5dpf, the mixture of same amount of kdrl:mCherry+ cells, CD41:GFP+ cells and double negative cells. |
SRR11243184
|
PRJNA610520 |
10. |
GSE144944 (fgfr3 +|+) |
Danio rerio |
cranial vault |
baseline |
1mpf, fgfr3 +/+ |
GSM4301248
|
GSE144944 |
11. |
GSE144944 (fgfr3 -|-) |
Danio rerio |
cranial vault |
growth |
1mpf, fgfr3 -/- |
GSM4301250
|
GSE144944 |
12. |
GSE130526 (fin) |
Danio rerio |
dorsal and anal fin |
baseline |
adult, fins were amputated from fish expressing both pnp4a:palmmCherry and tyrp1b:palmmCherry |
GSM3741778
|
GSE130526 |
13. |
PRJNA706197 (20hpf) |
Danio rerio |
embryo |
baseline |
20hpf, FACS sorted sox10:nEOS cells |
SRR13839965
|
PRJNA706197 |
14. |
PRJNA640816 (2.9dpf) |
Danio rerio |
embryo |
baseline |
2.9dpf, FACS isolated -4.9sox10:EGFP+ cells |
SRR12060555
|
PRJNA640816 |
15. |
PRJNA656271 (24hpf) |
Danio rerio |
embryo |
baseline |
24hpf, FACS-isolated EGFP+ cells |
SRR12424272
|
PRJNA656271 |
16. |
GSE173972 (WT, ezh1+|+) |
Danio rerio |
embryo |
baseline |
1.25dpf, Kdrl-positive embryos |
GSM5283739
|
GSE173972 |
17. |
PRJNA734348 (dome, dnmt1) |
Danio rerio |
embryo |
growth |
4.3hpf, dome, oocyte microinjection with Rhodamine B and dnmt1 MO at oogenesis III stage (GV) |
SRR14703458
|
PRJNA734348 |
18. |
PRJNA564810 (1dpf) |
Danio rerio |
embryo |
baseline |
1dpf, a single-cell transcriptome atlas for zebrafish development |
SRR10095968
|
PRJNA564810 |
19. |
PRJNA706197 (24hpf) |
Danio rerio |
embryo |
baseline |
24hpf, FACS sorted sox10:nEOS cells |
SRR13839972
|
PRJNA706197 |
20. |
GSE106587 (WT) |
Danio rerio |
embryo |
baseline |
12hpf, 6 somites, wild-type TLAB embryo |
GSM3084402
|
GSE106587 |
21. |
GSE173972 (HET, ezh1+|-) |
Danio rerio |
embryo |
hematopoietic |
1.25dpf, Kdrl-positive embryos |
GSM5283741
|
GSE173972 |
22. |
PRJNA706197 (12hpf) |
Danio rerio |
embryo |
baseline |
12hpf, FACS sorted sox10:nEOS cells |
SRR13839954
|
PRJNA706197 |
23. |
GSE168695 (5dpf) |
Danio rerio |
embryo |
baseline |
5dpf, GFP+ cells isolated from 5 dpf cldnb:lyn-EGFP embryos |
GSM5158857
|
GSE168695 |
24. |
PRJNA656271 (1.5dpf) |
Danio rerio |
embryo |
baseline |
1.5dpf, FACS-isolated EGFP+ cells |
SRR12424276
|
PRJNA656271 |
25. |
PRJNA734348 (shield, control) |
Danio rerio |
embryo |
baseline |
6hpf, shield, oocyte microinjection with Rhodamine B and control MO at oogenesis III stage (GV) |
SRR14703469
|
PRJNA734348 |
26. |
GSE126647 (control) |
Danio rerio |
embryo |
baseline |
1.17dpf, control nkx2.5:ZsYellow+ cells |
GSM3610370
|
GSE126647 |
27. |
PRJNA564810 (5dpf) |
Danio rerio |
embryo |
baseline |
5dpf, a single-cell transcriptome atlas for zebrafish development |
SRR10095964
|
PRJNA564810 |
28. |
PRJNA706197 (1.25dpf) |
Danio rerio |
embryo |
baseline |
1.25dpf, FACS sorted sox10:nEOS cells |
SRR13839973
|
PRJNA706197 |
29. |
GSE106587 (MZoep mutant) |
Danio rerio |
embryo |
baseline |
12hpf, 6 somites, maternal zygotic oep tz57 mutant embryo |
GSM3084403
|
GSE106587 |
30. |
GSE158849 (labeled) |
Danio rerio |
embryo |
baseline |
6hpf, WT, 4sUTP injected (labeled) |
GSM4812182
|
GSE158849 |
31. |
PRJNA656271 (2dpf) |
Danio rerio |
embryo |
baseline |
2dpf, FACS-isolated EGFP+ cells |
SRR12424278
|
PRJNA656271 |
32. |
GSE173972 (KO, ezh1-|-) |
Danio rerio |
embryo |
hematopoietic |
1.25dpf, Kdrl-positive embryos |
GSM5283743
|
GSE173972 |
33. |
PRJNA706197 (14hpf) |
Danio rerio |
embryo |
baseline |
14hpf, FACS sorted sox10:nEOS cells |
SRR13839958
|
PRJNA706197 |
34. |
PRJNA734348 (shield, dnmt1) |
Danio rerio |
embryo |
growth |
6hpf, shield, oocyte microinjection with Rhodamine B and dnmt1 MO at oogenesis III stage (GV) |
SRR14703474
|
PRJNA734348 |
35. |
PRJNA640816 (2dpf) |
Danio rerio |
embryo |
baseline |
2dpf, FACS isolated -4.9sox10:EGFP+ cells |
SRR12060552
|
PRJNA640816 |
36. |
PRJNA734348 (dome, control) |
Danio rerio |
embryo |
baseline |
4.3hpf, dome, oocyte microinjection with Rhodamine B and control MO at oogenesis III stage (GV) |
SRR14703452
|
PRJNA734348 |
37. |
GSE126647 (Pbx4-depleted) |
Danio rerio |
embryo |
growth |
1.17dpf, Pbx4-depleted nkx2.5:ZsYellow+ cells |
GSM3610371
|
GSE126647 |
38. |
PRJNA564810 (2dpf) |
Danio rerio |
embryo |
baseline |
2dpf, a single-cell transcriptome atlas for zebrafish development |
SRR10095966
|
PRJNA564810 |
39. |
PRJNA706197 (18hpf) |
Danio rerio |
embryo |
baseline |
18hpf, FACS sorted sox10:nEOS cells |
SRR13839979
|
PRJNA706197 |
40. |
GSE158849 (unlabeled) |
Danio rerio |
embryo |
baseline |
6hpf, WT, 4sUTP injected (unlabeled) |
GSM4812182
|
GSE158849 |
41. |
GSE161712 (M. marinum) |
Danio rerio |
granulomas |
disease |
adult, infected with bacteria of M. marinum |
GSM4913139
|
GSE161712 |
42. |
GSE158142 (3dpf) |
Danio rerio |
head |
baseline |
3dpf, untreatment |
GSM4793207
|
GSE158142 |
43. |
GSE158142 (24hpf) |
Danio rerio |
head |
baseline |
24hpf, untreatment |
GSM4793196
|
GSE158142 |
44. |
GSE158142 (16hpf) |
Danio rerio |
head |
baseline |
16hpf, 14 somites, untreatment |
GSM4793189
|
GSE158142 |
45. |
GSE158142 (1.5dpf) |
Danio rerio |
head |
baseline |
1.5dpf, untreatment |
GSM4793199
|
GSE158142 |
46. |
GSE158142 (18hpf) |
Danio rerio |
head |
baseline |
18hpf, 18 somites, untreatment |
GSM4793191
|
GSE158142 |
47. |
GSE158142 (12hpf) |
Danio rerio |
head |
baseline |
12hpf, 6 somites, untreatment |
GSM4793185
|
GSE158142 |
48. |
GSE158142 (2dpf) |
Danio rerio |
head |
baseline |
2dpf, untreatment |
GSM4793201
|
GSE158142 |
49. |
GSE158142 (20hpf) |
Danio rerio |
head |
baseline |
20hpf, 21-22 somites, untreatment |
GSM4793193
|
GSE158142 |
50. |
GSE158142 (14hpf) |
Danio rerio |
head |
baseline |
14hpf, 10 somites, untreatment |
GSM4793187
|
GSE158142 |
51. |
PRJNA608912 (kit_14dpi) |
Danio rerio |
heart |
regeneration |
5mpf, kit mutant, 14 days post injury |
SRR11186480
|
PRJNA608912 |
52. |
PRJNA608912 (kit_uninjuried) |
Danio rerio |
heart |
regeneration |
5mpf, kit mutant, uninjured |
SRR11186457
|
PRJNA608912 |
53. |
PRJNA608912 (wt_2dpi) |
Danio rerio |
heart |
regeneration |
5mpf, wild type, 2 days post injury |
SRR11186440
|
PRJNA608912 |
54. |
PRJNA608912 (kit_2dpi) |
Danio rerio |
heart |
regeneration |
5mpf, kit mutant, 2 days post injury |
SRR11186464
|
PRJNA608912 |
55. |
PRJNA608912 (wt_7dpi) |
Danio rerio |
heart |
regeneration |
5mpf, wild type, 7 days post injury |
SRR11186448
|
PRJNA608912 |
56. |
PRJNA608912 (kit_7dpi) |
Danio rerio |
heart |
regeneration |
5mpf, kit mutant, 7 days post injury |
SRR11186472
|
PRJNA608912 |
57. |
PRJNA608912 (wt_14dpi) |
Danio rerio |
heart |
regeneration |
5mpf, wild type, 14 days post injury |
SRR11186452
|
PRJNA608912 |
58. |
PRJNA608912 (wt_unjuried) |
Danio rerio |
heart |
baseline |
5mpf, wild type, uninjured |
SRR11186432
|
PRJNA608912 |
59. |
PRJNA415636 (heart, blood) |
Danio rerio |
heart, blood |
baseline |
adult, Zebrabow M, heart and blood |
SRR6211492
|
PRJNA415636 |
60. |
PRJNA415636 (pancreas, liver) |
Danio rerio |
hepatopancreas |
baseline |
adult, Zebrabow M, pancreas and liver |
SRR6211488
|
PRJNA415636 |
61. |
PRJNA754013 (zebrafish) |
Danio rerio |
hypothalamus |
baseline |
adult, male, female, untreatment |
SRR15422672
|
PRJNA754013 |
62. |
GSE150498 (DSS treated) |
Danio rerio |
intestine |
disease |
6dpf, DSS treated |
GSM4551416
|
GSE150498 |
63. |
GSE150498 (nod2-|-, 2X DSS) |
Danio rerio |
intestine |
disease |
6dpf, nod2-/-, 2X DSS |
GSM4878630
|
GSE150498 |
64. |
GSE150498 (nod2-|-, 1X DSS) |
Danio rerio |
intestine |
disease |
6dpf, nod2-/-, 1X DSS |
GSM4878625
|
GSE150498 |
65. |
GSE150498 (wildtype, untreated) |
Danio rerio |
intestine |
baseline |
6dpf, wildtype, untreated |
GSM4878622
|
GSE150498 |
66. |
GSE150498 (nod2-|-, 2X DSS+BZA) |
Danio rerio |
intestine |
disease |
6dpf, nod2-/-, 2X DSS+BZA |
GSM4878631
|
GSE150498 |
67. |
GSE150498 (nod2-|-, untreated) |
Danio rerio |
intestine |
disease |
6dpf, nod2-/-, untreated |
GSM4878623
|
GSE150498 |
68. |
GSE150498 (wildtype, 2X DSS) |
Danio rerio |
intestine |
disease |
6dpf, wildtype, 2X DSS |
GSM4878627
|
GSE150498 |
69. |
GSE150498 (untreated ctrl) |
Danio rerio |
intestine |
baseline |
6dpf, untreated ctrl |
GSM4551415
|
GSE150498 |
70. |
GSE150498 (wildtype, 2X DSS+BZA) |
Danio rerio |
intestine |
disease |
6dpf, wildtype, 2X DSS+BZA |
GSM4878628
|
GSE150498 |
71. |
GSE150498 (wildtype, 1X DSS) |
Danio rerio |
intestine |
disease |
6dpf, wildtype, 1X DSS |
GSM4878624
|
GSE150498 |
72. |
GSE137784 (HCC, CreLox) |
Danio rerio |
liver |
disease |
6mpf, male, isolated from the zebrafish without HCC |
GSM4087820
|
GSE137784 |
73. |
GSE137784 (no HCC) |
Danio rerio |
liver |
baseline |
6mpf, male, isolated from the CreLox zebrafish with HCC |
GSM4087821
|
GSE137784 |
74. |
GSE137784 (HCC, HepABC) |
Danio rerio |
liver |
disease |
6mpf, male, isolated from the Tg(fabp10a:pt-B-cat)(HepABC) zebrafish with HCC |
GSM4087819
|
GSE137784 |
75. |
GSE123241 (wild type) |
Danio rerio |
neuromast |
baseline |
5dpf, wild type during sensory hair cell regeneration, lateral line sensory |
GSM3498552
|
GSE123241 |
76. |
PRJNA605021 (supporting cells) |
Danio rerio |
neuromast |
baseline |
7dpf, posterior lateral-line neuromast cells were isolated from the dissociated trunks of Tg[Et(krt4:EGFP)sqgw57A] transgenic zebrafish larvae |
SRR11031289
|
PRJNA605021 |
77. |
GSE123241 (fgf3 mutants) |
Danio rerio |
neuromast |
regeneration |
5dpf, fgf3 mutants during sensory hair cell regeneration, lateral line sensory |
GSM3498553
|
GSE123241 |
78. |
PRJNA605021 (hair cells) |
Danio rerio |
neuromast |
baseline |
7dpf, posterior lateral-line neuromast cells were isolated from the dissociated trunks of Tg[myo6b:actb1-EGFP] transgenic zebrafish larvae |
SRR11031290
|
PRJNA605021 |
79. |
GSE123241 (fgf3 siblings) |
Danio rerio |
neuromast |
regeneration |
5dpf, fgf3 siblings during sensory hair cell regeneration, lateral line sensory |
GSM3498554
|
GSE123241 |
80. |
PRJNA668529 (control) |
Danio rerio |
olfactory rosette |
baseline |
3mpf, intranasal PBS |
SRR12858259
|
PRJNA668529 |
81. |
PRJNA668529 (3d) |
Danio rerio |
olfactory rosette |
disease |
3mpf, intranasal 100ng r-Spike 3 days |
SRR12858254
|
PRJNA668529 |
82. |
PRJNA668529 (3h) |
Danio rerio |
olfactory rosette |
disease |
3mpf, intranasal 100ng r-Spike 3 hours |
SRR12858255
|
PRJNA668529 |
83. |
GSE148591 (3mpf) |
Danio rerio |
pituitary |
transplant |
3mpf, graft transplantation during early embryogenesis |
GSM4474605
|
GSE148591 |
84. |
GSE148591 (6mpf) |
Danio rerio |
pituitary |
baseline |
6mpf, male, Sox17:CreERT2 |
GSM4474603
|
GSE148591 |
85. |
PRJNA415636 (primary pancreatic islet) |
Danio rerio |
primary pancreatic islet |
baseline |
adult, Zebrabow M, primary pancreatic islet |
SRR6811821
|
PRJNA415636 |
86. |
GSE122680 (1.5dpf) |
Danio rerio |
retina |
baseline |
1.5dpf, WT, untreatment |
GSM3478014
|
GSE122680 |
87. |
GSE122680 (2dpf) |
Danio rerio |
retina |
baseline |
2dpf, WT, untreatment |
GSM4233148
|
GSE122680 |
88. |
GSE175929 (5mpf) |
Danio rerio |
retina |
baseline |
5mpf, GFP-positive cells collected from two transgenic zebrafish, Tg(rho:EGFP)ja2Tg and Tg(gnat2:EGFP)ja23Tg |
GSM5351368
|
GSE175929 |
89. |
PRJNA672101 (nrl-KO) |
Danio rerio |
retina |
growth |
5mpf, three retinas from nrl-KO zebrafsih |
SRR12899703
|
PRJNA672101 |
90. |
GSE122680 (3dpf) |
Danio rerio |
retina |
baseline |
3dpf, WT, untreatment |
GSM3478018
|
GSE122680 |
91. |
PRJNA672101 (WT) |
Danio rerio |
retina |
baseline |
5mpf, three retinas from WT zebrafsih |
SRR12899698
|
PRJNA672101 |
92. |
GSE122680 (14dpf) |
Danio rerio |
retina |
baseline |
14dpf, WT, untreatment |
GSM3478019
|
GSE122680 |
93. |
GSE122680 (24hpf) |
Danio rerio |
retina |
baseline |
24hpf, WT, untreatment |
GSM3478013
|
GSE122680 |
94. |
PRJNA551501 (2mpf) |
Danio rerio |
thyroid gland |
baseline |
2mpf, Tg(tg:mVenus-T2A-NTR) |
SRR9609653
|
PRJNA551501 |
95. |
PRJNA551501 (8mpf) |
Danio rerio |
thyroid gland |
baseline |
8mpf, Tg(tg:mVenus-T2A-NTR) |
SRR9609654
|
PRJNA551501 |
96. |
GSE163907 (24hpf) |
Danio rerio |
trunk |
baseline |
24hpf, trunk tg(sox10:GFP) positive cells |
GSM4990514
|
GSE163907 |
97. |
GSE152982 (wild type) |
Danio rerio |
trunk |
baseline |
1.25dpf, untreatment |
GSM4631066
|
GSE152982 |
98. |
GSE131136 (all) |
Danio rerio |
trunk, skin |
baseline |
5dpf, sox10:CRE positive cells from 5dpf and post-embryonic zebrafish trunks with and without thyroid hormone |
GSE131136
|
GSE131136 |
99. |
PRJNA641144 (C_PRO) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-PRO cells in vitro co-culture |
SRR12070806
|
PRJNA641144 |
100. |
PRJNA641144 (D_INV) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-INV cells in vitro individual culture |
SRR12070771
|
PRJNA641144 |
101. |
PRJNA641144 (P_PRO) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-PRO cells in vivo primary tumors |
SRR12070742
|
PRJNA641144 |
102. |
GSE159709 (melanoma) |
Danio rerio |
tumor |
disease |
adult, equal numbers of sorted GFP+ (tumor) and GFP- (macroenvironment) cells |
GSM4838134
|
GSE159709 |
103. |
PRJNA641144 (D_PRO) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-PRO cells in vitro individual culture |
SRR12070788
|
PRJNA641144 |
104. |
PRJNA641144 (M_INV) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-INV cells in vivo metastases |
SRR12070746
|
PRJNA641144 |
105. |
PRJNA641144 (C_INV) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-INV cells in vitro co-culture |
SRR12070794
|
PRJNA641144 |
106. |
PRJNA641144 (M_PRO) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-PRO cells in vivo metastases |
SRR12070758
|
PRJNA641144 |
107. |
PRJNA641144 (P_INV) |
Danio rerio |
tumor |
disease |
adult, ZMEL1-INV cells in vivo primary tumors |
SRR12070722
|
PRJNA641144 |
108. |
GSE158099 (runx1 -|-) |
Danio rerio |
whole body |
hematopoietic |
16dpf, cd41:GFPlow-runx1-/- |
GSM4792216
|
GSE158099 |
109. |
GSE176129 (pdgfrb-positive) |
Danio rerio |
whole body |
baseline |
5dpf, FACS-isolated pdgfrb-positive cells |
GSM5356650
|
GSE176129 |
110. |
GSE158099 (runx1 -|-) |
Danio rerio |
whole body |
hematopoietic |
10dpf, cd41:GFPlow-runx1-/- |
GSM4792213
|
GSE158099 |
111. |
GSE158099 (WT) |
Danio rerio |
whole body |
baseline |
6dpf, cd41:GFPlow-WT |
GSM4792210
|
GSE158099 |
112. |
GSE158099 (WT) |
Danio rerio |
whole body |
baseline |
16dpf, cd41:GFPlow-WT |
GSM4792214
|
GSE158099 |
113. |
GSE158099 (runx1 -|-) |
Danio rerio |
whole body |
hematopoietic |
6dpf, cd41:GFPlow-runx1-/- |
GSM4792211
|
GSE158099 |
114. |
GSE158099 (WT) |
Danio rerio |
whole body |
baseline |
2.5dpf, cd41:GFPlow-WT |
GSM4792208
|
GSE158099 |
115. |
GSE158099 (runx1 -|-) |
Danio rerio |
whole body |
hematopoietic |
16dpf, cd41:GFPlow-runx1-/- |
GSM4792215
|
GSE158099 |
116. |
GSE158099 (WT) |
Danio rerio |
whole body |
baseline |
10dpf, cd41:GFPlow-WT |
GSM4792212
|
GSE158099 |
117. |
GSE158099 (runx1 -|-) |
Danio rerio |
whole body |
hematopoietic |
2.5dpf, cd41:GFPlow-runx1-/- |
GSM4792209
|
GSE158099 |