| DDA annotation of MSMS spectra for a threespine stickleback liver proteome spectral library | Bryn Levitan | | BL0002, BL0003, BL0004 | Gasterosteus aculeatus | Liver | DDA | Bottom-up | Trypsin | | PXD026823 | MSV000087672 | DOI | 21-Jun-2021 | 21-Jun-2021 | |
| Acute heat stress has different effects on the liver proteome of two threespine stickleback populations | Bryn Levitan | | BL0003, BL0004 | Gasterosteus aculeatus | Liver | DIA | Bottom-up | Trypsin | DKL-BBL03 | PXD024677 | | | 11-Mar-2021 | 21-Jun-2021 | |
| Chronic temperature effects on the liver proteome of two threespine stickleback populations using a novel DIA assay library | Bryn Levitan | | BL0002 | Gasterosteus aculeatus | Liver | DIA | Bottom-up | Trypsin | DKL-BBL02 | PXD024617 | | | 09-Mar-2021 | 21-Jun-2021 | |
| Annotation of DDA MS2 spectra for sea urchin embryo DIA assay library construction | Andrew Griffith, Ning Li, Leah MacNiven | Donal Manahan | LMR0017 | Strongylocentrotus purpuratus | Embryo | DDA | Bottom-up | Trypsin | | PXD021638 | MSV000086194 | | 22-Sep-2020 | | |
| Construction of a DIA assay library for sea urchin embryos | Andrew Griffith, Ning Li, Leah MacNiven | Donal Manahan | LMR0017 | Strongylocentrotus purpuratus | Embryo | DIA | Bottom-up | Trypsin | | | | | 22-Sep-2020 | | |
| Integration of time- and dose-dependent effects of salinity stress on the renal proteome of euryhaline tilapia | Larken Root | | LR0013_Oremo-Kidney | Oreochromis mossambicus | Kidney | DDA | Bottom-up | Trypsin | | PXD021439 | MSV000086128 | | 12-Sep-2020 | | |
| Optimization of bottom-up and middle-down proteomics for analyzing environmental effects on the epigenetic histone code of tilapia | Elizabeth Mojica | | EAM0011-19 | Oreochromis mossambicus | Gill epithelium, Kidney, Testes | DDA | Middle-down, Bottom-up | V8 (Glu-C), Trypsin | | PXD020920 | MSV000085954 | | 15-Aug-2020 | | |
| Identification of the global histone posttranslational modification landscape in testes of euryhaline tilapia | Elizabeth Mojica | | EAM0008-10_Oremo-Testes | Oreochromis mossambicus | Testes | DDA | Middle-down, Bottom-up | V8 (Glu-C), Trypsin | | PXD020314 | MSV000085723 | | 11-Jul-2020 | | |
| Identification of the global histone posttranslational modification landscape in gill epithelium of euryhaline tilapia | Elizabeth Mojica | | EAM0008-10_Oremo-Gill | Oreochromis mossambicus | Gill epithelium | DDA | Middle-down, Bottom-up | V8 (Glu-C), Trypsin | | PXD020311 | MSV000085719 | | 10-Jul-2020 | | |
| Identification of the global histone posttranslational modification landscape in kidney of euryhaline tilapia | Elizabeth Mojica | | EAM0008-10_Oremo-Kidney | Oreochromis mossambicus | Kidney | DDA | Middle-down, Bottom-up | V8 (Glu-C), Trypsin | | PXD020264 | MSV000085702 | | 08-Jul-2020 | | |
| Integration of time- and dose-dependent effects of salinity stress on the branchial proteome of euryhaline tilapia | Larken Root | | LR0011_Oremo-Gill, LR0012_Oremo-Gill, DK0022_Oremo-Gill | Oreochromis mossambicus | Gill | DDA | Bottom-up | Trypsin | | PXD020364 | MSV000085745 | | 01-Jul-2020 | | |
| Integration of time- and dose-dependent effects of salinity stress on the branchial proteome of euryhaline tilapia | Larken Root | | LR0011_Oremo-Gill, LR0012_Oremo-Gill | Oreochromis mossambicus | Gill epithelium | DIA | Bottom-up | Trypsin | DKL-LTR03 | PXD029254 | | | 01-Jul-2020 | 21-Oct-2021 | |
| | | | XW0003_Oremo-OmBcells | Oreochromis mossambicus | OmB cells | DDA | | | | | | | 30-Jun-2020 | | |
| | | | AY0003_Gasac-Embryo | Gasterosteus aculeatus | Embryo | DDA | | | | | | | 29-Jun-2020 | | |
| Regulation of the branchial proteome and transcriptome during salinity acclimation of Nile tilapia | Larken Root, Leah MacNiven | Avner Cnaani, Aurora Campo (ARO) Volcani Center, Israel) | LMR0015_Oreni-Gill | Oreochromis niloticus | Gill | DDA | Bottom-up | Trypsin | | PXD020064 | MSV000085639 | DOI | 28-Jun-2020 | 10-Mar-2021 | 34298068 |
| Nonlinear effects of environmental salinity on the gill transcriptome versus proteome of Oreochromis niloticus | Larken Root, Leah MacNiven | Avner Cnaani, Aurora Campo (ARO) Volcani Center, Israel) | LMR0015_Oreni-Gill | Oreochromis niloticus | Gill | DIA | Bottom-up | Trypsin | DKL-LTR02 | PXD024648 | | | 28-Jun-2020 | 10-Mar-2021 | 34298068 |
| Salinity-dependent regulation of the kidney proteome of Oreochromis niloticus | Larken Root, Leah MacNiven | Avner Cnaani, Aurora Campo (ARO) Volcani Center, Israel) | LMR0015_Oreni-Kidney | Oreochromis niloticus | Kidney | DDA | Bottom-up | Trypsin | | PXD020056 | MSV000085637 | DOI | 27-Jun-2020 | 25-Aug-2020 | 34101993 |
| A data-independent acquisition (DIA) assay library for quantitation of environmental effects on the kidney proteome of Oreochromis niloticus | Larken Root, Leah MacNiven | Avner Cnaani, Aurora Campo (ARO) Volcani Center, Israel) | LMR0015_Oreni-Kidney | Oreochromis niloticus | Kidney | DIA | Bottom-up | Trypsin | DKL-LTR01 | | | | 27-Jun-2020 | 28-Aug-2020 | 34101993 |
| | | | TW0003-04_Oremo-OmBcells | Oreochromis mossambicus | OmB cells | DDA | | | | PXD020057 | MSV000085638 | | 26-Jun-2020 | | |
| | | | TW0003-04_Oremo-OmBcells | Oreochromis mossambicus | OmB cells | DIA | | | | | | | 26-Jun-2020 | | |
| | | Jason Podrabsky (Portland State University, OR) | JL0014_Ausli-ALWS40NEcells | Austrofundulus limnaeus | PSU-ALWS40NE cells | DDA | | | | PXD020017 | MSV000085631 | DOI | 25-Jun-2020 | | |
| | | Jason Podrabsky (Portland State University, OR) | JL0014_Ausli-ALWS40NEcells | Austrofundulus limnaeus | PSU-ALWS40NE cells | DIA | | | | | | | 25-Jun-2020 | | |
| Proteomics of Osmoregulatory Responses in Threespine Stickleback Gills | John Li | | DK0028-40_Gasac-Gill | Gasterosteus aculeatus | Gill | DIA | Bottom-up | Trypsin | DKL-JLI02 | PXD017662 | | DOI | 30-Dec-2019 | 19-Feb-2020 | 32458981 |
| An osmolality/salinity-responsive enhancer 1 (OSRE1) in intron 1 promotes salinity induction of tilapia glutamine synthetase | Chanhee Kim | | XW0003_Oremo-OmBcells | Oreochromis mossambicus | OmB cells | DIA | Bottom-up | Trypsin | DKL-CHK01 | | | DOI | 30-Sep-2019 | 31-Oct-2019 | 32694739 |
| Early-life exposure to the endocrine disruptor 17-α-ethinylestradiol induces delayed effects in adult brain, liver and ovotestis proteomes of a self-fertilizing fish | Anne-Sophie Voisin | Frederic Silvestre (University of Namur, Belgium) | AS0001_Kryma-Gonad | Kryptolebias marmoratus | Gonad | DDA | Bottom-up | Trypsin | | PXD010766 | MSV000082816 | DOI | 13-Aug-2018 | 25-Jun-2020 | 30550985 |
| Early-life exposure to the endocrine disruptor 17-α-ethinylestradiol induces delayed effects in adult brain, liver and ovotestis proteomes of a self-fertilizing fish | Anne-Sophie Voisin | Frederic Silvestre (University of Namur, Belgium) | AS0001_Kryma-Liver | Kryptolebias marmoratus | Liver | DDA | Bottom-up | Trypsin | | PXD010765 | MSV000082815 | DOI | 13-Aug-2018 | 25-Jun-2020 | 30550985 |
| Early-life exposure to the endocrine disruptor 17-α-ethinylestradiol induces delayed effects in adult brain, liver and ovotestis proteomes of a self-fertilizing fish | Anne-Sophie Voisin | Frederic Silvestre (University of Namur, Belgium) | AS0001_Kryma-Brain | Kryptolebias marmoratus | Brain | DDA | Bottom-up | Trypsin | | PXD010764 | MSV000082814 | DOI | 13-Aug-2018 | 25-Jun-2020 | 30550985 |
| Proteomics of discrete brain nuclei from Mangrove killifish | Cheng-Yu Li, Dietmar Kültz | Ryan Earley (University of Alabama, AL) | RE0001_Kryma-Brain | Kryptolebias marmoratus | Brain | DDA | Bottom-up | Trypsin | | PXD010729 | MSV000082806 | DOI | 08-Aug-2018 | | |
| Contrasting seasonal and aseasonal environments across stages of the annual cycle in the rufous‐collared sparrow, Zonotrichia capensis : Differences in endocrine function, proteome and body condition | John Li, Dietmar Kültz | Paulina Gonzalez-Gomes (Universidad Autonoma de Chile), John Wingfield (UC Davis) | XW0004_Zonca-kidney | Zonotrichia capensis | Kidney | DDA | Bottom-up | Trypsin | | PXD009617 | MSV000082314 | DOI | 26-Apr-2018 | 25-Jun-2020 | 29741769 |
| Contrasting seasonal and aseasonal environments across stages of the annual cycle in the rufous-collared sparrow, Zonotrichia capensis: Differences in endocrine function, proteome and body condition | John Li, Dietmar Kültz | Paulina Gonzalez-Gomes (Universidad Autonoma de Chile), John Wingfield (UC Davis) | XW0004_Zonca-plasma | Zonotrichia capensis | Plasma | DDA | Bottom-up | Trypsin | | PXD009616 | MSV000082313 | DOI | 26-Apr-2018 | 26-Apr-2018 | 29741769 |
| Development of a gill assay library for ecological proteomics of threespine sticklebacks (Gasterosteus aculeatus) | John Li, Bryn Levitan | Silvia Gómez-Jiménez (CIAD, Hermosillo, Mexico) | MXLSAKBH_Gasac-Gill | Gasterosteus aculeatus | Gill | DIA | Bottom-up | Trypsin | DKL-JLI01 | PXD008395 | MSV000081795 | DOI | 09-Dec-2017 | 09-Aug-2018 | 30093419 |
| Skeletal stiffening in an amphibious fish out of water is a response to increased body weight | Dietmar Kültz | Patricia Wright (University of Guelph, Canada) | DK0024_Kryma-Gill | Kryptolebias marmoratus | Gill | DDA | Bottom-up | Trypsin | | PXD006100 | MSV000080634 | DOI | 15-Mar-2017 | 02-Oct-2017 | 29046415 |
| Osmolality/salinity-responsive enhancers (OSREs) control induction of osmoprotective genes in euryhaline fish | Xiaodan Wang | | XW0003_Oremo-OmBcells | Oreochromis mossambicus | OmB cells | DIA | Bottom-up | Trypsin | DKL-XDW01 | | | DOI | 01-Jan-2016 | 26-Oct-2016 | 28289196 |
| Population-specific renal proteomes of marine and freshwater three-spined sticklebacks | John Li, Dietmar Kültz | | JL0005_Gasac-Kidney | Gasterosteus aculeatus | Kidney | DIA | Bottom-up | Trypsin | DKL-DMK02 | | | DOI | 15-Dec-2014 | 15-Oct-2015 | 26463136 |
| Population‐specific plasma proteomes of marine and freshwater three‐spined sticklebacks (Gasterosteus aculeatus) | John Li, Dietmar Kültz | | JL0005_Gasac-Plasma | Gasterosteus aculeatus | Plasma | DIA | Bottom-up | Trypsin | DKL-DMK01 | | | DOI | 30-Oct-2014 | 07-Aug-2015 | 26223892 |
| Alterations in the proteome of the respiratory tract in response to single and multiple exposures to naphthalene | John Li, Romina Sacchi | Alan Buckpitt (UC Davis, CA) | DK0025_Musmu-LungOE, DK0030_Musmu-Lung, DK0031_Musmu-OE | Mus musculus | Lung and olfactory epithelium | DDA | Bottom-up | Trypsin | | | PRD000846 | DOI | 08-Dec-2013 | 17-Apr-2015 | 25825134 |
| Quantitative molecular phenotyping of gill remodeling in a cichlid fish responding to salinity stress | John Li, Dietmar Kültz | | DK0022_Oremo-Gill | Oreochromis mossambicus | Gill | DDA | Bottom-up | Trypsin | | | PRD000753 | DOI | 14-Feb-2013 | 24-Sep-2013 | 24065692 |