Species | Download Link |
---|---|
Danio rerio | Danio_rerio.txt |
Astyanax mexicanus | Astyanax_mexicanus.txt |
Gasterosteus aculeatus | Gasterosteus_aculeatus.txt |
Nothobranchius furzeri | Nothobranchius_furzeri.txt |
Oryzias latipes | Oryzias_latipes.txt |
Oreochromis niloticus | Oreochromis_niloticus.txt |
Monopterus albus | Monopterus_albus.txt |
Mastacembelus armatus | Mastacembelus_armatus.txt |
Oncorhynchus mykiss | Oncorhynchus_mykiss.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA608912 (wt_14dpi) | regeneration | 5mpf, wild type, 14 days post injury | SRR11186452 | SRR11186452.txt |
PRJNA608912 (kit_14dpi) | regeneration | 5mpf, kit mutant, 14 days post injury | SRR11186480 | SRR11186480.txt |
PRJNA608912 (wt_unjuried) | baseline | 5mpf, wild type, uninjured | SRR11186432 | SRR11186432.txt |
PRJNA608912 (kit_uninjuried) | regeneration | 5mpf, kit mutant, uninjured | SRR11186457 | SRR11186457.txt |
PRJNA608912 (wt_2dpi) | regeneration | 5mpf, wild type, 2 days post injury | SRR11186440 | SRR11186440.txt |
PRJNA608912 (kit_2dpi) | regeneration | 5mpf, kit mutant, 2 days post injury | SRR11186464 | SRR11186464.txt |
PRJNA608912 (wt_7dpi) | regeneration | 5mpf, wild type, 7 days post injury | SRR11186448 | SRR11186448.txt |
PRJNA608912 (kit_7dpi) | regeneration | 5mpf, kit mutant, 7 days post injury | SRR11186472 | SRR11186472.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE150498 (wildtype, 2X DSS) | disease | 6dpf, wildtype, 2X DSS | GSM4878627 | GSM4878627.txt |
GSE150498 (nod2-|-, untreated) | disease | 6dpf, nod2-/-, untreated | GSM4878623 | GSM4878623.txt |
GSE150498 (wildtype, 2X DSS+BZA) | disease | 6dpf, wildtype, 2X DSS+BZA | GSM4878628 | GSM4878628.txt |
GSE150498 (untreated ctrl) | baseline | 6dpf, untreated ctrl | GSM4551415 | GSM4551415.txt |
GSE150498 (wildtype, 1X DSS) | disease | 6dpf, wildtype, 1X DSS | GSM4878624 | GSM4878624.txt |
GSE150498 (nod2-|-, 2X DSS) | disease | 6dpf, nod2-/-, 2X DSS | GSM4878630 | GSM4878630.txt |
GSE150498 (DSS treated) | disease | 6dpf, DSS treated | GSM4551416 | GSM4551416.txt |
GSE150498 (nod2-|-, 1X DSS) | disease | 6dpf, nod2-/-, 1X DSS | GSM4878625 | GSM4878625.txt |
GSE150498 (nod2-|-, 2X DSS+BZA) | disease | 6dpf, nod2-/-, 2X DSS+BZA | GSM4878631 | GSM4878631.txt |
GSE150498 (wildtype, untreated) | baseline | 6dpf, wildtype, untreated | GSM4878622 | GSM4878622.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE175929 (5mpf) | baseline | 5mpf, GFP-positive cells collected from two transgenic zebrafish, Tg(rho:EGFP)ja2Tg and Tg(gnat2:EGFP)ja23Tg | GSM5351368 | GSM5351368.txt |
GSE122680 (2dpf) | baseline | 2dpf, WT, untreatment | GSM4233148 | GSM4233148.txt |
GSE122680 (1.5dpf) | baseline | 1.5dpf, WT, untreatment | GSM3478014 | GSM3478014.txt |
GSE122680 (3dpf) | baseline | 3dpf, WT, untreatment | GSM3478018 | GSM3478018.txt |
PRJNA672101 (nrl-KO) | growth | 5mpf, three retinas from nrl-KO zebrafsih | SRR12899703 | SRR12899703.txt |
GSE122680 (14dpf) | baseline | 14dpf, WT, untreatment | GSM3478019 | GSM3478019.txt |
PRJNA672101 (WT) | baseline | 5mpf, three retinas from WT zebrafsih | SRR12899698 | SRR12899698.txt |
GSE122680 (24hpf) | baseline | 24hpf, WT, untreatment | GSM3478013 | GSM3478013.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE168695 (5dpf) | baseline | 5dpf, GFP+ cells isolated from 5 dpf cldnb:lyn-EGFP embryos | GSM5158857 | GSM5158857.txt |
PRJNA564810 (2dpf) | baseline | 2dpf, a single-cell transcriptome atlas for zebrafish development | SRR10095966 | SRR10095966.txt |
PRJNA706197 (1.25dpf) | baseline | 1.25dpf, FACS sorted sox10:nEOS cells | SRR13839973 | SRR13839973.txt |
PRJNA734348 (dome, dnmt1) | growth | 4.3hpf, dome, oocyte microinjection with Rhodamine B and dnmt1 MO at oogenesis III stage (GV) | SRR14703458 | SRR14703458.txt |
PRJNA656271 (1.5dpf) | baseline | 1.5dpf, FACS-isolated EGFP+ cells | SRR12424276 | SRR12424276.txt |
PRJNA706197 (14hpf) | baseline | 14hpf, FACS sorted sox10:nEOS cells | SRR13839958 | SRR13839958.txt |
GSE173972 (KO, ezh1-|-) | hematopoietic | 1.25dpf, Kdrl-positive embryos | GSM5283743 | GSM5283743.txt |
GSE158849 (unlabeled) | baseline | 6hpf, WT, 4sUTP injected (unlabeled) | GSM4812182 | GSM4812182.txt |
PRJNA564810 (1dpf) | baseline | 1dpf, a single-cell transcriptome atlas for zebrafish development | SRR10095968 | SRR10095968.txt |
PRJNA706197 (18hpf) | baseline | 18hpf, FACS sorted sox10:nEOS cells | SRR13839979 | SRR13839979.txt |
PRJNA734348 (shield, control) | baseline | 6hpf, shield, oocyte microinjection with Rhodamine B and control MO at oogenesis III stage (GV) | SRR14703469 | SRR14703469.txt |
PRJNA656271 (2dpf) | baseline | 2dpf, FACS-isolated EGFP+ cells | SRR12424278 | SRR12424278.txt |
PRJNA706197 (20hpf) | baseline | 20hpf, FACS sorted sox10:nEOS cells | SRR13839965 | SRR13839965.txt |
GSE106587 (WT) | baseline | 12hpf, 6 somites, wild-type TLAB embryo | GSM3084402 | GSM3084402.txt |
PRJNA640816 (2dpf) | baseline | 2dpf, FACS isolated -4.9sox10:EGFP+ cells | SRR12060552 | SRR12060552.txt |
PRJNA734348 (shield, dnmt1) | growth | 6hpf, shield, oocyte microinjection with Rhodamine B and dnmt1 MO at oogenesis III stage (GV) | SRR14703474 | SRR14703474.txt |
GSE173972 (WT, ezh1+|+) | baseline | 1.25dpf, Kdrl-positive embryos | GSM5283739 | GSM5283739.txt |
GSE126647 (control) | baseline | 1.17dpf, control nkx2.5:ZsYellow+ cells | GSM3610370 | GSM3610370.txt |
PRJNA564810 (5dpf) | baseline | 5dpf, a single-cell transcriptome atlas for zebrafish development | SRR10095964 | SRR10095964.txt |
PRJNA706197 (24hpf) | baseline | 24hpf, FACS sorted sox10:nEOS cells | SRR13839972 | SRR13839972.txt |
PRJNA734348 (dome, control) | baseline | 4.3hpf, dome, oocyte microinjection with Rhodamine B and control MO at oogenesis III stage (GV) | SRR14703452 | SRR14703452.txt |
GSE106587 (MZoep mutant) | baseline | 12hpf, 6 somites, maternal zygotic oep tz57 mutant embryo | GSM3084403 | GSM3084403.txt |
PRJNA640816 (2.9dpf) | baseline | 2.9dpf, FACS isolated -4.9sox10:EGFP+ cells | SRR12060555 | SRR12060555.txt |
PRJNA656271 (24hpf) | baseline | 24hpf, FACS-isolated EGFP+ cells | SRR12424272 | SRR12424272.txt |
GSE173972 (HET, ezh1+|-) | hematopoietic | 1.25dpf, Kdrl-positive embryos | GSM5283741 | GSM5283741.txt |
GSE126647 (Pbx4-depleted) | growth | 1.17dpf, Pbx4-depleted nkx2.5:ZsYellow+ cells | GSM3610371 | GSM3610371.txt |
PRJNA706197 (12hpf) | baseline | 12hpf, FACS sorted sox10:nEOS cells | SRR13839954 | SRR13839954.txt |
GSE158849 (labeled) | baseline | 6hpf, WT, 4sUTP injected (labeled) | GSM4812182 | GSM4812182.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA641144 (P_PRO) | disease | adult, ZMEL1-PRO cells in vivo primary tumors | SRR12070742 | SRR12070742.txt |
PRJNA641144 (D_PRO) | disease | adult, ZMEL1-PRO cells in vitro individual culture | SRR12070788 | SRR12070788.txt |
GSE159709 (melanoma) | disease | adult, equal numbers of sorted GFP+ (tumor) and GFP- (macroenvironment) cells | GSM4838134 | GSM4838134.txt |
PRJNA641144 (M_INV) | disease | adult, ZMEL1-INV cells in vivo metastases | SRR12070746 | SRR12070746.txt |
PRJNA641144 (C_INV) | disease | adult, ZMEL1-INV cells in vitro co-culture | SRR12070794 | SRR12070794.txt |
PRJNA641144 (M_PRO) | disease | adult, ZMEL1-PRO cells in vivo metastases | SRR12070758 | SRR12070758.txt |
PRJNA641144 (C_PRO) | disease | adult, ZMEL1-PRO cells in vitro co-culture | SRR12070806 | SRR12070806.txt |
PRJNA641144 (P_INV) | disease | adult, ZMEL1-INV cells in vivo primary tumors | SRR12070722 | SRR12070722.txt |
PRJNA641144 (D_INV) | disease | adult, ZMEL1-INV cells in vitro individual culture | SRR12070771 | SRR12070771.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE158099 (WT) | baseline | 6dpf, cd41:GFPlow-WT | GSM4792210 | GSM4792210.txt |
GSE158099 (WT) | baseline | 16dpf, cd41:GFPlow-WT | GSM4792214 | GSM4792214.txt |
GSE158099 (runx1 -|-) | hematopoietic | 6dpf, cd41:GFPlow-runx1-/- | GSM4792211 | GSM4792211.txt |
GSE158099 (runx1 -|-) | hematopoietic | 16dpf, cd41:GFPlow-runx1-/- | GSM4792215 | GSM4792215.txt |
GSE158099 (WT) | baseline | 2.5dpf, cd41:GFPlow-WT | GSM4792208 | GSM4792208.txt |
GSE158099 (WT) | baseline | 10dpf, cd41:GFPlow-WT | GSM4792212 | GSM4792212.txt |
GSE158099 (runx1 -|-) | hematopoietic | 16dpf, cd41:GFPlow-runx1-/- | GSM4792216 | GSM4792216.txt |
GSE158099 (runx1 -|-) | hematopoietic | 2.5dpf, cd41:GFPlow-runx1-/- | GSM4792209 | GSM4792209.txt |
GSE176129 (pdgfrb-positive) | baseline | 5dpf, FACS-isolated pdgfrb-positive cells | GSM5356650 | GSM5356650.txt |
GSE158099 (runx1 -|-) | hematopoietic | 10dpf, cd41:GFPlow-runx1-/- | GSM4792213 | GSM4792213.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE158142 (2dpf) | baseline | 2dpf, untreatment | GSM4793201 | GSM4793201.txt |
GSE158142 (12hpf) | baseline | 12hpf, 6 somites, untreatment | GSM4793185 | GSM4793185.txt |
GSE158142 (20hpf) | baseline | 20hpf, 21-22 somites, untreatment | GSM4793193 | GSM4793193.txt |
GSE158142 (3dpf) | baseline | 3dpf, untreatment | GSM4793207 | GSM4793207.txt |
GSE158142 (14hpf) | baseline | 14hpf, 10 somites, untreatment | GSM4793187 | GSM4793187.txt |
GSE158142 (24hpf) | baseline | 24hpf, untreatment | GSM4793196 | GSM4793196.txt |
GSE158142 (16hpf) | baseline | 16hpf, 14 somites, untreatment | GSM4793189 | GSM4793189.txt |
GSE158142 (1.5dpf) | baseline | 1.5dpf, untreatment | GSM4793199 | GSM4793199.txt |
GSE158142 (18hpf) | baseline | 18hpf, 18 somites, untreatment | GSM4793191 | GSM4793191.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA610520 (3.5dpf) | baseline | 3.5dpf, the mixture of same amount of kdrl:mCherry+ cells, CD41:GFP+ cells and double negative cells. | SRR11243177 | SRR11243177.txt |
PRJNA610520 (4.5dpf) | baseline | 4.5dpf, the mixture of same amount of kdrl:mCherry+ cells, CD41:GFP+ cells and double negative cells. | SRR11243184 | SRR11243184.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE148591 (6mpf) | baseline | 6mpf, male, Sox17:CreERT2 | GSM4474603 | GSM4474603.txt |
GSE148591 (3mpf) | transplant | 3mpf, graft transplantation during early embryogenesis | GSM4474605 | GSM4474605.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA551501 (2mpf) | baseline | 2mpf, Tg(tg:mVenus-T2A-NTR) | SRR9609653 | SRR9609653.txt |
PRJNA551501 (8mpf) | baseline | 8mpf, Tg(tg:mVenus-T2A-NTR) | SRR9609654 | SRR9609654.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE137784 (HCC, HepABC) | disease | 6mpf, male, isolated from the Tg(fabp10a:pt-B-cat)(HepABC) zebrafish with HCC | GSM4087819 | GSM4087819.txt |
GSE137784 (HCC, CreLox) | disease | 6mpf, male, isolated from the zebrafish without HCC | GSM4087820 | GSM4087820.txt |
GSE137784 (no HCC) | baseline | 6mpf, male, isolated from the CreLox zebrafish with HCC | GSM4087821 | GSM4087821.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA605021 (supporting cells) | baseline | 7dpf, posterior lateral-line neuromast cells were isolated from the dissociated trunks of Tg[Et(krt4:EGFP)sqgw57A] transgenic zebrafish larvae | SRR11031289 | SRR11031289.txt |
GSE123241 (fgf3 mutants) | regeneration | 5dpf, fgf3 mutants during sensory hair cell regeneration, lateral line sensory | GSM3498553 | GSM3498553.txt |
PRJNA605021 (hair cells) | baseline | 7dpf, posterior lateral-line neuromast cells were isolated from the dissociated trunks of Tg[myo6b:actb1-EGFP] transgenic zebrafish larvae | SRR11031290 | SRR11031290.txt |
GSE123241 (fgf3 siblings) | regeneration | 5dpf, fgf3 siblings during sensory hair cell regeneration, lateral line sensory | GSM3498554 | GSM3498554.txt |
GSE123241 (wild type) | baseline | 5dpf, wild type during sensory hair cell regeneration, lateral line sensory | GSM3498552 | GSM3498552.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE158142 (15dpf) | baseline | 15dpf, untreatment | GSM4793238 | GSM4793238.txt |
GSE158142 (5dpf) | baseline | 5dpf, untreatment | GSM4793216 | GSM4793216.txt |
GSE158142 (8dpf) | baseline | 8dpf, untreatment | GSM4793234 | GSM4793234.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA415636 (brain) | baseline | adult, Zebrabow M, brain | SRR6811819 | SRR6811819.txt |
PRJNA554650 (6.5dpf) | baseline | 6.5dpf, whole brain of nr1d1:VNP fish | SRR9685040 | SRR9685040.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE144944 (fgfr3 +|+) | baseline | 1mpf, fgfr3 +/+ | GSM4301248 | GSM4301248.txt |
GSE144944 (fgfr3 -|-) | growth | 1mpf, fgfr3 -/- | GSM4301250 | GSM4301250.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE152982 (wild type) | baseline | 1.25dpf, untreatment | GSM4631066 | GSM4631066.txt |
GSE163907 (24hpf) | baseline | 24hpf, trunk tg(sox10:GFP) positive cells | GSM4990514 | GSM4990514.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA754013 (zebrafish) | baseline | adult, male, female, untreatment | SRR15422672 | SRR15422672.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA668529 (3d) | disease | 3mpf, intranasal 100ng r-Spike 3 days | SRR12858254 | SRR12858254.txt |
PRJNA668529 (3h) | disease | 3mpf, intranasal 100ng r-Spike 3 hours | SRR12858255 | SRR12858255.txt |
PRJNA668529 (control) | baseline | 3mpf, intranasal PBS | SRR12858259 | SRR12858259.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA415636 (primary pancreatic islet) | baseline | adult, Zebrabow M, primary pancreatic islet | SRR6811821 | SRR6811821.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE151354 (wild type) | baseline | 21dpf, wild type | GSM4575942 | GSM4575942.txt |
GSE151354 (nkx3.2 mutant) | growth | 21dpf, nkx3.2 mutant | GSM4575943 | GSM4575943.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE130526 (fin) | baseline | adult, fins were amputated from fish expressing both pnp4a:palmmCherry and tyrp1b:palmmCherry | GSM3741778 | GSM3741778.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA415636 (pancreas, liver) | baseline | adult, Zebrabow M, pancreas and liver | SRR6211488 | SRR6211488.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE161712 (M. marinum) | disease | adult, infected with bacteria of M. marinum | GSM4913139 | GSM4913139.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE131136 (all) | baseline | 5dpf, sox10:CRE positive cells from 5dpf and post-embryonic zebrafish trunks with and without thyroid hormone | GSE131136 | GSE131136.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA415636 (heart, blood) | baseline | adult, Zebrabow M, heart and blood | SRR6211492 | SRR6211492.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA754013 (Molino cave) | baseline | male, female, adult, untreatment | SRR15422671, SRR15422704 | SRR15422671_SRR15422704.txt |
PRJNA754013 (Pachon cave) | baseline | male, female, adult, untreatment | SRR15422680, SRR15422698 | SRR15422680_SRR15422698.txt |
PRJNA754013 (Tinaja cave) | baseline | male, female, adult, untreatment | SRR15422699, SRR15422703 | SRR15422699_SRR15422703.txt |
PRJNA754013 (Choy surface) | baseline | male, female, adult, untreatment | SRR15422711, SRR15422691 | SRR15422711_SRR15422691.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA797645 | baseline | 70 hpf, whole embryo, untreatment | SRR17665713 | SRR17665713.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA559885 | regeneration | adult, 2-month old, untreatment | SRR11886701, SRR11917464 | SRR11886701_SRR11917464.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE162787 (male) | baseline | male, adult, untreatment | GSM4959938 | GSM4959938.txt |
GSE162787 (female) | baseline | female, adult, untreatment | GSM4959937 | GSM4959937.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
PRJNA766837 | baseline | male, adult, untreatment | SRR16095434 | SRR16095434.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE153961 (intersex) | baseline | adult, untreatment | GSM4661001 | GSM4661001.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE175406 | baseline | The ovotestes of three individual 2-year-old zig-zag eels | GSM5333024 | GSM5333024.txt |
Dataset ID | Experiment Type | Sample | Source Dataset ID | Download Link |
---|---|---|---|---|
GSE158102 (3 fishes) | baseline | MHC-II+ B cells in blood | GSM4792223, GSM4792224, GSM4792225 | GSM4792223_GSM4792224_GSM4792225.txt |