{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where devstage_curation_coarse = \"Embryo\" and experiment.library_strategy = \"AMPLICON\"", "rows": [[11130, "ERR9979395", "ERX9520370", "ERS12499848", "ERP139765", "PRJEB54901", "Single cell RNA sequencing of germ free zebrafish embryos", "E-MTAB-11984", "Transcriptome Analysis", "The present study was conducted in the frame of the EU funded Graphene Flagship project. We previously evaluated the impact of graphene oxide GO on the gut microbiome in adult zebrafish by performing 16S rRNA gene sequencing in wild type versus AhR deficient zebrafish. Here we performed single cell RNA sequencing 10x Genomics on whole dissociated germ free GF zebrafish embryos exposed at 5 dpf to GO plus the microbial metabolite butyrate to gain insight into the impact on specific cell populations in GF zebrafish.", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", null, "Protocols: The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Sample 2 WT GO+BA", "SAMEA110401656", "Institute of Environmental Medicine, Karolinska Institutet", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22|External Id:SAMEA110401656|INSDC center alias:Institute of Environmental Medicine Karolinska Institutet|INSDC center name:Institute of Environmental Medicine Karolinska Institutet|INSDC first public:2022 07 22T16:26:50Z|INSDC last update:2022 07 22T16:26:50Z|INSDC status:public|Submitter Id:E MTAB 11984:Sample 2 WT GO+BA|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|individual:pool of 80 individuals|isolate:not applicable|organism part:whole organism|sample name:E MTAB 11984:Sample 2 WT GO+BA|sex:not available|stimulus:graphene oxide 30 ug/mL and butyrate 2.5 mM|strain:AB", null, null, null, null, null, null, null, null, "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "E MTAB 11984:Sample 2 WT GO+BA p", "Sample 2 WT GO+BA p", "Single cell RNA sequencing of germ free zebrafish embryos", "The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Experimental Factor: stimulus:graphene oxide 30 ug/mL and butyrate 2.5 mM", "AMPLICON", "TRANSCRIPTOMIC SINGLE CELL", "size fractionation", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP139765", "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", "P22202_7002_S2_L002_R1_001.fastq.gz P22202_7002_S2_L002_R2_001.fastq.gz", "fastq fastq", 18144406998.0, 153766161.0, "E MTAB 11984:P22202 7002 S2 L002", "0:28 1:90", "A:5277424121;C:3880928155;G:4118706097;T:4866649878;N:698747", 28, 90, null, null, 5277424121, 3880928155, 4118706097, 4866649878, 698747, "ERX9520370", "ERS12499848", "ERA16483151", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", 2, 0.0109, 0.90145, 0.0053, 0.21373, 0.98746, 0.79423, 0.41198, 0.54447, 28, 90, "T", "B", "sc-like readlen", "illumina", "novaseq_era", "full_length", "size_fractionation", "trueseq", "sc", "single_cell_droplet", "10x", null, "Sweden", "2022-07-22", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [11131, "ERR9979394", "ERX9520370", "ERS12499848", "ERP139765", "PRJEB54901", "Single cell RNA sequencing of germ free zebrafish embryos", "E-MTAB-11984", "Transcriptome Analysis", "The present study was conducted in the frame of the EU funded Graphene Flagship project. We previously evaluated the impact of graphene oxide GO on the gut microbiome in adult zebrafish by performing 16S rRNA gene sequencing in wild type versus AhR deficient zebrafish. Here we performed single cell RNA sequencing 10x Genomics on whole dissociated germ free GF zebrafish embryos exposed at 5 dpf to GO plus the microbial metabolite butyrate to gain insight into the impact on specific cell populations in GF zebrafish.", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", null, "Protocols: The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Sample 2 WT GO+BA", "SAMEA110401656", "Institute of Environmental Medicine, Karolinska Institutet", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22|External Id:SAMEA110401656|INSDC center alias:Institute of Environmental Medicine Karolinska Institutet|INSDC center name:Institute of Environmental Medicine Karolinska Institutet|INSDC first public:2022 07 22T16:26:50Z|INSDC last update:2022 07 22T16:26:50Z|INSDC status:public|Submitter Id:E MTAB 11984:Sample 2 WT GO+BA|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|individual:pool of 80 individuals|isolate:not applicable|organism part:whole organism|sample name:E MTAB 11984:Sample 2 WT GO+BA|sex:not available|stimulus:graphene oxide 30 ug/mL and butyrate 2.5 mM|strain:AB", null, null, null, null, null, null, null, null, "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "E MTAB 11984:Sample 2 WT GO+BA p", "Sample 2 WT GO+BA p", "Single cell RNA sequencing of germ free zebrafish embryos", "The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Experimental Factor: stimulus:graphene oxide 30 ug/mL and butyrate 2.5 mM", "AMPLICON", "TRANSCRIPTOMIC SINGLE CELL", "size fractionation", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP139765", "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", "P22202_7002_S2_L001_R1_001.fastq.gz P22202_7002_S2_L001_R2_001.fastq.gz", "fastq fastq", 18458951574.0, 156431793.0, "E MTAB 11984:P22202 7002 S2 L001", "0:28 1:90", "A:5372920926;C:3946687814;G:4185647697;T:4953205454;N:489683", 28, 90, null, null, 5372920926, 3946687814, 4185647697, 4953205454, 489683, "ERX9520370", "ERS12499848", "ERA16483151", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", 2, 0.01037, 0.90168, 0.0048, 0.21246, 0.98752, 0.79297, 0.42601, 0.54996, 28, 90, "T", "B", "sc-like readlen", "illumina", "novaseq_era", "full_length", "size_fractionation", "trueseq", "sc", "single_cell_droplet", "10x", null, "Sweden", "2022-07-22", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [11132, "ERR9979392", "ERX9520369", "ERS12499847", "ERP139765", "PRJEB54901", "Single cell RNA sequencing of germ free zebrafish embryos", "E-MTAB-11984", "Transcriptome Analysis", "The present study was conducted in the frame of the EU funded Graphene Flagship project. We previously evaluated the impact of graphene oxide GO on the gut microbiome in adult zebrafish by performing 16S rRNA gene sequencing in wild type versus AhR deficient zebrafish. Here we performed single cell RNA sequencing 10x Genomics on whole dissociated germ free GF zebrafish embryos exposed at 5 dpf to GO plus the microbial metabolite butyrate to gain insight into the impact on specific cell populations in GF zebrafish.", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", null, "Protocols: The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Sample 1 WT control", "SAMEA110401655", "Institute of Environmental Medicine, Karolinska Institutet", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22|External Id:SAMEA110401655|INSDC center alias:Institute of Environmental Medicine Karolinska Institutet|INSDC center name:Institute of Environmental Medicine Karolinska Institutet|INSDC first public:2022 07 22T16:26:50Z|INSDC last update:2022 07 22T16:26:50Z|INSDC status:public|Submitter Id:E MTAB 11984:Sample 1 WT control|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|individual:pool of 80 individuals|isolate:not applicable|organism part:whole organism|sample name:E MTAB 11984:Sample 1 WT control|sex:not available|stimulus:n1|strain:AB", null, null, null, null, null, null, null, null, "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "E MTAB 11984:Sample 1 WT control p", "Sample 1 WT control p", "Single cell RNA sequencing of germ free zebrafish embryos", "The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Experimental Factor: stimulus:n1", "AMPLICON", "TRANSCRIPTOMIC SINGLE CELL", "size fractionation", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP139765", "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", "P22202_7001_S1_L001_R1_001.fastq.gz P22202_7001_S1_L001_R2_001.fastq.gz", "fastq fastq", 19396994226.0, 164381307.0, "E MTAB 11984:P22202 7001 S1 L001", "0:28 1:90", "A:5665199484;C:4091196594;G:4415211076;T:5224866754;N:520318", 28, 90, null, null, 5665199484, 4091196594, 4415211076, 5224866754, 520318, "ERX9520369", "ERS12499847", "ERA16483151", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", 2, 0.01093, 0.89238, 0.00557, 0.232, 0.98764, 0.79444, 0.40806, 0.54781, 28, 90, "T", "B", "sc-like readlen", "illumina", "novaseq_era", "full_length", "size_fractionation", "trueseq", "sc", "single_cell_droplet", "10x", null, "Sweden", "2022-07-22", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [11133, "ERR9979393", "ERX9520369", "ERS12499847", "ERP139765", "PRJEB54901", "Single cell RNA sequencing of germ free zebrafish embryos", "E-MTAB-11984", "Transcriptome Analysis", "The present study was conducted in the frame of the EU funded Graphene Flagship project. We previously evaluated the impact of graphene oxide GO on the gut microbiome in adult zebrafish by performing 16S rRNA gene sequencing in wild type versus AhR deficient zebrafish. Here we performed single cell RNA sequencing 10x Genomics on whole dissociated germ free GF zebrafish embryos exposed at 5 dpf to GO plus the microbial metabolite butyrate to gain insight into the impact on specific cell populations in GF zebrafish.", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", null, "Protocols: The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Sample 1 WT control", "SAMEA110401655", "Institute of Environmental Medicine, Karolinska Institutet", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22|External Id:SAMEA110401655|INSDC center alias:Institute of Environmental Medicine Karolinska Institutet|INSDC center name:Institute of Environmental Medicine Karolinska Institutet|INSDC first public:2022 07 22T16:26:50Z|INSDC last update:2022 07 22T16:26:50Z|INSDC status:public|Submitter Id:E MTAB 11984:Sample 1 WT control|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|individual:pool of 80 individuals|isolate:not applicable|organism part:whole organism|sample name:E MTAB 11984:Sample 1 WT control|sex:not available|stimulus:n1|strain:AB", null, null, null, null, null, null, null, null, "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "E MTAB 11984:Sample 1 WT control p", "Sample 1 WT control p", "Single cell RNA sequencing of germ free zebrafish embryos", "The generation of germ free zebrafish wild type AB followed previously established protocols [1]. In brief 2 hpf embryos were transferred to petri dishes with sterile E3 medium supplemented with ampicillin 100 \u03bcg/mL kanamycin 5 \u03bcg/mL and amphotericin B 250 ng/mL and incubated at 28\u00b0C. At 50% epiboly up to shield stage 6 hpf the embryos were surface disinfected with 0.1% of polyvinylpyrroidone iodine PVP I for exactly 2 min followed by 0.003% sterile bleach immersion for 18 min. The embryos were then rinsed with sterile E3 medium transferred to flasks and incubated at 28\u00b0C. The viability was monitored and sterile medium was refreshed daily. At day 4 the hatched embryos were used for the sterility validation. A day 5 germ free zebrafish were exposed to the combination of GO 30 \u00b5g/mL and butyrate 2.5 mM for 24 h. GO and BA were pre incubated for 1 h prior to the exposure. Twenty larvae were used as one replicate four replicates i.e. eighty larvae in total were used for each condition. post the exposure zebrafish larvae were dissociated for single cell suspension following the published protocol [2]. Briefly zebrafish larvae were euthanized with 0.01% of tricaine for 5 min collected in 1.5 mL tube and washed with PBS for three times. The dissociation was initiated by adding 500 \u03bcL of pre warmed enzyme mix containing 460 \u03bcL of 0.25% trypsin EDTA Gibco and 40 \u03bcL of collagenase Sigma Aldrich at the concentration of 100 mg/mL followed by mechanical dissociation using P1000 and then P200 pipette tips in heat block at 30 \u00b0C until the tissue was no longer visible about 10 min. The dissociation was then stopped by adding 800 \u03bcL DMEM Corning Cat# 10 013 CV with 10% FBS Fisher Scientific. The cell pellets were collected by centrifuging at 1000 rpm for 5 min at RT followed by washing with PBS. The cells were next resuspended in 0.5 mL DMEM with 10% FBS. Four replicates from each condition were pooled together at this step and filtered through 40 \u03bcm nylon mesh with an additional washing using DMEM with 10% FBS. The cell suspension was then stained with a fluorescent DNA dye DRAQ7 to exclude non viable cells Invitrogen Cat# D15106 at the dose of 3 \u03bcM for 10 min at room temperature before the fluorescence activated cell sorting BD FACSAria III BD Biosciences NJ USA. The sorting was performed using a 100 microns nozzle with the flow rate of 2 and temperature control at 4 \u00b0C and gated based on forward scatter and DRAQ7. The DRAQ7 negative cells of each sample were FACS sorted into the tubes containing DMEM with 10% FBS and placed on ice immediately post the sorting. The cells were then proceeded with the single cell RNA sequencing analysis. 1. Pham LN Kanther M Semova I & Rawls JF. Methods for generating and colonizing gnotobiotic zebrafish. Nat. Protoc. 3 1862 1875 2008. 2. Bresciani E Broadbridge E Liu PP An efficient dissociation protocol for generation of single cell suspension from zebrafish embryos and larvae MethodsX. 5 1287 1290 2018. Single cell RNA sequencing scRNA seq was performed by Eukaryotic Single Cell Genomics Facility at SciLifeLab Stockholm. The single cells collected from FACS sorting were loaded on a 10x GemCode Single Cell Instrument 10x Genomics Pleasanton USA to generate single cell gel beads in emulsion GEMs using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics following the manufacture's protocol. Briefly GEMs were generated by combining barcoded Single Cell three prime v3.1 Gel Beads a Master Mix containing cells and Partitioning Oil onto Chromium Next GEM Chip G. Following GEMs generation the Gel Bead was dissolved primers containing an Illumina TruSeq Read 1read 1 sequencing primer 16 nt 10x Barcode 12 nt unique molecular identifier UMI and 30 nt polydT sequence were released and the co partitioned cells were lysed. The nucleic acid library construction was performed using the Chromium Next GEM Single Cell three prime GEM Library & Gel Bead Kit v3.1 10x Genomics 16 rxns PN 1000268 following the manufacture's protocol. post GEMs generation primers were mixed with the cell lysate and a Master Mix containing reverse transcription RT reagents to produce barcoded full length cDNA from polyadenylated mRNA. Silane magnetic beads were used to purify the first strand cDNA from the post GEM RT reaction mixture which included leftover biochemical reagents and primers. Barcoded full length cDNA was amplified via PCR to generate sufficient mass for library construction. Enzymatic fragmentation and size selection were used to optimize the cDNA amplicon size. P5 P7 i7 and i5 sample indexes and TruSeq Read 2 read 2 primer sequence were added via End Repair A tailing Adaptor Ligation and PCR. The final libraries containing the P5 and P7 primers used in Illumina amplification were prepared for an estimated 5000 nuclei per sample.", "Experimental Factor: stimulus:n1", "AMPLICON", "TRANSCRIPTOMIC SINGLE CELL", "size fractionation", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP139765", "Illumina NovaSeq 6000 paired end sequencing; Single cell RNA sequencing of germ free zebrafish embryos", "ENA FIRST PUBLIC:2022 07 22|ENA LAST UPDATE:2022 07 22", "P22202_7001_S1_L002_R1_001.fastq.gz P22202_7001_S1_L002_R2_001.fastq.gz", "fastq fastq", 19063958224.0, 161558968.0, "E MTAB 11984:P22202 7001 S1 L002", "0:28 1:90", "A:5563588848;C:4022930643;G:4344549562;T:5132136743;N:752428", 28, 90, null, null, 5563588848, 4022930643, 4344549562, 5132136743, 752428, "ERX9520369", "ERS12499847", "ERA16483151", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", "Institute of Environmental Medicine, Karolinska Institutet|European Nucleotide Archive", 2, 0.01118, 0.89308, 0.00573, 0.23128, 0.98737, 0.79354, 0.39264, 0.54552, 28, 90, "T", "B", "sc-like readlen", "illumina", "novaseq_era", "full_length", "size_fractionation", "trueseq", "sc", "single_cell_droplet", "10x", null, "Sweden", "2022-07-22", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [42968, "SRR5892584", "SRX3058354", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF DMSO 3", "40", "40", "solvent control for MF treatments replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-DMSO-3.gz", "fastq", 125472592.0, 1204687.0, "MF DMSO 3.gz", "0:104.15", "A:29674919;C:33269421;G:33090427;T:29437825;N:0", 104, null, null, null, 29674919, 33269421, 33090427, 29437825, 0, "SRX3058354", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96782, null, 0.00028, null, 0.97096, null, 0.44758, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42969, "SRR5892585", "SRX3058353", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF DMSO 2", "39", "39", "solvent control for MF treatments replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-DMSO-2.gz", "fastq", 99884913.0, 971141.0, "MF DMSO 2.gz", "0:102.85", "A:23598949;C:26322425;G:26544412;T:23419127;N:0", 102, null, null, null, 23598949, 26322425, 26544412, 23419127, 0, "SRX3058353", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97296, null, 0.00027, null, 0.97092, null, 0.46658, null, 95, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42970, "SRR5892586", "SRX3058352", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchD 2", "71", "71", "embryo post 8 32hpf solvent control exposurereplication 2 in forth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch4-2.gz", "fastq", 121679118.0, 1146532.0, "DMSO batchD 2.gz", "0:106.13", "A:28957172;C:31903260;G:31955173;T:28863513;N:0", 106, null, null, null, 28957172, 31903260, 31955173, 28863513, 0, "SRX3058352", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.94833, null, 0.0003, null, 0.97019, null, 0.46856, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42971, "SRR5892587", "SRX3058351", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchE 1", "73", "73", "embryo post 8 32hpf solvent control exposurereplication 1 in fifth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch5-1.gz", "fastq", 123397953.0, 1167071.0, "DMSO batchE 1.gz", "0:105.73", "A:28979230;C:32683758;G:32531951;T:29203014;N:0", 105, null, null, null, 28979230, 32683758, 32531951, 29203014, 0, "SRX3058351", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95859, null, 0.00022, null, 0.97072, null, 0.45965, null, 53, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42972, "SRR5892588", "SRX3058350", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF2", "32", "32", "embryo post 8 32hpf 2 REF MFexposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF2.gz", "fastq", 118386968.0, 1138153.0, "MF REF2.gz", "0:104.02", "A:27897906;C:31473696;G:31180817;T:27834549;N:0", 104, null, null, null, 27897906, 31473696, 31180817, 27834549, 0, "SRX3058350", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97077, null, 0.00031, null, 0.97078, null, 0.4628, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42973, "SRR5892589", "SRX3058349", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF10", "31", "31", "embryo post 8 32hpf 10 REF MF exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF10.gz", "fastq", 102454725.0, 1000173.0, "MF REF10.gz", "0:102.44", "A:24358570;C:27069059;G:26881004;T:24146092;N:0", 102, null, null, null, 24358570, 27069059, 26881004, 24146092, 0, "SRX3058349", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97646, null, 0.00032, null, 0.97096, null, 0.44494, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42974, "SRR5892590", "SRX3058348", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF0.08", "34", "34", "embryo post 8 32hpf 0.08 REF MF exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF0.08.gz", "fastq", 120057844.0, 1117682.0, "MF REF0.08.gz", "0:107.42", "A:28224691;C:31792991;G:31542256;T:28497906;N:0", 107, null, null, null, 28224691, 31792991, 31542256, 28497906, 0, "SRX3058348", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95452, null, 0.0002, null, 0.97114, null, 0.45435, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42975, "SRR5892591", "SRX3058347", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF0.4", "33", "33", "embryo post 8 32hpf 0.4 REF MF exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF0.4.gz", "fastq", 180105044.0, 1745166.0, "MF REF0.4.gz", "0:103.20", "A:42458831;C:47872884;G:47284824;T:42488505;N:0", 103, null, null, null, 42458831, 47872884, 47284824, 42488505, 0, "SRX3058347", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97346, null, 0.0003, null, 0.97076, null, 0.4492, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42976, "SRR5892592", "SRX3058346", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF0.0032", "36", "36", "embryo post 8 32hpf 0.0032 REF MF exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF0.0032.gz", "fastq", 118651783.0, 1150496.0, "MF REF0.0032.gz", "0:103.13", "A:28100611;C:31226792;G:31323929;T:28000451;N:0", 103, null, null, null, 28100611, 31226792, 31323929, 28000451, 0, "SRX3058346", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97372, null, 0.00029, null, 0.97076, null, 0.44374, null, 209, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42977, "SRR5892593", "SRX3058345", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF0.016", "35", "35", "embryo post 8 32hpf 0.016 REF MF exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF0.016.gz", "fastq", 120264407.0, 1144665.0, "MF REF0.016.gz", "0:105.07", "A:28327111;C:31914661;G:31543876;T:28478759;N:0", 105, null, null, null, 28327111, 31914661, 31543876, 28478759, 0, "SRX3058345", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96809, null, 0.00037, null, 0.97021, null, 0.476, null, 95, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42978, "SRR5892594", "SRX3058344", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF DMSO 1", "38", "38", "solvent control for MF treatments replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-DMSO-1.gz", "fastq", 112685903.0, 1086206.0, "MF DMSO 1.gz", "0:103.74", "A:26477784;C:30135462;G:29566470;T:26506187;N:0", 103, null, null, null, 26477784, 30135462, 29566470, 26506187, 0, "SRX3058344", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96856, null, 0.00033, null, 0.97053, null, 0.47169, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42979, "SRR5892595", "SRX3058343", "SRS2404188", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "MF", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:MF REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "MF REF0.00064", "37", "37", "embryo post 8 32hpf 0.00064 REF MF exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "MF-REF0.00064.gz", "fastq", 138041498.0, 1329985.0, "MF REF0.00064.gz", "0:103.79", "A:32831449;C:36507596;G:36517879;T:32184574;N:0", 103, null, null, null, 32831449, 36507596, 36517879, 32184574, 0, "SRX3058343", "SRS2404188", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.9711, null, 0.00032, null, 0.97037, null, 0.45908, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42980, "SRR5892596", "SRX3058342", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA DMSO 3", "14", "14", "solvent control for BPA treatments replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-DMSO-3.gz", "fastq", 128677198.0, 1267014.0, "BPA batchA DMSO 3.gz", "0:101.56", "A:30121409;C:34158183;G:33947254;T:30450352;N:0", 101, null, null, null, 30121409, 34158183, 33947254, 30450352, 0, "SRX3058342", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.9747, null, 0.00038, null, 0.96997, null, 0.45436, null, 39, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42981, "SRR5892597", "SRX3058341", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA DMSO 2", "13", "13", "solvent control for BPA treatments replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-DMSO-2.gz", "fastq", 139753534.0, 1344733.0, "BPA batchA DMSO 2.gz", "0:103.93", "A:32634342;C:37124460;G:36974717;T:33020015;N:0", 103, null, null, null, 32634342, 37124460, 36974717, 33020015, 0, "SRX3058341", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96389, null, 0.0003, null, 0.97061, null, 0.4625, null, 130, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42982, "SRR5892598", "SRX3058340", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA DMSO 1", "12", "12", "solvent control for BPA treatments replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-DMSO-1.gz", "fastq", 87146396.0, 838028.0, "BPA batchA DMSO 1.gz", "0:103.99", "A:20425737;C:23194839;G:22979017;T:20546803;N:0", 103, null, null, null, 20425737, 23194839, 22979017, 20546803, 0, "SRX3058340", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96674, null, 0.00031, null, 0.97023, null, 0.45374, null, 293, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42983, "SRR5892599", "SRX3058339", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.00001\u7c73\u6536", "11", "11", "embryo post 8 32hpf 0.00001\u7c73\u6536 BPA exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.00001.gz", "fastq", 181136622.0, 1697148.0, "BPA batchA 0.00001.gz", "0:106.73", "A:42674421;C:48091657;G:47628809;T:42741735;N:0", 106, null, null, null, 42674421, 48091657, 47628809, 42741735, 0, "SRX3058339", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.94555, null, 0.00034, null, 0.96995, null, 0.46606, null, 127, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42984, "SRR5892600", "SRX3058338", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchB DMSO 1", "18", "18", "solvent control for BPA treatments replication 1 of second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch2-DMSO-1.gz", "fastq", 190360408.0, 1826565.0, "BPA batchB DMSO 1.gz", "0:104.22", "A:45053834;C:50530050;G:49994950;T:44781574;N:0", 104, null, null, null, 45053834, 50530050, 49994950, 44781574, 0, "SRX3058338", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95851, null, 0.0005, null, 0.97064, null, 0.48533, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42985, "SRR5892601", "SRX3058337", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchB 10\u7c73\u6536 3", "17", "17", "embryo post 8 32hpf 10\u7c73\u6536 BPA exposure replication 3 of second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch2-10-3.gz", "fastq", 129958171.0, 1234884.0, "BPA batchB 10 3.gz", "0:105.24", "A:30593687;C:34649249;G:33959196;T:30756039;N:0", 105, null, null, null, 30593687, 34649249, 33959196, 30756039, 0, "SRX3058337", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95837, null, 0.00038, null, 0.97021, null, 0.43259, null, 90, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42986, "SRR5892602", "SRX3058336", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchB 10\u7c73\u6536 2", "16", "16", "embryo post 8 32hpf 10\u7c73\u6536 BPA exposure replication 2 of second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch2-10-2.gz", "fastq", 111526287.0, 1065508.0, "BPA batchB 10 2.gz", null, null, null, null, null, null, null, null, null, null, null, "SRX3058336", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95874, null, 0.00036, null, 0.97088, null, 0.47485, null, 91, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42987, "SRR5892603", "SRX3058335", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchB 10\u7c73\u6536 1", "15", "15", "embryo post 8 32hpf 10\u7c73\u6536 BPA exposure replication 1 of second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch2-10-1.gz", "fastq", 148236004.0, 1405950.0, "BPA batchB 10 1.gz", "0:105.43", "A:34932381;C:39440691;G:38952209;T:34910723;N:0", 105, null, null, null, 34932381, 39440691, 38952209, 34910723, 0, "SRX3058335", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.94847, null, 0.00039, null, 0.97104, null, 0.44543, null, 147, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42988, "SRR5892604", "SRX3058334", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW DMSO 1", "58", "58", "solvent control for RW treatments replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-DMSO-1.gz", "fastq", 90296522.0, 881436.0, "RW DMSO 1.gz", "0:102.44", "A:21245787;C:24001505;G:23627578;T:21421652;N:0", 102, null, null, null, 21245787, 24001505, 23627578, 21421652, 0, "SRX3058334", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97259, null, 0.00038, null, 0.97059, null, 0.46653, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42989, "SRR5892605", "SRX3058333", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF0.00064", "57", "57", "embryo post 8 32hpf 0.00064 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF0.00064.gz", "fastq", 119148594.0, 1136559.0, "RW REF0.00064.gz", "0:104.83", "A:28408032;C:31308813;G:31437438;T:27994311;N:0", 104, null, null, null, 28408032, 31308813, 31437438, 27994311, 0, "SRX3058333", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96623, null, 0.00038, null, 0.97041, null, 0.46244, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42990, "SRR5892606", "SRX3058332", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchB DMSO 3", "20", "20", "solvent control for BPA treatments replication 3 of second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch2-DMSO-3.gz", "fastq", 132185040.0, 1292999.0, "BPA batchB DMSO 3.gz", "0:102.23", "A:31141243;C:35151786;G:34801554;T:31090457;N:0", 102, null, null, null, 31141243, 35151786, 34801554, 31090457, 0, "SRX3058332", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96648, null, 0.00044, null, 0.9712, null, 0.46006, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42991, "SRR5892607", "SRX3058331", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchB DMSO 2", "19", "19", "solvent control for BPA treatments replication 2 of second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch2-DMSO-2.gz", "fastq", 198715047.0, 1945773.0, "BPA batchB DMSO 2.gz", "0:102.13", "A:46860862;C:52753060;G:52418957;T:46682168;N:0", 102, null, null, null, 46860862, 52753060, 52418957, 46682168, 0, "SRX3058331", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96434, null, 0.00054, null, 0.97102, null, 0.48108, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42992, "SRR5892608", "SRX3058330", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF0.08", "54", "54", "embryo post 8 32hpf 0.08 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF0.08.gz", "fastq", 127136654.0, 1214911.0, "RW REF0.08.gz", "0:104.65", "A:30233425;C:33478062;G:33472258;T:29952909;N:0", 104, null, null, null, 30233425, 33478062, 33472258, 29952909, 0, "SRX3058330", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96691, null, 0.0003, null, 0.97055, null, 0.46819, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42993, "SRR5892609", "SRX3058329", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF0.4", "53", "53", "embryo post 8 32hpf 0.4 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF0.4.gz", "fastq", 129289322.0, 1244319.0, "RW REF0.4.gz", "0:103.90", "A:30777918;C:34167997;G:33984655;T:30358752;N:0", 103, null, null, null, 30777918, 34167997, 33984655, 30358752, 0, "SRX3058329", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97109, null, 0.00047, null, 0.97068, null, 0.45379, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42994, "SRR5892610", "SRX3058328", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF2", "52", "52", "embryo post 8 32hpf 2 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF2.gz", "fastq", 135626205.0, 1336064.0, "RW REF2.gz", "0:101.51", "A:31940807;C:35945322;G:35661876;T:32078200;N:0", 101, null, null, null, 31940807, 35945322, 35661876, 32078200, 0, "SRX3058328", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97398, null, 0.00037, null, 0.971, null, 0.44795, null, 101, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42995, "SRR5892611", "SRX3058327", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF10", "51", "51", "embryo post 8 32hpf 10 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF10.gz", "fastq", 114472762.0, 1101957.0, "RW REF10.gz", "0:103.88", "A:27165344;C:30313463;G:29951959;T:27041996;N:0", 103, null, null, null, 27165344, 30313463, 29951959, 27041996, 0, "SRX3058327", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96908, null, 0.0003, null, 0.9709, null, 0.47528, null, 94, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42996, "SRR5892612", "SRX3058326", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF0.0032", "56", "56", "embryo post 8 32hpf 0.0032 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF0.0032.gz", "fastq", 132020159.0, 1278212.0, "RW REF0.0032.gz", "0:103.29", "A:31188115;C:34954540;G:34762155;T:31115349;N:0", 103, null, null, null, 31188115, 34954540, 34762155, 31115349, 0, "SRX3058326", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96987, null, 0.00023, null, 0.97128, null, 0.4595, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42997, "SRR5892613", "SRX3058325", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchE 3", "75", "75", "embryo post 8 32hpf solvent control exposurereplication 3 in fifth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch5-3.gz", "fastq", 134422048.0, 1283130.0, "DMSO batchE 3.gz", "0:104.76", "A:32023899;C:35569650;G:34994035;T:31834464;N:0", 104, null, null, null, 32023899, 35569650, 34994035, 31834464, 0, "SRX3058325", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96792, null, 0.00025, null, 0.97023, null, 0.47309, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42998, "SRR5892614", "SRX3058324", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW REF0.016", "55", "55", "embryo post 8 32hpf 0.016 REF RW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-REF0.016.gz", "fastq", 89401238.0, 882005.0, "RW REF0.016.gz", "0:101.36", "A:21088292;C:23716541;G:23507120;T:21089285;N:0", 101, null, null, null, 21088292, 23716541, 23507120, 21089285, 0, "SRX3058324", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97867, null, 0.00029, null, 0.97149, null, 0.45787, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [42999, "SRR5892615", "SRX3058323", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 10\u7c73\u6536 2", "2", "2", "embryo post 8 32hpf 10\u7c73\u6536 BPA exposure replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-10-2.gz", "fastq", 80529137.0, 762390.0, "BPA batchA 10 2.gz", "0:105.63", "A:18846226;C:21468380;G:21127663;T:19086868;N:0", 105, null, null, null, 18846226, 21468380, 21127663, 19086868, 0, "SRX3058323", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96077, null, 0.00029, null, 0.97017, null, 0.46214, null, 127, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43000, "SRR5892811", "SRX3058322", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 10\u7c73\u6536 1", "1", "1", "embryo post 8 32hpf 10\u7c73\u6536 BPA exposure replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-10-1.gz", "fastq", 73829118.0, 703769.0, "BPA batchA 10 1", "0:104.91", "A:17327831;C:19655363;G:19439000;T:17406924;N:0", 104, null, null, null, 17327831, 19655363, 19439000, 17406924, 0, "SRX3058322", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95952, null, 0.00034, null, 0.97005, null, 0.44908, null, 107, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43001, "SRR5892616", "SRX3058321", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 1\u7c73\u6536", "4", "4", "embryo post 8 32hpf 1\u7c73\u6536 BPA exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-1.gz", "fastq", 78363051.0, 736886.0, "BPA batchA 1.gz", "0:106.34", "A:18388411;C:20802214;G:20646949;T:18525477;N:0", 106, null, null, null, 18388411, 20802214, 20646949, 18525477, 0, "SRX3058321", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95116, null, 0.00033, null, 0.9707, null, 0.4582, null, 62, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43002, "SRR5892617", "SRX3058320", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 10\u7c73\u6536 3", "3", "3", "embryo post 8 32hpf 10\u7c73\u6536 BPA exposure replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-10-3.gz", "fastq", 80165508.0, 756264.0, "BPA batchA 10 3.gz", "0:106.00", "A:18721565;C:21425571;G:21071998;T:18946374;N:0", 106, null, null, null, 18721565, 21425571, 21071998, 18946374, 0, "SRX3058320", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95754, null, 0.0004, null, 0.97011, null, 0.43712, null, 84, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43003, "SRR5892618", "SRX3058319", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.1\u7c73\u6536 2", "6", "6", "embryo post 8 32hpf 0.1\u7c73\u6536 BPA exposure replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.1-2.gz", "fastq", 179856447.0, 1717239.0, "BPA batchA 0.1 2.gz", "0:104.74", "A:42432781;C:47571274;G:47195620;T:42656772;N:0", 104, null, null, null, 42432781, 47571274, 47195620, 42656772, 0, "SRX3058319", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95824, null, 0.00044, null, 0.97053, null, 0.49329, null, 180, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43004, "SRR5892619", "SRX3058318", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.1\u7c73\u6536 1", "5", "5", "embryo post 8 32hpf 0.1\u7c73\u6536 BPA exposure replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.1-1.gz", "fastq", 61360908.0, 585502.0, "BPA batchA 0.1 1.gz", "0:104.80", "A:14340320;C:16321670;G:16194989;T:14503929;N:0", 104, null, null, null, 14340320, 16321670, 16194989, 14503929, 0, "SRX3058318", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96519, null, 0.0002, null, 0.97074, null, 0.48732, null, 45, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43005, "SRR5892620", "SRX3058317", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.01\u7c73\u6536", "8", "8", "embryo post 8 32hpf 0.01\u7c73\u6536 BPA exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.01.gz", "fastq", 65748354.0, 627138.0, "BPA batchA 0.01.gz", "0:104.84", "A:15364594;C:17538856;G:17342236;T:15502668;N:0", 104, null, null, null, 15364594, 17538856, 17342236, 15502668, 0, "SRX3058317", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.9598, null, 0.00022, null, 0.97112, null, 0.44717, null, 138, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43006, "SRR5892621", "SRX3058316", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.1\u7c73\u6536 3", "7", "7", "embryo post 8 32hpf 0.1\u7c73\u6536 BPA exposure replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.1-3.gz", "fastq", 266147560.0, 2552789.0, "BPA batchA 0.1 3.gz", "0:104.26", "A:62870702;C:70586109;G:69904862;T:62785887;N:0", 104, null, null, null, 62870702, 70586109, 69904862, 62785887, 0, "SRX3058316", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96039, null, 0.00038, null, 0.97096, null, 0.45805, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43007, "SRR5892622", "SRX3058315", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchC 3", "69", "69", "embryo post 8 32hpf solvent control exposurereplication 3 in third batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch3-3.gz", "fastq", 229568543.0, 2215642.0, "DMSO batchC 3.gz", "0:103.61", "A:54491696;C:60494539;G:60307399;T:54274909;N:0", 103, null, null, null, 54491696, 60494539, 60307399, 54274909, 0, "SRX3058315", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96381, null, 0.00039, null, 0.96909, null, 0.46232, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43008, "SRR5892623", "SRX3058314", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.001\u7c73\u6536", "9", "9", "embryo post 8 32hpf 0.001\u7c73\u6536 BPA exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.001.gz", "fastq", 107342639.0, 1011191.0, "BPA batchA 0.001.gz", "0:106.15", "A:25243607;C:28560404;G:28259900;T:25278728;N:0", 106, null, null, null, 25243607, 28560404, 28259900, 25278728, 0, "SRX3058314", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95157, null, 0.00018, null, 0.97015, null, 0.47508, null, 97, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43009, "SRR5892624", "SRX3058313", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchF 1", "76", "76", "embryo post 8 32hpf solvent control exposurereplication 1 in sixth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch6-1.gz", "fastq", 122524364.0, 1140373.0, "DMSO batchF 1.gz", "0:107.44", "A:29037400;C:32463628;G:32002009;T:29021327;N:0", 107, null, null, null, 29037400, 32463628, 32002009, 29021327, 0, "SRX3058313", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.93726, null, 0.00028, null, 0.96958, null, 0.45888, null, 94, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43010, "SRR5892625", "SRX3058312", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchD 1", "70", "70", "embryo post 8 32hpf solvent control exposurereplication 1 in forth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch4-1.gz", "fastq", 74926719.0, 693447.0, "DMSO batchD 1.gz", "0:108.05", "A:17822945;C:19685470;G:19609716;T:17808588;N:0", 108, null, null, null, 17822945, 19685470, 19609716, 17808588, 0, "SRX3058312", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.93205, null, 0.00032, null, 0.97027, null, 0.46463, null, 90, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43011, "SRR5892626", "SRX3058311", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 DMSO 2", "29", "29", "solvent control for Eff2 treatments replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-DMSO-2.gz", "fastq", 130173677.0, 1276939.0, "Eff2 DMSO 2.gz", "0:101.94", "A:30800656;C:34461237;G:34302175;T:30609609;N:0", 101, null, null, null, 30800656, 34461237, 34302175, 30609609, 0, "SRX3058311", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97312, null, 0.00044, null, 0.97102, null, 0.46785, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43012, "SRR5892627", "SRX3058310", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 DMSO 3", "30", "30", "solvent control for Eff2 treatments replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-DMSO-3.gz", "fastq", 98823789.0, 964906.0, "Eff2 DMSO 3.gz", "0:102.42", "A:23307320;C:26100823;G:25991325;T:23424321;N:0", 102, null, null, null, 23307320, 26100823, 25991325, 23424321, 0, "SRX3058310", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97592, null, 0.00057, null, 0.96976, null, 0.47719, null, 219, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43013, "SRR5892628", "SRX3058309", "SRS2404190", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "BPA", null, "breed:TU|isolation source:lab|collection date:2017 01 13|geo loc name:China|tissue:embryos|age:32hpf|identified by:BPA 10 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "BPA batchA 0.0001\u7c73\u6536", "10", "10", "embryo post 8 32hpf 0.0001\u7c73\u6536 BPA exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "BPA-batch1-0.0001.gz", "fastq", 268069933.0, 2570083.0, "BPA batchA 0.0001.gz", "0:104.30", "A:62964064;C:71208232;G:70632425;T:63265212;N:0", 104, null, null, null, 62964064, 71208232, 70632425, 63265212, 0, "SRX3058309", "SRS2404190", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95821, null, 0.00028, null, 0.97019, null, 0.45389, null, 55, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43014, "SRR5892629", "SRX3058308", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF0.4", "23", "23", "embryo post 8 32hpf 0.4 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF0.4.gz", "fastq", 116602334.0, 1111951.0, "Eff2 REF0.4.gz", "0:104.86", "A:27578342;C:31122143;G:30463869;T:27437980;N:0", 104, null, null, null, 27578342, 31122143, 30463869, 27437980, 0, "SRX3058308", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96298, null, 0.00032, null, 0.97086, null, 0.47066, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43015, "SRR5892630", "SRX3058307", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF0.08", "24", "24", "embryo post 8 32hpf 0.08 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF0.08.gz", "fastq", 117257335.0, 1135362.0, "Eff2 REF0.08.gz", "0:103.28", "A:27762486;C:30779147;G:30926101;T:27789601;N:0", 103, null, null, null, 27762486, 30779147, 30926101, 27789601, 0, "SRX3058307", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96727, null, 0.0003, null, 0.97015, null, 0.46445, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43016, "SRR5892631", "SRX3058306", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF10", "21", "21", "embryo post 8 32hpf 10 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF10.gz", "fastq", 115465293.0, 1111343.0, "Eff2 REF10.gz", "0:103.90", "A:27473288;C:30244659;G:30506693;T:27240653;N:0", 103, null, null, null, 27473288, 30244659, 30506693, 27240653, 0, "SRX3058306", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96992, null, 0.00039, null, 0.97051, null, 0.47976, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43017, "SRR5892632", "SRX3058305", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF2", "22", "22", "embryo post 8 32hpf 2 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF2.gz", "fastq", 120868058.0, 1162567.0, "Eff2 REF2.gz", "0:103.97", "A:28696636;C:32093659;G:31820629;T:28257134;N:0", 103, null, null, null, 28696636, 32093659, 31820629, 28257134, 0, "SRX3058305", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97014, null, 0.00042, null, 0.97094, null, 0.47389, null, 182, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43018, "SRR5892633", "SRX3058304", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF0.00064", "27", "27", "embryo post 8 32hpf 0.00064 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF0.00064.gz", "fastq", 139928274.0, 1343610.0, "Eff2 REF0.00064.gz", "0:104.14", "A:32900996;C:37559352;G:36386686;T:33081240;N:0", 104, null, null, null, 32900996, 37559352, 36386686, 33081240, 0, "SRX3058304", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96704, null, 0.00034, null, 0.97068, null, 0.46896, null, 90, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43019, "SRR5892634", "SRX3058303", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 DMSO 1", "28", "28", "solvent control for Eff2 treatments replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-DMSO-1.gz", "fastq", 60761073.0, 595809.0, "Eff2 DMSO 1.gz", "0:101.98", "A:14285866;C:16118046;G:15995502;T:14361659;N:0", 101, null, null, null, 14285866, 16118046, 15995502, 14361659, 0, "SRX3058303", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.9804, null, 0.00049, null, 0.97053, null, 0.45304, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43020, "SRR5892635", "SRX3058302", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF0.016", "25", "25", "embryo post 8 32hpf 0.016 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF0.016.gz", "fastq", 150218876.0, 1519616.0, "Eff2 REF0.016.gz", "0:98.85", "A:35329654;C:39989538;G:39635993;T:35263691;N:0", 98, null, null, null, 35329654, 39989538, 39635993, 35263691, 0, "SRX3058302", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.978, null, 0.00073, null, 0.97116, null, 0.45246, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43021, "SRR5892636", "SRX3058301", "SRS2404192", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "Eff2", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:Eff2 REF DMSO 2|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "Eff2 REF0.0032", "26", "26", "embryo post 8 32hpf 0.0032 REF Eff2 exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "Eff2-REF0.0032.gz", "fastq", 76364045.0, 783876.0, "Eff2 REF0.0032.gz", "0:97.42", "A:17887126;C:20254122;G:20251726;T:17971071;N:0", 97, null, null, null, 17887126, 20254122, 20251726, 17971071, 0, "SRX3058301", "SRS2404192", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.98075, null, 0.00035, null, 0.97153, null, 0.42567, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43022, "SRR5892637", "SRX3058300", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW DMSO 2", "49", "49", "solvent control for DW treatments replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-DMSO-2.gz", "fastq", 98823789.0, 964906.0, "DW DMSO 2.gz", "0:102.42", "A:23307320;C:26100823;G:25991325;T:23424321;N:0", 102, null, null, null, 23307320, 26100823, 25991325, 23424321, 0, "SRX3058300", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97592, null, 0.00058, null, 0.96974, null, 0.47715, null, 219, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43023, "SRR5892638", "SRX3058299", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW DMSO 3", "50", "50", "solvent control for DW treatments replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-DMSO-3.gz", "fastq", 98229102.0, 950445.0, "DW DMSO 3.gz", "0:103.35", "A:23324283;C:25872498;G:25849563;T:23182758;N:0", 103, null, null, null, 23324283, 25872498, 25849563, 23182758, 0, "SRX3058299", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.969, null, 0.00029, null, 0.97019, null, 0.46904, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43024, "SRR5892639", "SRX3058298", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchB 2", "65", "65", "embryo post 8 32hpf solvent control exposurereplication 2 in second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch2-2.gz", "fastq", 181332852.0, 1769396.0, "DMSO batchB 2.gz", "0:102.48", "A:43111149;C:47723124;G:47703716;T:42794863;N:0", 102, null, null, null, 43111149, 47723124, 47703716, 42794863, 0, "SRX3058298", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96034, null, 0.00047, null, 0.96974, null, 0.45533, null, 196, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43025, "SRR5892640", "SRX3058297", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchB 3", "66", "66", "embryo post 8 32hpf solvent control exposurereplication 3 in second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch2-3.gz", "fastq", 250009982.0, 2396988.0, "DMSO batchB 3.gz", "0:104.30", "A:59211578;C:66112203;G:65641188;T:59045013;N:0", 104, null, null, null, 59211578, 66112203, 65641188, 59045013, 0, "SRX3058297", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95818, null, 0.00057, null, 0.96881, null, 0.45554, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43026, "SRR5892641", "SRX3058296", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchA 3", "63", "63", "embryo post 8 32hpf solvent control exposurereplication 3 in first batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch1-3.gz", "fastq", 51761082.0, 487084.0, "DMSO batchA 3.gz", "0:106.27", "A:12262267;C:13621715;G:13587764;T:12289336;N:0", 106, null, null, null, 12262267, 13621715, 13587764, 12289336, 0, "SRX3058296", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95092, null, 0.0003, null, 0.97017, null, 0.46558, null, 100, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43027, "SRR5892642", "SRX3058295", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchB 1", "64", "64", "embryo post 8 32hpf solvent control exposurereplication 1 in second batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch2-1.gz", "fastq", 137529705.0, 1318658.0, "DMSO batchB 1.gz", "0:104.30", "A:32525823;C:36223433;G:36304519;T:32475930;N:0", 104, null, null, null, 32525823, 36223433, 36304519, 32475930, 0, "SRX3058295", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.95767, null, 0.00051, null, 0.96978, null, 0.45671, null, 107, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43028, "SRR5892643", "SRX3058294", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchA 1", "61", "61", "embryo post 8 32hpf solvent control exposurereplication 1 in first batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch1-1.gz", "fastq", 54970926.0, 518074.0, "DMSO batchA 1.gz", "0:106.11", "A:13057581;C:14507897;G:14456016;T:12949432;N:0", 106, null, null, null, 13057581, 14507897, 14456016, 12949432, 0, "SRX3058294", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.94528, null, 0.00049, null, 0.96932, null, 0.46753, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43029, "SRR5892644", "SRX3058293", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchA 2", "62", "62", "embryo post 8 32hpf solvent control exposurereplication 2 in first batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch1-2.gz", "fastq", 255347833.0, 2401083.0, "DMSO batchA 2.gz", "0:106.35", "A:61082865;C:67174427;G:66429786;T:60660755;N:0", 106, null, null, null, 61082865, 67174427, 66429786, 60660755, 0, "SRX3058293", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.93642, null, 0.0006, null, 0.96907, null, 0.4557, null, 100, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43030, "SRR5892645", "SRX3058292", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF10", "41", "41", "embryo post 8 32hpf 10 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF10.gz", "fastq", 85962034.0, 853378.0, "DW REF10.gz", "0:100.73", "A:20224728;C:22751213;G:22796892;T:20189201;N:0", 100, null, null, null, 20224728, 22751213, 22796892, 20189201, 0, "SRX3058292", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97882, null, 0.00028, null, 0.97139, null, 0.45221, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43031, "SRR5892646", "SRX3058291", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF2", "42", "42", "embryo post 8 32hpf 2 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF2.gz", "fastq", 123528031.0, 1205821.0, "DW REF2.gz", "0:102.44", "A:29195124;C:32436853;G:32741612;T:29154442;N:0", 102, null, null, null, 29195124, 32436853, 32741612, 29154442, 0, "SRX3058291", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97597, null, 0.00026, null, 0.97122, null, 0.42951, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43032, "SRR5892647", "SRX3058290", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF0.4", "43", "43", "embryo post 8 32hpf 0.4 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF0.4.gz", "fastq", 80805211.0, 808689.0, "DW REF0.4.gz", "0:99.92", "A:19124436;C:21362077;G:21221521;T:19097177;N:0", 99, null, null, null, 19124436, 21362077, 21221521, 19097177, 0, "SRX3058290", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.98077, null, 0.00032, null, 0.97155, null, 0.45004, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43033, "SRR5892648", "SRX3058289", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF0.08", "44", "44", "embryo post 8 32hpf 0.08 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF0.08.gz", "fastq", 156227049.0, 1483136.0, "DW REF0.08.gz", "0:105.34", "A:37000695;C:41020030;G:41437003;T:36769321;N:0", 105, null, null, null, 37000695, 41020030, 41437003, 36769321, 0, "SRX3058289", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96659, null, 0.00039, null, 0.97021, null, 0.46998, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43034, "SRR5892649", "SRX3058288", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF0.016", "45", "45", "embryo post 8 32hpf 0.016 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF0.016.gz", "fastq", 105525902.0, 1024760.0, "DW REF0.016.gz", "0:102.98", "A:25009705;C:27915527;G:27638170;T:24962500;N:0", 102, null, null, null, 25009705, 27915527, 27638170, 24962500, 0, "SRX3058288", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96884, null, 0.00033, null, 0.97064, null, 0.44689, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43035, "SRR5892650", "SRX3058287", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF0.0032", "46", "46", "embryo post 8 32hpf 0.0032 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF0.0032.gz", "fastq", 91320121.0, 896375.0, "DW REF0.0032.gz", "0:101.88", "A:21749749;C:24046891;G:24076896;T:21446585;N:0", 101, null, null, null, 21749749, 24046891, 24076896, 21446585, 0, "SRX3058287", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97536, null, 0.00041, null, 0.97055, null, 0.45883, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43036, "SRR5892651", "SRX3058286", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW REF0.00064", "47", "47", "embryo post 8 32hpf 0.00064 REF DW exposure", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-REF0.00064.gz", "fastq", 79860974.0, 769951.0, "DW REF0.00064.gz", "0:103.72", "A:18763494;C:21304233;G:20873577;T:18919670;N:0", 103, null, null, null, 18763494, 21304233, 20873577, 18919670, 0, "SRX3058286", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97247, null, 0.00027, null, 0.97061, null, 0.47429, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43037, "SRR5892652", "SRX3058285", "SRS2404193", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:DW REF DMSO 3|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DW DMSO 1", "48", "48", "solvent control for DW treatments replication 1", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DW-DMSO-1.gz", "fastq", 111066881.0, 1069114.0, "DW DMSO 1.gz", "0:103.89", "A:26048176;C:29494944;G:29306560;T:26217201;N:0", 103, null, null, null, 26048176, 29494944, 29306560, 26217201, 0, "SRX3058285", "SRS2404193", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.9685, null, 0.00024, null, 0.97023, null, 0.45888, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43038, "SRR5892653", "SRX3058284", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW DMSO 3", "60", "60", "solvent control for RW treatments replication 3", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-DMSO-3.gz", "fastq", 79645000.0, 756954.0, "RW DMSO 3.gz", "0:105.22", "A:18824017;C:21139617;G:20908469;T:18772897;N:0", 105, null, null, null, 18824017, 21139617, 20908469, 18772897, 0, "SRX3058284", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96764, null, 0.00028, null, 0.9708, null, 0.46913, null, 31, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43039, "SRR5892654", "SRX3058283", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchC 1", "67", "67", "embryo post 8 32hpf solvent control exposurereplication 1 in third batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch3-1.gz", "fastq", 148237805.0, 1464542.0, "DMSO batchC 1.gz", "0:101.22", "A:34729919;C:39397602;G:39251519;T:34858765;N:0", 101, null, null, null, 34729919, 39397602, 39251519, 34858765, 0, "SRX3058283", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97193, null, 0.00055, null, 0.97084, null, 0.44877, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43040, "SRR5892655", "SRX3058282", "SRS2404191", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "RW", null, "breed:TU|isolation source:lab|collection date:2017 01 27|geo loc name:China|tissue:embryos|age:32hpf|identified by:RW REF10|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "RW DMSO 2", "59", "59", "solvent control for RW treatments replication 2", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "RW-DMSO-2.gz", "fastq", 88506918.0, 858326.0, "RW DMSO 2.gz", "0:103.12", "A:20894323;C:23386921;G:23376653;T:20849021;N:0", 103, null, null, null, 20894323, 23386921, 23376653, 20849021, 0, "SRX3058282", "SRS2404191", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97107, null, 0.00042, null, 0.97017, null, 0.45197, null, 82, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43041, "SRR5892656", "SRX3058281", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchC 2", "68", "68", "embryo post 8 32hpf solvent control exposurereplication 2 in third batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch3-2.gz", "fastq", 120223045.0, 1183014.0, "DMSO batchC 2.gz", "0:101.62", "A:28439501;C:31776286;G:31624483;T:28382775;N:0", 101, null, null, null, 28439501, 31776286, 31624483, 28382775, 0, "SRX3058281", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.97113, null, 0.00052, null, 0.96842, null, 0.44542, null, 77, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43042, "SRR5892657", "SRX3058280", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchE 2", "74", "74", "embryo post 8 32hpf solvent control exposurereplication 2 in fifth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch5-2.gz", "fastq", 216569450.0, 2036565.0, "DMSO batchE 2.gz", "0:106.34", "A:51035409;C:56995676;G:56813634;T:51724731;N:0", 106, null, null, null, 51035409, 56995676, 56813634, 51724731, 0, "SRX3058280", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.94948, null, 0.0003, null, 0.96796, null, 0.45419, null, 90, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43043, "SRR5892658", "SRX3058279", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchF 2", "77", "77", "embryo post 8 32hpf solvent control exposurereplication 2 in sixth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch6-2.gz", "fastq", 60571052.0, 576600.0, "DMSO batchF 2.gz", "0:105.05", "A:14291716;C:16022096;G:15996802;T:14260438;N:0", 105, null, null, null, 14291716, 16022096, 15996802, 14260438, 0, "SRX3058279", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96382, null, 0.00025, null, 0.97066, null, 0.47343, null, 98, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43044, "SRR5892659", "SRX3058278", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchF 3", "78", "78", "embryo post 8 32hpf solvent control exposurereplication 3 in sixth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch6-3.gz", "fastq", 62914420.0, 598585.0, "DMSO batchF 3.gz", "0:105.11", "A:14828390;C:16725889;G:16466687;T:14893454;N:0", 105, null, null, null, 14828390, 16725889, 16466687, 14893454, 0, "SRX3058278", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.96741, null, 0.00059, null, 0.96688, null, 0.46367, null, 89, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [43045, "SRR5892660", "SRX3058277", "SRS2404189", "SRP114766", "PRJNA396480", "Danio rerio Raw sequence reads", "PRJNA396480", "Other", "A Reduced Zebrafish Transcriptome Method to Assess Environmental Toxicants Using Embryo Test", null, null, null, null, "DMSO", null, "breed:TU|isolation source:lab|collection date:2016 11 07|geo loc name:China|tissue:embryos|age:32hpf|identified by:DMSO 1 batchA|BioSampleModel:Invertebrate", null, null, null, null, null, null, null, null, "DMSO batchD 3", "72", "72", "embryo post 8 32hpf solvent control exposurereplication 3 in forth batch", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP114766", null, null, "DMSO-batch4-3.gz", "fastq", 108350894.0, 993395.0, "DMSO batchD 3.gz", "0:109.07", "A:25455150;C:28656068;G:28399753;T:25839923;N:0", 109, null, null, null, 25455150, 28656068, 28399753, 25839923, 0, "SRX3058277", "SRS2404189", "SRA595054", "Zebrafish embryo|School of the environment", "Zebrafish embryo", 1, 0.93055, null, 0.00029, null, 0.97041, null, 0.44294, null, 99, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2017-08-03", "Pharyngula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48726, "SRR7789580", "SRX4644423", "SRS3742493", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 12hpf 3 S18", null, "strain:5D|isolate:108|dev stage:12 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 12hpf 3 S18", "TDCIPP 12hpf 3 S18", "TDCIPP 12hpf 3 S18", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-12hpf-3_S18_L001_R2_001.fastq.gz TDCIPP-12hpf-3_S18_L001_R1_001.fastq.gz", "fastq fastq", 103340472.0, 472844.0, "TDCIPP 12hpf 3 S18 L001 R1 001.fastq.gz", "0:109.23 1:109.32", "A:26737838;C:24795090;G:24934613;T:26529096;N:343835", 109, 109, null, null, 26737838, 24795090, 24934613, 26529096, 343835, "SRX4644423", "SRS3742493", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.95154, 0.95221, 0.00019, 0.00019, 0.99922, 0.99924, 0.41074, 0.41244, 121, 121, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Segmentation", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48727, "SRR7789581", "SRX4644422", "SRS3742492", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 12hpf 2 S17", null, "strain:5D|isolate:107|dev stage:12 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 12hpf 2 S17", "TDCIPP 12hpf 2 S17", "TDCIPP 12hpf 2 S17", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-12hpf-2_S17_L001_R1_001.fastq.gz TDCIPP-12hpf-2_S17_L001_R2_001.fastq.gz", "fastq fastq", 127382315.0, 575073.0, "TDCIPP 12hpf 2 S17 L001 R1 001.fastq.gz", "0:110.70 1:110.81", "A:32604644;C:30882861;G:31076792;T:32385804;N:432214", 110, 110, null, null, 32604644, 30882861, 31076792, 32385804, 432214, "SRX4644422", "SRS3742492", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.94383, 0.94386, 0.00021, 0.00022, 0.99926, 0.99926, 0.41023, 0.38711, 151, 151, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Segmentation", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48728, "SRR7789582", "SRX4644421", "SRS3742490", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 12hpf 1 S16", null, "strain:5D|isolate:106|dev stage:12 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 12hpf 1 S16", "TDCIPP 12hpf 1 S16", "TDCIPP 12hpf 1 S16", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-12hpf-1_S16_L001_R1_001.fastq.gz TDCIPP-12hpf-1_S16_L001_R2_001.fastq.gz", "fastq fastq", 106771425.0, 482515.0, "TDCIPP 12hpf 1 S16 L001 R1 001.fastq.gz", "0:110.59 1:110.69", "A:27853264;C:25384933;G:25518809;T:27629968;N:384451", 110, 110, null, null, 27853264, 25384933, 25518809, 27629968, 384451, "SRX4644421", "SRS3742490", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.95913, 0.95873, 0.00021, 0.00025, 0.99928, 0.99928, 0.4122, 0.39928, 79, 79, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Segmentation", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48729, "SRR7789583", "SRX4644420", "SRS3742491", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 12hpf 3 S9x", null, "strain:5D|isolate:105|dev stage:12 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 12hpf 3 S9x", "DMSO 12hpf 3 S9x", "DMSO 12hpf 3 S9x", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-12hpf-3_S9x_L001_R2_001.fastq.gz DMSO-12hpf-3_S9x_L001_R1_001.fastq.gz", "fastq fastq", 106526213.0, 483892.0, "DMSO 12hpf 3 S9x L001 R2 001.fastq.gz", "0:110.00 1:110.14", "A:27523846;C:25609135;G:25786277;T:27228622;N:378333", 110, 110, null, null, 27523846, 25609135, 25786277, 27228622, 378333, "SRX4644420", "SRS3742491", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.95736, 0.95668, 0.00013, 0.00011, 0.99924, 0.99926, 0.45348, 0.45617, 77, 77, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Segmentation", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48730, "SRR7789584", "SRX4644419", "SRS3742489", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 12hpf 2 S8", null, "strain:5D|isolate:104|dev stage:12 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 12hpf 2 S8", "DMSO 12hpf 2 S8", "DMSO 12hpf 2 S8", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-12hpf-2_S8_L001_R1_001.fastq.gz DMSO-12hpf-2_S8_L001_R2_001.fastq.gz", "fastq fastq", 126754105.0, 599652.0, "DMSO 12hpf 2 S8 L001 R1 001.fastq.gz", "0:105.62 1:105.76", "A:32875248;C:30352965;G:30543115;T:32575671;N:407106", 105, 105, null, null, 32875248, 30352965, 30543115, 32575671, 407106, "SRX4644419", "SRS3742489", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.9631, 0.96229, 0.00019, 0.00019, 0.99928, 0.99928, 0.45939, 0.44598, 92, 92, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Segmentation", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48731, "SRR7789585", "SRX4644418", "SRS3742488", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 12hpf 1 S7", null, "strain:5D|isolate:103|dev stage:12 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 12hpf 1 S7", "DMSO 12hpf 1 S7", "DMSO 12hpf 1 S7", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-12hpf-1_S7_L001_R2_001.fastq.gz DMSO-12hpf-1_S7_L001_R1_001.fastq.gz", "fastq fastq", 133973234.0, 626692.0, "DMSO 12hpf 1 S7 L001 R1 001.fastq.gz", "0:106.86 1:106.92", "A:34741794;C:32048895;G:32233963;T:34368689;N:579893", 106, 106, null, null, 34741794, 32048895, 32233963, 34368689, 579893, "SRX4644418", "SRS3742488", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.961, 0.9606, 0.0002, 0.00021, 0.99928, 0.99928, 0.47357, 0.45763, 74, 74, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Segmentation", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48732, "SRR7789586", "SRX4644417", "SRS3742487", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 6hpf 5 S15", null, "strain:5D|isolate:102|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 6hpf 5 S15", "TDCIPP 6hpf 5 S15", "TDCIPP 6hpf 5 S15", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-6hpf-5_S15_L001_R1_001.fastq.gz TDCIPP-6hpf-5_S15_L001_R2_001.fastq.gz", "fastq fastq", 103436592.0, 515633.0, "TDCIPP 6hpf 5 S15 L001 R2 001.fastq.gz", "0:100.23 1:100.37", "A:26213221;C:25393681;G:25395332;T:25877353;N:557005", 100, 100, null, null, 26213221, 25393681, 25395332, 25877353, 557005, "SRX4644417", "SRS3742487", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.9545, 0.9544, 0.00043, 0.0004, 0.99898, 0.99904, 0.33908, 0.3596, 64, 151, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Gastrula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48733, "SRR7789587", "SRX4644416", "SRS3742486", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 6hpf 3 S14", null, "strain:5D|isolate:101|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 6hpf 3 S14", "TDCIPP 6hpf 3 S14", "TDCIPP 6hpf 3 S14", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-6hpf-3_S14_L001_R1_001.fastq.gz TDCIPP-6hpf-3_S14_L001_R2_001.fastq.gz", "fastq fastq", 99767681.0, 500238.0, "TDCIPP 6hpf 3 S14 L001 R2 001.fastq.gz", "0:99.64 1:99.80", "A:25255312;C:24464400;G:24481390;T:25002218;N:564361", 99, 99, null, null, 25255312, 24464400, 24481390, 25002218, 564361, "SRX4644416", "SRS3742486", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.96117, 0.96052, 0.00028, 0.00028, 0.99924, 0.99922, 0.35418, 0.35375, 148, 149, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Gastrula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48752, "SRR7789606", "SRX4644397", "SRS3742467", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 6hpf 5 S6", null, "strain:5D|isolate:99|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 6hpf 5 S6", "DMSO 6hpf 5 S6", "DMSO 6hpf 5 S6", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-6hpf-5_S6_L001_R1_001.fastq.gz DMSO-6hpf-5_S6_L001_R2_001.fastq.gz", "fastq fastq", 107736291.0, 525615.0, "DMSO 6hpf 5 S6 L001 R2 001.fastq.gz", "0:102.38 1:102.59", "A:27251903;C:26520518;G:26567935;T:26878661;N:517274", 102, 102, null, null, 27251903, 26520518, 26567935, 26878661, 517274, "SRX4644397", "SRS3742467", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.96019, 0.95982, 0.00045, 0.00043, 0.99918, 0.99916, 0.37174, 0.3343, 151, 148, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Gastrula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48753, "SRR7789607", "SRX4644396", "SRS3742466", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 6hpf 1 S13", null, "strain:5D|isolate:100|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 6hpf 1 S13", "TDCIPP 6hpf 1 S13", "TDCIPP 6hpf 1 S13", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-6hpf-1_S13_L001_R2_001.fastq.gz TDCIPP-6hpf-1_S13_L001_R1_001.fastq.gz", "fastq fastq", 91271391.0, 448917.0, "TDCIPP 6hpf 1 S13 L001 R2 001.fastq.gz", "0:101.61 1:101.71", "A:23269221;C:22266290;G:22291849;T:22983659;N:460372", 101, 101, null, null, 23269221, 22266290, 22291849, 22983659, 460372, "SRX4644396", "SRS3742466", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.96069, 0.96135, 0.0005, 0.00051, 0.99916, 0.99916, 0.34621, 0.3774, 76, 76, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Gastrula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48754, "SRR7789608", "SRX4644395", "SRS3742465", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 3hpf 2 S1", null, "strain:5D|isolate:91|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 3hpf 2 S1", "DMSO 3hpf 2 S1", "DMSO 3hpf 2 S1", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-3hpf-2_S1_L001_R1_001.fastq.gz DMSO-3hpf-2_S1_L001_R2_001.fastq.gz", "fastq fastq", 143035914.0, 673342.0, "DMSO 3hpf 2 S1 L001 R2 001.fastq.gz", "0:106.19 1:106.24", "A:37104542;C:34199194;G:34286529;T:36802368;N:643281", 106, 106, null, null, 37104542, 34199194, 34286529, 36802368, 643281, "SRX4644395", "SRS3742465", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.97329, 0.97288, 0.00018, 0.00017, 0.99931, 0.99931, 0.41042, 0.4514, 39, 39, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Blastula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48755, "SRR7789609", "SRX4644394", "SRS3742464", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 3hpf 3 S2", null, "strain:5D|isolate:92|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 3hpf 3 S2", "DMSO 3hpf 3 S2", "DMSO 3hpf 3 S2", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-3hpf-3_S2_L001_R2_001.fastq.gz DMSO-3hpf-3_S2_L001_R1_001.fastq.gz", "fastq fastq", 121995763.0, 560778.0, "DMSO 3hpf 3 S2 L001 R2 001.fastq.gz", "0:108.73 1:108.82", "A:31569811;C:29316325;G:29402755;T:31346545;N:360327", 108, 108, null, null, 31569811, 29316325, 29402755, 31346545, 360327, "SRX4644394", "SRS3742464", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.96945, 0.96871, 0.00029, 0.00031, 0.99924, 0.99924, 0.3498, 0.37356, 134, 134, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Blastula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48756, "SRR7789610", "SRX4644393", "SRS3742463", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 3hpf 4 S3", null, "strain:5D|isolate:93|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 3hpf 4 S3", "DMSO 3hpf 4 S3", "DMSO 3hpf 4 S3", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-3hpf-4_S3_L001_R1_001.fastq.gz DMSO-3hpf-4_S3_L001_R2_001.fastq.gz", "fastq fastq", 131169421.0, 625415.0, "DMSO 3hpf 4 S3 L001 R2 001.fastq.gz", "0:104.81 1:104.92", "A:33973430;C:31403379;G:31490054;T:33651313;N:651245", 104, 104, null, null, 33973430, 31403379, 31490054, 33651313, 651245, "SRX4644393", "SRS3742463", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.98214, 0.98232, 0.00039, 0.00042, 0.99931, 0.99928, 0.43853, 0.43838, 94, 94, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Blastula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48757, "SRR7789611", "SRX4644392", "SRS3742462", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 3hpf 1 S10", null, "strain:5D|isolate:94|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 3hpf 1 S10", "TDCIPP 3hpf 1 S10", "TDCIPP 3hpf 1 S10", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-3hpf-1_S10_L001_R2_001.fastq.gz TDCIPP-3hpf-1_S10_L001_R1_001.fastq.gz", "fastq fastq", 142472001.0, 675614.0, "TDCIPP 3hpf 1 S10 L001 R2 001.fastq.gz", "0:105.40 1:105.48", "A:37237954;C:33780885;G:33866153;T:36894511;N:692498", 105, 105, null, null, 37237954, 33780885, 33866153, 36894511, 692498, "SRX4644392", "SRS3742462", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.98448, 0.98456, 3e-05, 5e-05, 0.99928, 0.99926, 0.44535, 0.45235, 89, 89, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Blastula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48758, "SRR7789612", "SRX4644391", "SRS3742461", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 3hpf 2 S11", null, "strain:5D|isolate:95|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 3hpf 2 S11", "TDCIPP 3hpf 2 S11", "TDCIPP 3hpf 2 S11", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-3hpf-2_S11_L001_R1_001.fastq.gz TDCIPP-3hpf-2_S11_L001_R2_001.fastq.gz", "fastq fastq", 135473127.0, 649900.0, "TDCIPP 3hpf 2 S11 L001 R2 001.fastq.gz", "0:104.20 1:104.25", "A:35005838;C:32424512;G:32538931;T:34827379;N:676467", 104, 104, null, null, 35005838, 32424512, 32538931, 34827379, 676467, "SRX4644391", "SRS3742461", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.98266, 0.98245, 0.0, 0.0, 0.99933, 0.99933, 0.49436, 0.49577, 59, 59, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Blastula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48759, "SRR7789613", "SRX4644390", "SRS3742460", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "TDCIPP 3hpf 4 S12", null, "strain:5D|isolate:96|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "TDCIPP 3hpf 4 S12", "TDCIPP 3hpf 4 S12", "TDCIPP 3hpf 4 S12", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "TDCIPP-3hpf-4_S12_L001_R1_001.fastq.gz TDCIPP-3hpf-4_S12_L001_R2_001.fastq.gz", "fastq fastq", 126387362.0, 600422.0, "TDCIPP 3hpf 4 S12 L001 R1 001.fastq.gz", "0:105.21 1:105.28", "A:32731869;C:30187130;G:30351165;T:32470755;N:646443", 105, 105, null, null, 32731869, 30187130, 30351165, 32470755, 646443, "SRX4644390", "SRS3742460", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.97915, 0.97875, 0.00012, 0.00011, 0.99933, 0.99933, 0.44431, 0.44577, 117, 117, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Blastula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48760, "SRR7789614", "SRX4644389", "SRS3742459", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 6hpf 1 S4", null, "strain:5D|isolate:97|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 6hpf 1 S4", "DMSO 6hpf 1 S4", "DMSO 6hpf 1 S4", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-6hpf-1_S4_L001_R2_001.fastq.gz DMSO-6hpf-1_S4_L001_R1_001.fastq.gz", "fastq fastq", 95806388.0, 464892.0, "DMSO 6hpf 1 S4 L001 R2 001.fastq.gz", "0:103.02 1:103.07", "A:24562000;C:23294432;G:23307788;T:24218011;N:424157", 103, 103, null, null, 24562000, 23294432, 23307788, 24218011, 424157, "SRX4644389", "SRS3742459", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.95656, 0.95712, 0.0004, 0.00039, 0.99918, 0.99916, 0.34071, 0.34145, 94, 151, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Gastrula", "Embryo", "Embryo Imprecise", "All anatomical structures"], [48761, "SRR7789615", "SRX4644388", "SRS3742458", "SRP159670", "PRJNA475635", "Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis", "PRJNA475635", "Other", "The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.", null, null, null, null, "DMSO 6hpf 3 S5", null, "strain:5D|isolate:98|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "DMSO 6hpf 3 S5", "DMSO 6hpf 3 S5", "DMSO 6hpf 3 S5", "Nextera XT DNA Library Prep kit", null, null, "AMPLICON", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina MiniSeq", null, "SRP159670", null, null, "DMSO-6hpf-3_S5_L001_R1_001.fastq.gz DMSO-6hpf-3_S5_L001_R2_001.fastq.gz", "fastq fastq", 105210098.0, 508250.0, "DMSO 6hpf 3 S5 L001 R1 001.fastq.gz", "0:103.44 1:103.57", "A:26828273;C:25677269;G:25721655;T:26524232;N:458669", 103, 103, null, null, 26828273, 25677269, 25721655, 26524232, 458669, "SRX4644388", "SRS3742458", "SRA767209", "University of California, Riverside|Environmental Sciences", "University of California, Riverside", 2, 0.95583, 0.95513, 0.00047, 0.00045, 0.99916, 0.99918, 0.30844, 0.29023, 42, 42, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "random_priming", "nextera", "bulk", "unknown", "unknown", null, "United States", "2018-09-05", "Gastrula", "Embryo", "Embryo Imprecise", "All anatomical structures"]], "truncated": false, "filtered_table_rows_count": 221, "expanded_columns": [], "expandable_columns": [], "columns": ["rowid", "run.accession", "experiment.accession", "sample.accession", "study.accession", "bioproject", "study.title", "study.alias", "study.type", "study.abstract", "study.attributes", "study.PMIDs", "sample.description", "sample.title", "sample.alias", "sample.centername", "sample.attributes", "GEOsample.title", "GEOsample.dataprocessing", "GEOsample.source", "GEOsample.treatmentprotocol", "GEOsample.extractprotocol", "GEOsample.growthprotocol", "GEOsample.characteristics", "GEOsample.accession", "experiment.title", "experiment.alias", "experiment.library_name", "experiment.design_description", "experiment.library_construction_protocol", "experiment.attributes", "experiment.library_strategy", "experiment.library_source", "experiment.library_selection", "experiment.library_layout", "experiment.platform", "experiment.instrument_model", "experiment.spot_descriptor", "experiment.study_ref", "run.title", "run.attributes", "run.filename", "run.semantic_name", "run.total_bases", "run.total_spots", "run.alias", "run.read_lengths", "run.base_counts", "run.r1_length", "run.r2_length", "run.r3_length", "run.r4_length", "run.Acount", "run.Ccount", "run.Gcount", "run.Tcount", "run.Ncount", "run.experiment", "run.pool_member", "submission.accession", "submission.srasource", "submission.bioprojectsource", "seqdetective.n_mates", "seqdetective.mapping_rate.mate1", "seqdetective.mapping_rate.mate2", "seqdetective.nofeature_rate.mate1", "seqdetective.nofeature_rate.mate2", "seqdetective.sparsity.mate1", "seqdetective.sparsity.mate2", "seqdetective.pos_strand_rate.mate1", "seqdetective.pos_strand_rate.mate2", "seqdetective.readlen.mate1", "seqdetective.readlen.mate2", "seqdetective.judgement.mate1", "seqdetective.judgement.mate2", "seqdetective.judgement.reason", "platform_family", "instrument_generation", "read_bias", "selection_class", "prep_kit", "sc_or_bulk", "tech_class", "technology", "tech_variant", "submission.bioprojectsource.country", "earliest_date", "devstage_curation", "devstage_curation_coarse", "tissue_curation", "tissue_curation_coarse"], "primary_keys": [], "units": {}, "query": {"sql": "select rowid, [run.accession], [experiment.accession], [sample.accession], [study.accession], bioproject, [study.title], [study.alias], [study.type], [study.abstract], [study.attributes], [study.PMIDs], [sample.description], [sample.title], [sample.alias], [sample.centername], [sample.attributes], [GEOsample.title], [GEOsample.dataprocessing], [GEOsample.source], [GEOsample.treatmentprotocol], [GEOsample.extractprotocol], [GEOsample.growthprotocol], [GEOsample.characteristics], [GEOsample.accession], [experiment.title], [experiment.alias], [experiment.library_name], [experiment.design_description], [experiment.library_construction_protocol], [experiment.attributes], [experiment.library_strategy], [experiment.library_source], [experiment.library_selection], [experiment.library_layout], [experiment.platform], [experiment.instrument_model], [experiment.spot_descriptor], [experiment.study_ref], [run.title], [run.attributes], [run.filename], [run.semantic_name], [run.total_bases], [run.total_spots], [run.alias], [run.read_lengths], [run.base_counts], [run.r1_length], [run.r2_length], [run.r3_length], [run.r4_length], [run.Acount], [run.Ccount], [run.Gcount], [run.Tcount], [run.Ncount], [run.experiment], [run.pool_member], [submission.accession], [submission.srasource], [submission.bioprojectsource], [seqdetective.n_mates], [seqdetective.mapping_rate.mate1], [seqdetective.mapping_rate.mate2], [seqdetective.nofeature_rate.mate1], [seqdetective.nofeature_rate.mate2], [seqdetective.sparsity.mate1], [seqdetective.sparsity.mate2], [seqdetective.pos_strand_rate.mate1], [seqdetective.pos_strand_rate.mate2], [seqdetective.readlen.mate1], [seqdetective.readlen.mate2], [seqdetective.judgement.mate1], [seqdetective.judgement.mate2], [seqdetective.judgement.reason], platform_family, instrument_generation, read_bias, selection_class, prep_kit, sc_or_bulk, tech_class, technology, tech_variant, [submission.bioprojectsource.country], earliest_date, devstage_curation, devstage_curation_coarse, tissue_curation, tissue_curation_coarse from run_metadata where \"devstage_curation_coarse\" = :p0 and \"experiment.library_strategy\" = :p1 order by rowid limit 101", "params": {"p0": "Embryo", "p1": "AMPLICON"}}, "facet_results": {"experiment.library_strategy": {"name": "experiment.library_strategy", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "AMPLICON", "label": "AMPLICON", "count": 221, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo", "selected": true}], "truncated": false}, "experiment.library_source": {"name": "experiment.library_source", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "TRANSCRIPTOMIC", "label": "TRANSCRIPTOMIC", "count": 217, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.library_source=TRANSCRIPTOMIC", "selected": false}, {"value": "TRANSCRIPTOMIC SINGLE CELL", "label": "TRANSCRIPTOMIC SINGLE CELL", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.library_source=TRANSCRIPTOMIC+SINGLE+CELL", "selected": false}], "truncated": false}, "experiment.library_selection": {"name": "experiment.library_selection", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "PCR", "label": "PCR", "count": 217, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.library_selection=PCR", "selected": false}, {"value": "size fractionation", "label": "size fractionation", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.library_selection=size+fractionation", "selected": false}], "truncated": false}, "experiment.library_layout": {"name": "experiment.library_layout", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "SINGLE", "label": "SINGLE", "count": 199, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.library_layout=SINGLE", "selected": false}, {"value": "PAIRED", "label": "PAIRED", "count": 22, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.library_layout=PAIRED", "selected": false}], "truncated": false}, "experiment.platform": {"name": "experiment.platform", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "ION_TORRENT", "label": "ION_TORRENT", "count": 199, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.platform=ION_TORRENT", "selected": false}, {"value": "ILLUMINA", "label": "ILLUMINA", "count": 22, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&experiment.platform=ILLUMINA", "selected": false}], "truncated": false}, "devstage_curation_coarse": {"name": "devstage_curation_coarse", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "Embryo", "label": "Embryo", "count": 221, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_strategy=AMPLICON", "selected": true}], "truncated": false}, "devstage_curation": {"name": "devstage_curation", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "Pharyngula", "label": "Pharyngula", "count": 199, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&devstage_curation=Pharyngula", "selected": false}, {"value": "Blastula", "label": "Blastula", "count": 6, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&devstage_curation=Blastula", "selected": false}, {"value": "Gastrula", "label": "Gastrula", "count": 6, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&devstage_curation=Gastrula", "selected": false}, {"value": "Segmentation", "label": "Segmentation", "count": 6, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&devstage_curation=Segmentation", "selected": false}, {"value": "Multi-stage", "label": "Multi-stage", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&devstage_curation=Multi-stage", "selected": false}], "truncated": false}, "tissue_curation_coarse": {"name": "tissue_curation_coarse", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "All anatomical structures", "label": "All anatomical structures", "count": 221, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&tissue_curation_coarse=All+anatomical+structures", "selected": false}], "truncated": false}, "tissue_curation": {"name": "tissue_curation", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "Embryo Imprecise", "label": "Embryo Imprecise", "count": 217, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&tissue_curation=Embryo+Imprecise", "selected": false}, {"value": "Whole Organism", "label": "Whole Organism", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&tissue_curation=Whole+Organism", "selected": false}], "truncated": false}, "technology": {"name": "technology", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON", "results": [{"value": "unknown", "label": "unknown", "count": 217, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&technology=unknown", "selected": false}, {"value": "10x", "label": "10x", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&technology=10x", "selected": false}], "truncated": false}}, "suggested_facets": [], "next": "48761", "next_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?devstage_curation_coarse=Embryo&experiment.library_strategy=AMPLICON&_next=48761", "private": false, "allow_execute_sql": true, "query_ms": 101.52078300598077}