{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_layout = \"SINGLE\", experiment.library_selection = \"PCR\" and tissue_curation_coarse = \"Liver and Biliary System\"", "rows": [[28496, "SRR26321412", "SRX22029502", "SRS19102283", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "3dpci 1", "R27", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 3 dpci", "R27", "R27", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R27.fastq", "fastq", 23400.0, 312.0, "R27.fastq", "0:75", "A:7949;C:4612;G:4730;T:6100;N:9", 75, null, null, null, 7949, 4612, 4730, 6100, 9, "SRX22029502", "SRS19102283", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.89642, null, 0.06772, null, 0.99827, null, 0.75, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28497, "SRR26321413", "SRX22029501", "SRS19102284", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "1dpci 4", "R22", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 1 dpci", "R22", "R22", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R22.fastq", "fastq", 23400.0, 312.0, "R22.fastq", "0:75", "A:7470;C:4460;G:5063;T:6404;N:3", 75, null, null, null, 7470, 4460, 5063, 6404, 3, "SRX22029501", "SRS19102284", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.87073, null, 0.12167, null, 0.99801, null, 0.73157, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28498, "SRR26321414", "SRX22029500", "SRS19102281", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "R21", "R21", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 1 dpci", "R21", "R21", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R21.fastq", "fastq", 23400.0, 312.0, "R21.fastq", "0:75", "A:7540;C:4349;G:4857;T:6646;N:8", 75, null, null, null, 7540, 4349, 4857, 6646, 8, "SRX22029500", "SRS19102281", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.8839, null, 0.04494, null, 0.99768, null, 0.72769, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28499, "SRR26321415", "SRX22029499", "SRS19102282", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "1dpci 2", "R18", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 1 dpci", "R18", "R18", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R18.fastq", "fastq", 23400.0, 312.0, "R18.fastq", "0:75", "A:7380;C:4430;G:5069;T:6518;N:3", 75, null, null, null, 7380, 4430, 5069, 6518, 3, "SRX22029499", "SRS19102282", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.87259, null, 0.11196, null, 0.99784, null, 0.69791, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28500, "SRR26321416", "SRX22029498", "SRS19102280", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "1dpci 1", "R17", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 1 dpci", "R17", "R17", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R17.fastq", "fastq", 23400.0, 312.0, "R17.fastq", "0:75", "A:7322;C:4455;G:5111;T:6507;N:5", 75, null, null, null, 7322, 4455, 5111, 6507, 5, "SRX22029498", "SRS19102280", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.90439, null, 0.12749, null, 0.99813, null, 0.71052, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28501, "SRR26321417", "SRX22029497", "SRS19102279", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "SHAM 5", "R1", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver sham", "R1", "R1", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R1.fastq", "fastq", 23400.0, 312.0, "R1.fastq", "0:75", "A:7934;C:4560;G:4922;T:5980;N:4", 75, null, null, null, 7934, 4560, 4922, 5980, 4, "SRX22029497", "SRS19102279", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.87045, null, 0.10526, null, 0.99805, null, 0.71978, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28502, "SRR26321418", "SRX22029496", "SRS19102277", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "SHAM 4", "R64", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver sham", "R64", "R64", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R64.fastq", "fastq", 23400.0, 312.0, "R64.fastq", "0:75", "A:7844;C:4626;G:4804;T:6126;N:0", 75, null, null, null, 7844, 4626, 4804, 6126, 0, "SRX22029496", "SRS19102277", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.90119, null, 0.07509, null, 0.99839, null, 0.8, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28503, "SRR26321419", "SRX22029495", "SRS19102278", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "SHAM 3", "R61", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver sham", "R61", "R61", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R61.fastq", "fastq", 23400.0, 312.0, "R61.fastq", "0:75", "A:7454;C:4556;G:4960;T:6425;N:5", 75, null, null, null, 7454, 4556, 4960, 6425, 5, "SRX22029495", "SRS19102278", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.89098, null, 0.06015, null, 0.99813, null, 0.77102, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28504, "SRR26321420", "SRX22029494", "SRS19102276", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "7dpci 4", "30", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 7 dpci", "30", "30", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "30.fastq", "fastq", 23400.0, 312.0, "30.fastq", "0:75", "A:7732;C:4528;G:5150;T:5987;N:3", 75, null, null, null, 7732, 4528, 5150, 5987, 3, "SRX22029494", "SRS19102276", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.88447, null, 0.13147, null, 0.99772, null, 0.71584, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28505, "SRR26321421", "SRX22029493", "SRS19102275", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "R11", "R11", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 7 dpci", "R11", "R11", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R11.fastq", "fastq", 23400.0, 312.0, "R11.fastq", "0:75", "A:7818;C:4507;G:5107;T:5956;N:12", 75, null, null, null, 7818, 4507, 5107, 5956, 12, "SRX22029493", "SRS19102275", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.89345, null, 0.11475, null, 0.99847, null, 0.82258, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28506, "SRR26321422", "SRX22029492", "SRS19102274", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "7dpci 2", "31", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 7 dpci", "31", "31", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "31.fastq", "fastq", 23400.0, 312.0, "31.fastq", "0:75", "A:7470;C:4619;G:4802;T:6504;N:5", 75, null, null, null, 7470, 4619, 4802, 6504, 5, "SRX22029492", "SRS19102274", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.87699, null, 0.11111, null, 0.99829, null, 0.78918, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28507, "SRR26321423", "SRX22029491", "SRS19102273", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "7dpci 1", "R9", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 7 dpci", "R9", "R9", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R9.fastq", "fastq", 23400.0, 312.0, "R9.fastq", "0:75", "A:8130;C:4537;G:4809;T:5917;N:7", 75, null, null, null, 8130, 4537, 4809, 5917, 7, "SRX22029491", "SRS19102273", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.83588, null, 0.05725, null, 0.99801, null, 0.68586, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28508, "SRR26321424", "SRX22029490", "SRS19102272", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "3dpci 4", "R33", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 3 dpci", "R33", "R33", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R33.fastq", "fastq", 23400.0, 312.0, "R33.fastq", "0:75", "A:7745;C:4421;G:4867;T:6360;N:7", 75, null, null, null, 7745, 4421, 4867, 6360, 7, "SRX22029490", "SRS19102272", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.87259, null, 0.07335, null, 0.99805, null, 0.71428, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28509, "SRR26321425", "SRX22029489", "SRS19102271", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "3dpci 3", "R31", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 3 dpci", "R31", "R31", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R31.fastq", "fastq", 23400.0, 312.0, "R31.fastq", "0:75", "A:7441;C:4483;G:5163;T:6313;N:0", 75, null, null, null, 7441, 4483, 5163, 6313, 0, "SRX22029489", "SRS19102271", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.9, null, 0.05925, null, 0.9977, null, 0.68325, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28510, "SRR26321426", "SRX22029488", "SRS19102270", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "3dpci 2", "R29", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver 3 dpci", "R29", "R29", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R29.fastq", "fastq", 23400.0, 312.0, "R29.fastq", "0:75", "A:7379;C:4698;G:5166;T:6156;N:1", 75, null, null, null, 7379, 4698, 5166, 6156, 1, "SRX22029488", "SRS19102270", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.91016, null, 0.05859, null, 0.99797, null, 0.74528, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28511, "SRR26321427", "SRX22029487", "SRS19102269", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, null, "SHAM 2", "R62", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver sham", "R62", "R62", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R62.fastq", "fastq", 23400.0, 312.0, "R62.fastq", "0:75", "A:7383;C:4566;G:4713;T:6728;N:10", 75, null, null, null, 7383, 4566, 4713, 6728, 10, "SRX22029487", "SRS19102269", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.91571, null, 0.05363, null, 0.99835, null, 0.77674, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [28512, "SRR26321428", "SRX22029486", "SRS19102268", "SRP465132", "PRJNA1025903", "Zebrafish cryoinjury regeneration Raw sequence reads", "PRJNA1025903", "Whole Genome Sequencing", "Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury", null, null, "Replicate 1 for SHAM", "SHAM 1", "R63", null, "strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia: Melbourne|sex:male|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish liver sham", "R63", "R63", "ham and injured livers at 1  3  and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition  3 adult zebrafish livers were pooled per tube  discriminating between the injured border and liver tissue from other lobes. Finally  3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice  with a plastic pestle  to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit  Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500  with paired end 75bp reads to a depth of 15M reads per sample.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP465132", null, null, "R63.fastq", "fastq", 23400.0, 312.0, "R63.fastq", "0:75", "A:7516;C:4606;G:4765;T:6508;N:5", 75, null, null, null, 7516, 4606, 4765, 6508, 5, "SRX22029486", "SRS19102268", "SRA1727674", "Peter MacCallum Cancer Centre|Organogenesis and Cancer", "Peter MacCallum Cancer Centre", 1, 0.90385, null, 0.0423, null, 0.99805, null, 0.72429, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "random_priming", "unknown", "bulk", "bulk", "bulk", null, "Australia", "2023-10-11", "Adult", "Adult", "Liver", "Liver and Biliary System"], [38290, "SRR1731762", "SRX821156", "SRS800969", "SRP051449", "PRJNA266270", "Danio rerio Transcriptome or Gene expression", "PRJNA266270", "Other", "To identify molecular signals that initiate liver regeneration post 1/3 PH", null, null, null, null, "Transcriptome during early stage of liver regeneration post 1/3 PH", null, "breed:AB line|age:10 month|biomaterial provider:The Key Laboratory of Aquatic Biodiversity and Conservation|sex:female|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Transcriptomic characterization of zebrafish liver regeneration post 1/3 partial hepatectomy", "D.rereios liver regeneration sequencing project", "1", "1", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>72</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP051449", null, null, "6h_run1_R1.fastq.gz 6h_run1_R2.fastq.gz", "fastq fastq", 2014108128.0, 13986862.0, "6h", "0:72 1:72", 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"breed:AB line|strain:AB line|age:10 month|biomaterial provider:The Key Laboratory of Aquatic Biodiversity and Conservation|sex:female|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Transcriptomic characterization of zebrafish liver regeneration post 1/9 partial hepatectomy", "D.rerios liver regeneration post 1/9 PH sequencing project", "1", "1", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>72</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP051556", null, null, "24h3_R1.fastq.gz 24h3_R2.fastq.gz", "fastq fastq", 1569651120.0, 10900355.0, "24h3", "0:72 1:72", "A:423126744;C:367185056;G:396200408;T:381254240;N:1884672", 72, 72, null, null, 423126744, 367185056, 396200408, 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We orally administrated GD to diet induced zebrafish fish and performed RNA seq using the liver of zebrafish with or without xxx treatment.", null, null, null, "Zebrafish liver from AB strain", "GD DIO Zebrafish", null, "strain:AB|age:3 month|sex:female|tissue:liver|disease:Obesity|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rerio: adult female liver", "DIO GD 4", "DIO GD 4", "DIO with GD treatment", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "SINGLE", "ION_TORRENT", "Ion Torrent Proton", null, "SRP301838", null, null, "DIO_GD-4", "fastq", 4457846127.0, 35434325.0, "DIO GD 4", "0:125.81", "A:1132283216;C:1070720177;G:1157322546;T:1097520188;N:0", 125, null, null, null, 1132283216, 1070720177, 1157322546, 1097520188, 0, "SRX9853978", "SRS8035408", "SRA1184195", "Mie University|Graduate School of Regional Innovation Studies", "Mie University", 1, 0.61358, null, 0.13617, null, 0.87896, null, 0.27516, null, 178, null, "B", null, "usable mapping rate", "ion_torrent", "ion_torrent", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Japan", "2021-01-14", "Adult", "Adult", "Liver", "Liver and Biliary System"], [62855, "SRR13440557", "SRX9853977", "SRS8035408", "SRP301838", "PRJNA691414", "Transcriptomic analysis of GD treated zebrafish liver", "PRJNA691414", "Other", "Globin digest is a bioactive oligopeptide derived from porcine hemoglobin proteins. 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