text: unspecified

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

characteristic: common name

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed Control 6h : A549 cells were grown for 6 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: unspecified

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: epithelial lung carcinoma cell

characteristic: cell type

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 A 6h : A549 cells were exposed to Ceria nanoparticles CeO2 A at 128 micrograms per ml for 6 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: unspecified

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

characteristic: common name

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 A 24h : A549 cells were exposed to Ceria nanoparticles CeO2 A at 128 micrograms per ml for 24 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-CHECKLIST

text: unspecified

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed Control 24h : A549 cells were grown for 24 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

text: unspecified

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 C 1h : A549 cells were exposed to 27% ZrO2 -doped ceria nanoparticles CeO2 C at 128 micrograms per ml for 1 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

text: unspecified

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed Control 1h : A549 cells were grown for 1 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: External Id

text: unspecified

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 C 6h : A549 cells were exposed to 27% ZrO2 -doped ceria nanoparticles CeO2 C at 128 micrograms per ml for 6 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

characteristic: INSDC center name

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 C 24h : A549 cells were exposed to 27% ZrO2 -doped ceria nanoparticles CeO2 C at 128 micrograms per ml for 24 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

characteristic: INSDC first public

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 E 1h : A549 cells were exposed to 78% ZrO2 -doped ceria nanoparticles CeO2 E at 128 micrograms per ml for 1 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

characteristic: INSDC last update

text: public

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 E 6h : A549 cells were exposed to 78% ZrO2 -doped ceria nanoparticles CeO2 E at 128 micrograms per ml for 6 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

text: public

characteristic: INSDC status

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed CeO2 E 24h : A549 cells were exposed to 78% ZrO2 -doped ceria nanoparticles CeO2 E at 128 micrograms per ml for 24 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

text: public

characteristic: SRA accession

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed NM-212 1h : A549 cells were exposed to Nanograin ceria nanoparticles NM212 at 128 micrograms per ml for 1 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

text: public

characteristic: Submitter Id

text: ArrayExpress

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed NM-212 6h : A549 cells were exposed to Nanograin ceria nanoparticles NM212 at 128 micrograms per ml for 6 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: unspecified

text: public

text: ArrayExpress

characteristic: broker name

text: epithelial lung carcinoma cell

text: human

text: Protocols: A549 cells were purchased from ATCC (VA, USA). A549 is an epithelial lung adenocarcinoma cell line established in 1972 (Giard et al., 1973). The cells were cultured in tissue culture flasks (75 cm2 and 275 cm2) in RPMI 1640 medium with Glutamax (Gibco, ThermoFisher Scientific Inc., Landsmeer, the Netherlands) supplemented with 10% Fetal Bovine Serum (FBS, Greiner BioOne Serum, Greiner BioOne BV, Alphen aan de Rijn, the Netherlands) and 1% penicillin/streptomycin (Gibco, 100 IU penicillin per mL, 100 µg streptomycin per mL). Cells were culture at 37oC in a humidified atmosphere of 5% CO2 in air. The adherent cells were harvested by a short incubation with 0.5% EDTA trypsin in Ca/Mg free Dulbecco’s Phosphate Buffered Saline (Gibco). 8x10 to the 5 cells were seeded and cultured in wells of a 6 well plate for 18 hours, after which the cells were exposed NM-212 24h : A549 cells were exposed to Nanograin ceria nanoparticles NM212 at 128 micrograms per ml for 24 hours. After this, the cells (approximately 2 million per well) were quickly washed with PBS (phosphate buffered saline) twice at room temperature after which the 6 well plates were deep frozen by quenching on liquid nitrogen (-196oC) and stored at -80oC until extraction for omics evaluation Total RNA was extracted from A549 cells using a micro RNeasy Kit (Qiagen, Crawley, UK) according to the manufacturer’s protocol. RNA was quantified with a NanoDrop 8000 spectrophotometer (Thermo Scientific, Waltham, MA), and the integrity of RNA was evaluated with a Agilent 2200 Tapestation (Agilent Technologies, Santa Clara, CA). Only RNA with integrity numbers (RINs) greater than 7.0 were used for subsequent RNA-seq experiments. All RNA libraries were produced using the Biomek FxP (Beckman Coulter A31842) with Ultra Directional RNA Library Prep Kit (New England Biolab E7420L) and NEBnext Multiplex Oligos for Illumina Dual Index Primers (New England Biolabs E7600S), using provided protocols and 500ng of total RNA. Constructed libraries were assessed for quality using the Tapestation 2200 (Agilent G2964AA) with High Sensitivity D1000 DNA screentape (5067-5584), and quantified using Kapa Library Quantification Kit (Kapa Biosystems KK4824) on an AriaMx Realtime PCR System (Agilent G8830A).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

tag: Namespace:CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: southeastern Asian house mouse

characteristic: date of birth

characteristic: date of death

text: liver sample 93114_N1 from DEN treated individual 93114. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN

characteristic: treatment agent

characteristic: treatment date

unit: ug/g body weight

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ILLUMINA, INC.

characteristic: INSDC center name

text: public

tag: Namespace:ILLUMINA, INC.

text: human

characteristic: common name

text: 1000 GENOMES PROJECT - ESAN IN NIGERIA

characteristic: description

text: ESN

characteristic: ethnicity

text: Homo sapiens

characteristic: organism

text: NHGRI

characteristic: repository

text: Homo sapiens

text: M

characteristic: title


text: ILLUMINA, INC.

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: 1000 GENOMES PROJECT - KINH IN HO CHI MINH CITY, VIETNAM

text: KHV

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M

characteristic: sex


characteristic: ENA-CHECKLIST

text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - CHINESE DAI IN XISHUANGBANNA CHINA

text: CDX

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


characteristic: ENA-FIRST-PUBLIC

text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - BRITISH FROM ENGLAND AND SCOTLAND

text: GBR

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


characteristic: ENA-LAST-UPDATE

text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - ESAN IN NIGERIA

text: ESN

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: F


characteristic: External Id

text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - GAMBIAN IN WESTERN DIVISION, THE GAMBIA

text: GWD

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


text: ILLUMINA, INC.

characteristic: INSDC center name

text: public

text: human

text: 1000 GENOMES PROJECT - IBERIAN POPULATIONS IN SPAIN

text: IBS

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: F


text: ILLUMINA, INC.

text: public

text: human

characteristic: common name

text: IBS

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


text: ILLUMINA, INC.

text: public

text: human

characteristic: description

text: KHV

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: F


text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - MENDE IN SIERRA LEONE

text: MSL

characteristic: ethnicity

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - FINNISH IN FINLAND

text: FIN

text: Homo sapiens

characteristic: organism

text: NHGRI

text: Homo sapiens

text: M


text: ILLUMINA, INC.

text: public

text: human

text: 1000 GENOMES PROJECT - HAN CHINESE SOUTH

text: CHS

text: Homo sapiens

text: NHGRI

characteristic: repository

text: Homo sapiens

text: F


text: ILLUMINA, INC.

text: public

text: human

text: GWD

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: F

characteristic: title


text: ILLUMINA, INC.

characteristic: INSDC first public

text: public

text: human

text: MSL

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: F


text: ILLUMINA, INC.

characteristic: INSDC last update

text: public

text: human

text: CHS

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


text: ILLUMINA, INC.

text: public

characteristic: INSDC status

text: human

text: 1000 GENOMES PROJECT - ESAN IN NIGERIA

text: IBS

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


text: ILLUMINA, INC.

text: public

characteristic: SRA accession

text: human

text: MSL

text: Homo sapiens

text: NHGRI

text: Homo sapiens

text: M


text: FONDAZIONE EDMUND MACH

text: public

tag: Namespace:FONDAZIONE EDMUND MACH

characteristic: Submitter Id

characteristic: collection date

text: rainbow trout

text: Effect of dietary supplementation with essential oil mix to farmed rainbow trout microbiota and fish fillet quality

text: Rainbow trout

characteristic: environment (biome)

text: Intestine

characteristic: environment (feature)

text: Intestinal microbiota

characteristic: environment (material)

text: Italy

characteristic: geographic location (country and/or sea)

text: 46° 11' 22.81 N

unit: DD

characteristic: geographic location (latitude)

text: 11° 07' 55.63 E

characteristic: geographic location (longitude)

text: essential oil mix supplementation

characteristic: host diet

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Oncorhynchus mykiss

characteristic: project name

text: Oncorhynchus mykiss

text: pyrosequencing

characteristic: sequencing method

text: Rainbow trout dietary supplementation with essential oil mix


MAR coliform1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: MAR coliform1

text: Hong Kong

text: metagenome

text: Shatin WWTP

characteristic: name of the sampling site

text: Escherichia coli

characteristic: organism

text: Escherichia coli

text: domestic sewage

characteristic: sewage type

text: Resistome of MAR coliforms from influent of Shatin WWTP

characteristic: title


text: IPK-Gatersleben

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: rape

characteristic: common name

text: leaf samples of Brassica napus 'Haydn'

characteristic: description

text: Brassica napus

text: Brassica napus

text: Brassica napus WGS


MAR coliform_illumina

text: public

text: MAR coliform_illumina

characteristic: collection date

text: Hong Kong

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: Shatin WWTP

text: Escherichia coli

text: Escherichia coli

text: domestic sewage


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: GUH

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: environment (biome)

text: organic feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Switzerland

text: human-associated

characteristic: human associated environmental package

text: mimarks-survey

text: metagenome

text: VAP

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method


NEC

text: GUH

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: NEC

characteristic: Submitter Id

text: terrestrial biome

text: organic feature

text: organic material

text: Switzerland

text: human-associated

text: mimarks-survey

text: metagenome

characteristic: organism

text: VAP

text: metagenome

text: Illumina MiSeq

text: NEC

characteristic: title


text: Escherichia coli

characteristic: ArrayExpress-SPECIES

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: Escherichia coli

characteristic: common name

text: Escherichia coli

text: Escherichia coli

characteristic: subject id


text: Escherichia coli

characteristic: ArrayExpress-Species

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli


text: Escherichia coli

text: SC

text: public

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli


text: LSA-DISTAL-UNIBO

text: public

characteristic: collection date

text: Crop LAB in drinking water control 0 d

characteristic: description

text: chicken

characteristic: environment (biome)

text: crop content

characteristic: environment (feature)

text: crop content

characteristic: environment (material)

text: Italy

characteristic: geographic location (country and/or sea)

text: 44°26'4272 N

characteristic: geographic location (latitude)

text: 11°28'3540 E

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: LSA LAB in drinking water

characteristic: project name

text: metagenome

text: shotgun

characteristic: sequencing method


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: LSA-DISTAL-UNIBO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Crop LAB in drinking water low dose 14 d

text: chicken

text: crop content

text: crop content

text: Italy

text: 44°26'4272 N

text: 11°28'3540 E

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: LSA LAB in drinking water

text: metagenome

text: shotgun

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: LSA-DISTAL-UNIBO

characteristic: INSDC center name

text: public

characteristic: collection date

text: Ceca LAB in drinking water low dose 14 d

characteristic: description

text: chicken

characteristic: environment (biome)

text: crop content

characteristic: environment (feature)

text: crop content

characteristic: environment (material)

text: Italy

text: 44°26'4272 N

text: 11°28'3540 E

text: host-associated

text: metagenome

text: metagenome

text: LSA LAB in drinking water

text: metagenome

text: shotgun


characteristic: ENA-CHECKLIST

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 92675_N1 from DEN treated individual 92675. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


text: Plasmodium ovale

characteristic: ArrayExpress-SPECIES

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: malaria parasite P. ovale

text: Plasmodium ovale

characteristic: organism

text: Plasmodium ovale

characteristic: subject id

characteristic: title


characteristic: ENA-CHECKLIST

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: Ryukyu mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 93167_N1 from DEN treated individual 93167. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus caroli

characteristic: sample name

text: Mus caroli

text: male

characteristic: sex

text: CAROLI/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN


text: Leishmania donovani

characteristic: ArrayExpress-SPECIES

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Leishmania donovani

text: Leishmania donovani

text: Leishmania donovani


characteristic: ENA-CHECKLIST

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: liver sample 91611_N2 from DEN treated individual 91611. This sample is a unique specimen from this individual.

text: Mus musculus

characteristic: organism

text: Mus musculus

text: male

text: liver

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver dysplastic nodule 91217_N2 from individual 91217. This sample is a unique specimen from this individual.

characteristic: description

text: dysplastic nodule

characteristic: diagnosis

characteristic: individual name

text: Mus musculus

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

text: liver

characteristic: tissue type

text: DEN


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: house mouse

text: liver dysplastic nodule 89985_N1 from individual 89985. This sample is a unique specimen from this individual.

text: dysplastic nodule

text: Mus musculus

text: Mus musculus

text: male

text: liver

text: DEN


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: Submitter Id

text: house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 93100_N2 from DEN treated individual 93100. This sample is a unique specimen from this individual.

text: Mus musculus

characteristic: organism

text: Mus musculus

text: male

text: liver

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

text: liver sample 92184_N1 from DEN treated individual 92184. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: liver dysplastic nodule 91098_N1 from individual 91098. This sample is a unique specimen from this individual.

text: dysplastic nodule

characteristic: diagnosis

text: Mus musculus

text: Mus musculus

text: male

text: liver

text: DEN


characteristic: ENA-CHECKLIST

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 91522_N1 from DEN treated individual 91522. This sample is a unique specimen from this individual.

text: Mus musculus castaneus

characteristic: organism

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

text: liver sample 88934_N1 from DEN treated individual 88934. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN


characteristic: ENA-CHECKLIST

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: liver dysplastic nodule 89985_N2 from individual 89985. This sample is a unique specimen from this individual.

text: dysplastic nodule

characteristic: diagnosis

text: Mus musculus

text: Mus musculus

text: male

text: liver

text: DEN


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

characteristic: date of birth

characteristic: date of death

text: liver sample 89791_N1 from DEN treated individual 89791. This sample is a unique specimen from this individual.

text: Mus musculus castaneus

characteristic: organism

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: External Id

text: LSA-DISTAL-UNIBO

characteristic: INSDC center name

text: public

characteristic: collection date

text: Crop LAB in drinking water high dose 14 d

characteristic: description

text: chicken

characteristic: environment (biome)

text: crop content

characteristic: environment (feature)

text: crop content

characteristic: environment (material)

text: Italy

characteristic: geographic location (country and/or sea)

text: 44°26'4272 N

characteristic: geographic location (latitude)

text: 11°28'3540 E

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: LSA LAB in drinking water

characteristic: project name

text: metagenome

text: shotgun

characteristic: sequencing method


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: LSA-DISTAL-UNIBO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: chicken

text: crop content

text: crop content

text: Italy

text: 44°26'4272 N

text: 44°26'4272 N

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: LSA LAB in drinking water

text: metagenome

text: shotgun

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

text: public

text: southeastern Asian house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 91585_N1 from DEN treated individual 91585. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: liver dysplastic nodule 91540_N1 from individual 91540. This sample is a unique specimen from this individual.

text: dysplastic nodule

characteristic: diagnosis

text: Mus musculus

characteristic: organism

text: Mus musculus

text: male

text: liver

text: DEN


characteristic: ENA-CHECKLIST

characteristic: External Id

text: LSA-DISTAL-UNIBO

characteristic: INSDC center name

text: public

characteristic: collection date

text: Crop LAB in drinking water high dose 35 d

characteristic: description

text: chicken

characteristic: environment (biome)

text: crop content

characteristic: environment (feature)

text: crop content

characteristic: environment (material)

text: Italy

characteristic: geographic location (country and/or sea)

text: 44°26'4272 N

characteristic: geographic location (latitude)

text: 11°28'3540 E

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: LSA LAB in drinking water

characteristic: project name

text: metagenome

text: shotgun

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 91869_N1 from DEN treated individual 91869. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus

characteristic: organism

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

text: liver

characteristic: tissue type

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: unspecified

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: soybean

characteristic: cultivar

text: Protocols: Soybean seeds from cultivar BR 4 were germinated on moist filter paper and maintained in a growth chamber at 25 ± 1ºC and approximately 90% relative humidity. The experiment was carried out in a greenhouse using a hydroponic system. Plantlets were transferred to polystyrene supports, which were placed on blue plastic boxes (59 cm × 38 cm × 16 cm) containing 36 L of Hoagland solution (Hoagland and Arnon, 1950). Plantlets were grown under natural daylight at 27 ± 3ºC (day) and 24 ± 2ºC (night), with humidity at 64 ± 9 (day) to 71 ± 5% (night) until the V1 stage (Fehr et al., 1971). The nutrient solution was kept at pH 6.6 and constantly aerated with atmospheric air. Plantlets were placed in a randomized block design comprising two oxygen conditions and three treatment sampling times, each with three biological replicates (four plantlets per replicate). At the V1 stage, the plantlets were randomly divided into two groups: plants under normoxia (the control condition with plantlets under constant atmospheric aeration) and plantlets under hypoxia (the nutrient solution was constantly bubbled with nitrogen gas). The oxygen concentration was determined before the start of the experiment. The boxes were sealed to avoid the reoxygenation of the nutrient solutions. The oxygen dissolved in the nutrient solution was measured using a portable oxymeter (HI 9146, Hanna). Normoxic conditions contained oxygen concentrations between 7.1 mg/L and 7.8 mg/L, whereas for the hypoxic group, the oxygen concentration was between 0.1 mg/L and 0.3 mg/L (Figure S1). Plantlets were maintained under normoxic (control plants) or hypoxic conditions for 0.5 h, 4 h, and 28 h. At each time point, root tissues were collected and immediately frozen in liquid nitrogen before being stored at −80ºC. Fehr WR, Caviness CE, Burmood DT, Pernnigton JS (1971) Stage of development description for soybeans [Glycine max (L.) Merrill]. Crop Sci. 11: 929-931. Hoagland DR, Arnon DI (1950) The water-culture method for growing for plants without soil. AES Circ. 347: 1-32. Total RNA was extracted from root tissues using Trizol reagent (Invitrogen) according to manufacturer instructions. RNA concentration and purity were measured using a spectrophotometer (NanoDrop, ND-1000), and the integrity of the molecules was analyzed on 1% agarose gels stained with ethidium bromide. For each of twelve treatments {two cultivars (Embrapa 45 and BR 4), two oxygen conditions [fully aerobic state (normoxy) and hypoxic], and three treatment sampling times (0.5h, 4h, and 28h), each with three biological replicates (four plantlets per replicate)}, equimolar quantities of purified total RNA from roots of twelve plants were pooled to result one library. The twelve libraries were sent to Fasteris SA (Plan-les-Ouates, Switzerland) for processing and sequencing. Libraries were prepared according to standard Illumina protocols and deep sequenced on the Illumina HiSeq 2000 platform. After processing the twelve libraries (poly-A purification, fractionation, cDNA synthesis using random primers, and ligation to bar-coded adapters), fragments of 150-250 pb were isolated and multiplexed, resulting one sequencing library (a pooled of equimolar quantities from twelve initial libraries; each library with a specific barcode for further bioinformatic discrimination). Then, sequencing library was used to produce clusters for a 1 x 100 bp single end-sequencing run into one lane on a flow cell for sequencing in a Hi-Seq 2000 (Illumina). The raw data was uploaded to the GeneSifter database (Geospiza, Seattle, WA) for alignment with the soybean reference genome (assembly Glyma 1.1) (Schmutz et al., 2010). The mapping of reads and transcripts analysis was done as described previously (Rodrigues et al., 2015). Rodrigues, F. A., Fuganti-Pagliarini, R., Marcolino-Gomes, J., Nakayama, T. J., Molinari, H. B. C., Lobo, F. P., et al. (2015). Daytime soybean transcriptome fluctuations during water deficit stress. BMC Genomics 16, 505. doi:10.1186/s12864-015-1731-x. Schmutz, J., Cannon, S. B., Schlueter, J., Ma, J., Mitros, T., Nelson, W., et al. (2010). Genome sequence of the palaeopolyploid soybean. Nature 463, 178-183. doi:10.1038/nature08670.

characteristic: description

text: hypoxia

characteristic: growth condition

text: Glycine max

text: Glycine max

text: root

characteristic: organism part

text: Glycine max

characteristic: title

type: has member


text: unspecified

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: soybean

characteristic: common name

text: normoxia

text: Glycine max

characteristic: organism

text: Glycine max

text: root

text: Glycine max


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

characteristic: date of birth

characteristic: date of death

text: liver sample 89374_N1 from DEN treated individual 89374. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:UNIVERSITY OF SHEFFIELD, DEPARTMENT OF ANIMAL & PL

characteristic: airport

text: ITS

characteristic: description

text: Yes

characteristic: environmental sample

text: Germany

characteristic: geographic location (country and/or sea)

text: Aircraft

characteristic: isolation source

text: metagenome

text: Fuel Microcosm BH

characteristic: sample type

text: metagenome

text: Fuel

text: Contaminated sample

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF SHEFFIELD, DEPARTMENT OF ANIMAL & PL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 16S rRNA

text: Yes

text: Germany

text: Aircraft

text: metagenome

characteristic: organism

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ITS

text: Yes

text: Germany

text: Aircraft

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 16S rRNA

text: Yes

text: Germany

text: Aircraft

text: metagenome

text: Water Microcosm H2O

text: metagenome

text: Water

text: Contaminated sample


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ITS

text: Yes

text: Germany

text: Aircraft

text: metagenome

text: Water Microcosm H2O

text: metagenome

text: Water

text: Contaminated sample


text: public

characteristic: airport

text: ITS

characteristic: description

text: Yes

text: Netherlands

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_GTL Tank

text: Contaminated sample


text: public

text: 16S rRNA

text: Yes

characteristic: environmental sample

text: Netherlands

characteristic: geographic location (country and/or sea)

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_GTL Tank

text: Contaminated sample


text: public

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

characteristic: isolation source

text: metagenome

text: Fuel Microcosm BH

characteristic: sample type

text: metagenome

text: Fuel

text: G_Offloader 2

text: Contaminated sample


characteristic: ENA-CHECKLIST

text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Offloader 2

text: Contaminated sample

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: ITS

text: Yes

text: Netherlands

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Tank 6

text: Contaminated sample


text: public

characteristic: Submitter Id

text: 16S rRNA

text: Yes

text: Netherlands

text: Ground

text: metagenome

characteristic: organism

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Tank 6

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Return tank 1

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Return tank 1

text: Contaminated sample


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 16S rRNA

text: Yes

text: Qatar

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Tank 7

text: Contaminated sample


text: public

text: United Kingdom2

characteristic: airport

text: ITS

characteristic: description

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Sump tank 1

text: Contaminated sample


text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

characteristic: environmental sample

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Sump tank 1

text: Contaminated sample


text: public

text: 16S rRNA

text: Yes

text: Germany

text: Aircraft

characteristic: isolation source

text: metagenome

text: Fuel Microcosm H2O

characteristic: sample type

text: metagenome

text: Fuel

text: Contaminated sample


characteristic: ENA-CHECKLIST

text: public

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Sump tank T92

text: Contaminated sample

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Sump tank T92

text: Contaminated sample


text: public

characteristic: Submitter Id

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

characteristic: organism

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Sump tank T92

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Sump tank T57

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Sump tank T57

text: Contaminated sample


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Sump tank T52

text: Contaminated sample


text: public

text: United Kingdom2

characteristic: airport

text: 16S rRNA

characteristic: description

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Sump tank T52

text: Contaminated sample


text: public

text: United Kingdom2

text: ITS

text: Yes

characteristic: environmental sample

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Offloader 2

text: Contaminated sample


text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

characteristic: isolation source

text: metagenome

text: Fuel Microcosm H2O

characteristic: sample type

text: metagenome

text: Fuel

text: G_Offloader 2

text: Contaminated sample


characteristic: ENA-CHECKLIST

text: public

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Sump tank 1

text: Contaminated sample

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Sump tank 1

text: Contaminated sample


text: public

characteristic: Submitter Id

text: ITS

text: Yes

text: Germany

text: Aircraft

text: metagenome

characteristic: organism

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: 16S rRNA

text: Yes

text: Qatar

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Tank 8

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 16S rRNA

text: Yes

text: Netherlands

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Tank 9

text: Contaminated sample


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Offloader 2

text: Contaminated sample


text: public

text: United Kingdom2

characteristic: airport

text: 16S rRNA

characteristic: description

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Offloader 2

text: Contaminated sample


text: public

text: United Kingdom2

text: ITS

text: Yes

characteristic: environmental sample

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Return tank 1

text: Contaminated sample


text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

characteristic: isolation source

text: metagenome

text: Water Direct

characteristic: sample type

text: metagenome

text: Water

text: G_Return tank 1

text: Contaminated sample


characteristic: ENA-CHECKLIST

text: public

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Sump tank T92

text: Contaminated sample

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Sump tank T57

text: Contaminated sample


text: public

characteristic: Submitter Id

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

characteristic: organism

text: Water Direct

text: metagenome

text: Water

text: G_Sump tank T57

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: 16S rRNA

text: Yes

text: Qatar

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Tank 8

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: United Kingdom2

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Sump tank 1

text: Contaminated sample


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: United Kingdom2

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: G_Sump tank 1

text: Contaminated sample


text: public

characteristic: airport

text: 16S rRNA

characteristic: description

text: Yes

text: Germany

text: Aircraft

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: Contaminated sample


text: public

text: ITS

text: Yes

characteristic: environmental sample

text: Germany

characteristic: geographic location (country and/or sea)

text: Aircraft

text: metagenome

text: Water Direct

text: metagenome

text: Water

text: Contaminated sample


text: public

text: ITS

text: Yes

text: Greece

text: Ground

characteristic: isolation source

text: metagenome

text: Fuel Microcosm BH

characteristic: sample type

text: metagenome

text: Fuel

text: Contaminated sample


characteristic: ENA-CHECKLIST

text: public

text: 16S rRNA

text: Yes

text: Greece

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: Contaminated sample

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: 16S rRNA

text: Yes

text: Greece

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: Contaminated sample


text: public

characteristic: Submitter Id

text: ITS

text: Yes

text: Greece

text: Ground

text: metagenome

characteristic: organism

text: Water Microcosm H2O

text: metagenome

text: Water

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: 16S rRNA

text: Yes

text: Greece

text: Ground

text: metagenome

text: Water Microcosm H2O

text: metagenome

text: Water

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: United Kingdom3

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Loader 1

text: Contaminated sample


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: United Kingdom3

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Loader 2

text: Contaminated sample


text: public

text: United Kingdom3

characteristic: airport

text: 16S rRNA

characteristic: description

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Bridger gantry

text: Contaminated sample


text: public

text: United Kingdom3

text: 16S rRNA

text: Yes

characteristic: environmental sample

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Bridger gantry

text: Contaminated sample


text: public

text: United Kingdom1

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

characteristic: isolation source

text: metagenome

text: Fuel Microcosm BH

characteristic: sample type

text: metagenome

text: Fuel

text: G_Loader 1

text: Contaminated sample


characteristic: ENA-CHECKLIST

text: public

text: United Kingdom1

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: G_Loader 1

text: Contaminated sample

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: United Kingdom1

text: ITS

text: Yes

text: United Kingdom

text: Ground

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Offloader 1

text: Contaminated sample


text: public

characteristic: Submitter Id

text: United Kingdom1

text: 16S rRNA

text: Yes

text: United Kingdom

text: Ground

text: metagenome

characteristic: organism

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: G_Offloader 1

text: Contaminated sample


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: United Kingdom1

text: 16S rRNA

text: Yes

text: United Kingdom

text: Aircraft

text: metagenome

text: Fuel Microcosm BH

text: metagenome

text: Fuel

text: Contaminated sample


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: United Kingdom1

text: 16S rRNA

text: Yes

text: United Kingdom

text: Aircraft

text: metagenome

text: Fuel Microcosm H2O

text: metagenome

text: Fuel

text: Contaminated sample


text: unspecified

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Millipore 07-729

characteristic: antibody

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: mouse embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: Protocols: ES cells were grown at 37 °C in a 5% (v/v) CO2 on 0.1% (v/v) gelatin-coated flasks in the presence of GSK3ß and MEK inhibitors and LIF (2i/LIF medium). Complete medium comprised N2B27 (50% Dulbecco’s Modified Eagle’s Medium (DMEM), 50% F12 (DMEM/F12, Invitrogen), 2.5 ml of N2 and 5ml of B27 (Gibco), BSA (Gibco; final concentration 0.012%), non-essential amino acids (Gibco), glucose (final concentration 0.03 M), HEPES (final concentration 4.5 mM) and 0.1 mM beta-mercaptoethanol) was supplemented with CHIR99021, an inhibitor of GSK3ß, at a final concentration of 3µM (Trevigen) and PD0325901, a MEK inhibitor, at the final concentration of 1 µM (Trevigen) and 2 ng/ml LIF. As noted below, differentiation of ES cells from the naive state can be obtained by simple withdrawal of the 2i and LIF factors. Cells were crosslinked with 1% formaldehyde for 10min at RT, glycine was added to a final concentration of 0.125M to quench formaldehyde. Cells were lysed with 1 ml of lysis buffer (10 mM Tris pH 7.5, 1 mM EDTA, 0.1% SDS, 0.1% sodium deoxycholate, 1% Triton X-100, 1× Complete Mini EDTA free proteinase inhibitors) for 20 minutes on ice. Chromatin was sonicated to average fragment size of 400bp. Chromatin extracts corresponding to 10M of cells (90µg of DNA) were precleared with 40µl of Protein A dynabeads. The sample was incubated at 4°C with overhead mixing for 1 hour. 40µl of protein A Dynabeads was washed with PBS and incubated with anti-CTCF (Milipore, 07-729, 5µl) or anti-Rad21 (Abcam, ab-992, 5µg) at RT with overhead mixing (40µl of beads per 5µl of anti-CTCF or 5µg of anti Rad21). 500µl of pre-cleared chromatin was mixed with the antibody-coupled beads and incubated overnight at 4°C with overhead mixing. Next, beads were washed for 10 minutes at 4°C with overhead mixing with lysis buffer (2x), lysis buffer containing 0.3M NaCl (2x), LiCl buffer (0.25 M LiCl, 0.5% Igepal-630, 0.5% sodium deoxycholate, 2x), TE (pH 8.0) plus 0.2% Triton X-100, and TE (pH 8.0). Beads were resuspended in 100µl of TE (pH 8) and incubated at 65°C for 14 hours, 1µl of RNAseA was added and the sample incubated for 1 hour at 37°C. Next,10µl of Proteinase K was added and the sample incubated at 55°C for 2 hours. Beads were separated from the solution using a magnet. 110µl of the supernatant was mixed with 200µl of Ampure Beads (Beckman Coulter) and DNA was extracted following manufacturer’s suggestions. The Library was prepared in Ovation SP Ultralow library system (Nugen) using 2ng of ChIP material.

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: naive embryonic stem cell

characteristic: progenitor cell type

characteristic: replicate

text: Mus musculus


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: unspecified

text: public

characteristic: SRA accession

text: ArrayExpress

text: mouse embryonic stem cell

text: house mouse

characteristic: description

text: Mus musculus

text: Mus musculus

text: naive embryonic stem cell

text: Mus musculus

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: unspecified

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: Millipore 07-729

text: ArrayExpress

text: mouse embryonic stem cell

text: house mouse

text: Protocols: Sox1-GFP mouse embryonic stem cells derived from the E14tg2a line (46C) were grown at 37 °C in a 5% (v/v) CO2 incubator in GMEM (Invitrogen) supplemented with 10% (v/v) fetal bovine serum (FBS, Sigma), 2 ng/ml leukemia inhibitory factor (LIF, in-house), 1 mM 2-mercaptoethanol, non-essential amino acids (Gibco), L-glutamine (Gibco) and Na-pyruvate (Gibco), on gelatin-coated (0.1% v/v) dishes. Accutase (Sigma) was used for cell dissociation and diluted with cell culture medium according to the manufacturer’s recommendations. Cells were passaged every second day and seeded at a density of 1.3 million cells per 10 cm in diameter culture vessel. Medium was exchanged daily. Cells were crosslinked with 1% formaldehyde for 10min at RT, glycine was added to a final concentration of 0.125M to quench formaldehyde. Cells were lysed with 1 ml of lysis buffer (10 mM Tris pH 7.5, 1 mM EDTA, 0.1% SDS, 0.1% sodium deoxycholate, 1% Triton X-100, 1× Complete Mini EDTA free proteinase inhibitors) for 20 minutes on ice. Chromatin was sonicated to average fragment size of 400bp. Chromatin extracts corresponding to 10M of cells (90µg of DNA) were precleared with 40µl of Protein A dynabeads. The sample was incubated at 4°C with overhead mixing for 1 hour. 40µl of protein A Dynabeads was washed with PBS and incubated with anti-CTCF (Milipore, 07-729, 5µl) or anti-Rad21 (Abcam, ab-992, 5µg) at RT with overhead mixing (40µl of beads per 5µl of anti-CTCF or 5µg of anti Rad21). 500µl of pre-cleared chromatin was mixed with the antibody-coupled beads and incubated overnight at 4°C with overhead mixing. Next, beads were washed for 10 minutes at 4°C with overhead mixing with lysis buffer (2x), lysis buffer containing 0.3M NaCl (2x), LiCl buffer (0.25 M LiCl, 0.5% Igepal-630, 0.5% sodium deoxycholate, 2x), TE (pH 8.0) plus 0.2% Triton X-100, and TE (pH 8.0). Beads were resuspended in 100µl of TE (pH 8) and incubated at 65°C for 14 hours, 1µl of RNAseA was added and the sample incubated for 1 hour at 37°C. Next,10µl of Proteinase K was added and the sample incubated at 55°C for 2 hours. Beads were separated from the solution using a magnet. 110µl of the supernatant was mixed with 200µl of Ampure Beads (Beckman Coulter) and DNA was extracted following manufacturer’s suggestions. The Library was prepared in Ovation SP Ultralow library system (Nugen) using 2ng of ChIP material.

text: FBS

text: Mus musculus

characteristic: organism

text: Mus musculus

text: naive embryonic stem cell

text: Mus musculus


text: unspecified

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Millipore 07-729

characteristic: antibody

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell derived neuronal stem cell

text: house mouse

text: Protocols: ES cells were plated at a density of 0.8 million cells per gelatin-coated 10 cm culture vessels in 50% DMEM, 50% F12 (DMEM/F12, Invitrogen) medium supplemented with 2.5ml of N2 and 5ml of B27 (Gibco), BSA (Gibco, final concentration of 0.012%), non-essential amino acids (Gibco), glucose (final concentration 0.03 M), HEPES (final concentration 4.5 mM) and 0.1 mM beta-mercaptoethanol (differentiation medium). Medium was exchanged after 24 and 48 hours, and the cultures were grown for an additional 72 hours. Cells were then gently dissociated using Accutase (Sigma), the GFP+ cell fraction (corresponding to ca. 70% of cells) was sorted by flow cytometry and seeded into a laminin (Sigma) coated 75 cm2 flask (final density of laminin: 10 µg/cm2 of culture surface, coating time: minimum 4 hours at 37°C). Subsequently, cells were grown in differentiation medium supplemented with in-house prepared recombinant murine EGF and bFGF (final concentration of 10 ng/ml) until loss of GFP expression and uniform upregulation of Nestin expression was observed by immunostaining and qRT-PCR. NS cells were passaged at 80% confluence. Medium was exchanged daily. Cells were crosslinked with 1% formaldehyde for 10min at RT, glycine was added to a final concentration of 0.125M to quench formaldehyde. Cells were lysed with 1 ml of lysis buffer (10 mM Tris pH 7.5, 1 mM EDTA, 0.1% SDS, 0.1% sodium deoxycholate, 1% Triton X-100, 1× Complete Mini EDTA free proteinase inhibitors) for 20 minutes on ice. Chromatin was sonicated to average fragment size of 400bp. Chromatin extracts corresponding to 10M of cells (90µg of DNA) were precleared with 40µl of Protein A dynabeads. The sample was incubated at 4°C with overhead mixing for 1 hour. 40µl of protein A Dynabeads was washed with PBS and incubated with anti-CTCF (Milipore, 07-729, 5µl) or anti-Rad21 (Abcam, ab-992, 5µg) at RT with overhead mixing (40µl of beads per 5µl of anti-CTCF or 5µg of anti Rad21). 500µl of pre-cleared chromatin was mixed with the antibody-coupled beads and incubated overnight at 4°C with overhead mixing. Next, beads were washed for 10 minutes at 4°C with overhead mixing with lysis buffer (2x), lysis buffer containing 0.3M NaCl (2x), LiCl buffer (0.25 M LiCl, 0.5% Igepal-630, 0.5% sodium deoxycholate, 2x), TE (pH 8.0) plus 0.2% Triton X-100, and TE (pH 8.0). Beads were resuspended in 100µl of TE (pH 8) and incubated at 65°C for 14 hours, 1µl of RNAseA was added and the sample incubated for 1 hour at 37°C. Next,10µl of Proteinase K was added and the sample incubated at 55°C for 2 hours. Beads were separated from the solution using a magnet. 110µl of the supernatant was mixed with 200µl of Ampure Beads (Beckman Coulter) and DNA was extracted following manufacturer’s suggestions. The Library was prepared in Ovation SP Ultralow library system (Nugen) using 2ng of ChIP material.

text: Mus musculus

text: Mus musculus

text: naive embryonic stem cell

text: Mus musculus


text: unspecified

text: public

text: abcam ab992

text: ArrayExpress

characteristic: cell line

characteristic: cell type

text: house mouse

characteristic: common name

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: naive embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: HUBRECHT INSTITUTE

text: public

characteristic: SRA accession

tag: Namespace:HUBRECHT INSTITUTE

text: house mouse

text: Cells

characteristic: isolation source

text: Mus musculus

text: Mus musculus

text: Tumor

characteristic: tissue type

text: B16F1/B16F10 cells or extracellular vesicles


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: HUBRECHT INSTITUTE

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: house mouse

text: 16.500 g EV

text: Mus musculus

text: Mus musculus

text: Tumor

characteristic: title


text: HUBRECHT INSTITUTE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: 100.000 g EV

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Tumor


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver dysplastic nodule 90888_N5 from individual 90888. This sample is a unique specimen from this individual.

characteristic: description

text: dysplastic nodule

characteristic: diagnosis

characteristic: individual name

text: Mus musculus

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

text: liver

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: southeastern Asian house mouse

text: liver sample 89806_N2 from DEN treated individual 89806. This sample is a unique specimen from this individual.

text: Mus musculus castaneus

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

characteristic: tissue type

characteristic: title

text: DEN


text: GSC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: pea aphid

characteristic: common name

text: Acyrthosiphon pisum

characteristic: organism

text: Acyrthosiphon pisum


text: WEIZMANN INSTITUE OF SCIENCE

text: public

tag: Namespace:WEIZMANN INSTITUE OF SCIENCE

characteristic: collection date

text: NGS sequnced metagenome of reef fish larvae from the gulf of Aqaba

characteristic: description

text: sea water

characteristic: environment (biome)

text: open water

characteristic: environment (feature)

text: sea water

characteristic: environment (material)

text: Israel

characteristic: geographic location (country and/or sea)

unit: m

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

text: GOAIL

characteristic: project name

text: metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: GOAIL

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: southeastern Asian house mouse

characteristic: date of birth

characteristic: date of death

text: liver sample 91058_N1 from DEN treated individual 91058. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: INSDC status

text: house mouse

characteristic: common name

text: liver sample 90789_N2 from DEN treated individual 90789. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: male

text: liver

text: DEN


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: southeastern Asian house mouse

characteristic: date of birth

characteristic: date of death

text: liver sample 92282_N1 from DEN treated individual 92282. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus castaneus

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

text: DEN


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

text: liver sample 92182_N1 from DEN treated individual 92182. This sample is a unique specimen from this individual.

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: INSDC status

text: southeastern Asian house mouse

characteristic: common name

text: liver sample 89799_N1 from DEN treated individual 89799. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus castaneus

characteristic: organism

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

text: DEN


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

characteristic: date of birth

characteristic: date of death

text: ear sample 100875_ear from individual 100875. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus

text: Mus musculus

text: male

text: ear

text: not treated


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: house mouse

text: liver sample 91093_N1 from DEN treated individual 91093. This sample is a unique specimen from this individual.

text: Mus musculus

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

text: liver

characteristic: tissue type

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: INSDC status

text: house mouse

characteristic: common name

text: liver sample 93098_N2 from DEN treated individual 93098. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: male

text: liver

text: DEN


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

characteristic: date of birth

characteristic: date of death

text: liver sample 91841_N1 from DEN treated individual 91841. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus

text: Mus musculus

text: male

text: liver

text: DEN


text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: southeastern Asian house mouse

text: liver sample 91834_N1 from DEN treated individual 91834. This sample is a unique specimen from this individual.

text: Mus musculus castaneus

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

characteristic: title

text: DEN

characteristic: treatment agent

characteristic: treatment date

characteristic: treatment dose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: INSDC status

text: southeastern Asian house mouse

characteristic: common name

text: liver sample 93112_N1 from DEN treated individual 93112. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus castaneus

characteristic: organism

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

text: DEN