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 29165,SRR27180613,SRX22861017,SRS19836056,SRP477408,PRJNA1051145,laser captured chondrocyte transcriptomes from cranial base,GSE249932,Transcriptome Analysis,similar methods as in Gomez Picos et al. 2022 and Nguyen et al. 2023 Overall design: mRNA profiles of wild type Danio rerio chondrocytes,,pubmed:38117077,,Z6 WT,GSM7967333,,source name:laser captured cartilage without xxx from cranial base in occipital region|tissue:cartilage|age:6dpf|genotype:wild type|geo loc name:missing|collection date:missing,Z6 WT,The paired end Illumina reads were trimmed using Trimmomatic v0.36 Bolger et al. 2014. Mapped to the Danio rerio Zv9 fom Ensembl. TMM normalization Robinson and Oshlack 2010 was performed using edgeR. Cutoff of genes considered expressed was determined by calculationg the minimum value of the bimodal distribution of counts. Assembly: Danio rerio Ensembl Zv9 Supplementary files format and content: Comma delimited text file includes counts for wildtype samples,laser captured cartilage without xxx from cranial base in occipital region,N/A,RNA was isolated using the ARCTURUS PicoPure RNA Isolation Kit ThermoFisher Scientific; Cat# KIT0204 according to the manufacturer’s instructions and DNase treatment was done using RNase Free DNase Qiagen; Cat#79254. RNA was amplified one round using MessageAmp II aRNA Kit ThermoFisher Scientific; Cat# AM1751. The RNA integrity was evaluated on the observation of a signature electropherogram pattern Bioanalyzer. A minimum of 5 10 ng of amplified RNA was used per sample for the construction of each library. RNA seq libraries were prepared by the National Research Council NRC Saskatoon using the Illumina TruSeq RNA Sample Prep Kit v2 with the following modification: the protocol was started at the Elute Prime Fragment step using5 µl amplified mRNA the minimum amount was 5 10 ng mRNA as determined using Quant iT RiboGreen RNA Assay Kit Invitrogen. The quality of each cDNA library was checked on a DNA 1000 chip using the 2100 Bioanalyzer Agilent Technologies Inc..,standard conditions EM filled dishes at 28.5C,tissue:cartilage|age:6dpf|genotype:wild type,GSM7967333,GSM7967333: Z6 WT; Danio rerio; RNA Seq,GSM7967333 r1,GSM7967333,1,RNA was isolated using the ARCTURUS PicoPure RNA Isolation Kit ThermoFisher Scientific; Cat# KIT0204 according to the manufacturer's instructions and DNase treatment was done using RNase Free DNase Qiagen; Cat#79254. RNA was amplified one round using MessageAmp II aRNA Kit ThermoFisher Scientific; Cat# AM1751. The RNA integrity was evaluated on the observation of a signature electropherogram pattern Bioanalyzer. A minimum of 5 10 ng of amplified RNA was used per sample for the construction of each library. RNA seq libraries were prepared by the National Research Council NRC Saskatoon using the Illumina TruSeq RNA Sample Prep Kit v2 with the following modification: the protocol was started at the Elute Prime Fragment step using5 µl amplified mRNA the minimum amount was 5 10 ng mRNA as determined using Quant iT RiboGreen RNA Assay Kit Invitrogen. The quality of each cDNA library was checked on a DNA 1000 chip using the 2100 Bioanalyzer Agilent Technologies Inc..,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP477408,,,Z6_R1.fastq.gz Z6_R2.fastq.gz,fastq fastq,7236720902.0,35825351.0,GSM7967333 r1,0:101 1:101,A:2065141509;C:1515489646;G:1508477450;T:2145425270;N:2187027,101,101,,,2065141509,1515489646,1508477450,2145425270,2187027,SRX22861017,SRS19836056,SRA1767043,"3B14 HSC, Anatomy and Cell Biology, University of Saskatchewan","3B14 HSC, Anatomy and Cell Biology, University of Saskatchewan",2,0.92486,0.92406,0.2589,0.2586,0.81836,0.81937,0.64846,0.64959,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,Canada,2023-12-11,Larval,Larval,Bone or Cartilage,Skeletal Element 29166,SRR27180614,SRX22861016,SRS19836057,SRP477408,PRJNA1051145,laser captured chondrocyte transcriptomes from cranial base,GSE249932,Transcriptome Analysis,similar methods as in Gomez Picos et al. 2022 and Nguyen et al. 2023 Overall design: mRNA profiles of wild type Danio rerio chondrocytes,,pubmed:38117077,,Z3 WT,GSM7967332,,source name:laser captured cartilage without xxx from cranial base in occipital region|tissue:cartilage|age:6dpf|genotype:wild type|geo loc name:missing|collection date:missing,Z3 WT,The paired end Illumina reads were trimmed using Trimmomatic v0.36 Bolger et al. 2014. Mapped to the Danio rerio Zv9 fom Ensembl. TMM normalization Robinson and Oshlack 2010 was performed using edgeR. Cutoff of genes considered expressed was determined by calculationg the minimum value of the bimodal distribution of counts. Assembly: Danio rerio Ensembl Zv9 Supplementary files format and content: Comma delimited text file includes counts for wildtype samples,laser captured cartilage without xxx from cranial base in occipital region,N/A,RNA was isolated using the ARCTURUS PicoPure RNA Isolation Kit ThermoFisher Scientific; Cat# KIT0204 according to the manufacturer’s instructions and DNase treatment was done using RNase Free DNase Qiagen; Cat#79254. RNA was amplified one round using MessageAmp II aRNA Kit ThermoFisher Scientific; Cat# AM1751. The RNA integrity was evaluated on the observation of a signature electropherogram pattern Bioanalyzer. A minimum of 5 10 ng of amplified RNA was used per sample for the construction of each library. RNA seq libraries were prepared by the National Research Council NRC Saskatoon using the Illumina TruSeq RNA Sample Prep Kit v2 with the following modification: the protocol was started at the Elute Prime Fragment step using5 µl amplified mRNA the minimum amount was 5 10 ng mRNA as determined using Quant iT RiboGreen RNA Assay Kit Invitrogen. The quality of each cDNA library was checked on a DNA 1000 chip using the 2100 Bioanalyzer Agilent Technologies Inc..,standard conditions EM filled dishes at 28.5C,tissue:cartilage|age:6dpf|genotype:wild type,GSM7967332,GSM7967332: Z3 WT; Danio rerio; RNA Seq,GSM7967332 r1,GSM7967332,1,RNA was isolated using the ARCTURUS PicoPure RNA Isolation Kit ThermoFisher Scientific; Cat# KIT0204 according to the manufacturer's instructions and DNase treatment was done using RNase Free DNase Qiagen; Cat#79254. RNA was amplified one round using MessageAmp II aRNA Kit ThermoFisher Scientific; Cat# AM1751. The RNA integrity was evaluated on the observation of a signature electropherogram pattern Bioanalyzer. A minimum of 5 10 ng of amplified RNA was used per sample for the construction of each library. RNA seq libraries were prepared by the National Research Council NRC Saskatoon using the Illumina TruSeq RNA Sample Prep Kit v2 with the following modification: the protocol was started at the Elute Prime Fragment step using5 µl amplified mRNA the minimum amount was 5 10 ng mRNA as determined using Quant iT RiboGreen RNA Assay Kit Invitrogen. The quality of each cDNA library was checked on a DNA 1000 chip using the 2100 Bioanalyzer Agilent Technologies Inc..,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP477408,,,Z3_R1.fastq.gz Z3_R2.fastq.gz,fastq fastq,8154876754.0,40370677.0,GSM7967332 r1,0:101 1:101,A:2326535807;C:1739502467;G:1727655779;T:2358724699;N:2458002,101,101,,,2326535807,1739502467,1727655779,2358724699,2458002,SRX22861016,SRS19836057,SRA1767043,"3B14 HSC, Anatomy and Cell Biology, University of Saskatchewan","3B14 HSC, Anatomy and Cell Biology, University of Saskatchewan",2,0.91893,0.92052,0.27086,0.27178,0.83489,0.83615,0.7337,0.73303,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,Canada,2023-12-11,Larval,Larval,Bone or Cartilage,Skeletal Element 29167,SRR27180615,SRX22861015,SRS19836055,SRP477408,PRJNA1051145,laser captured chondrocyte transcriptomes from cranial base,GSE249932,Transcriptome Analysis,similar methods as in Gomez Picos et al. 2022 and Nguyen et al. 2023 Overall design: mRNA profiles of wild type Danio rerio chondrocytes,,pubmed:38117077,,Z1 WT,GSM7967331,,source name:laser captured cartilage without xxx from cranial base in occipital region|tissue:cartilage|age:6dpf|genotype:wild type|geo loc name:missing|collection date:missing,Z1 WT,The paired end Illumina reads were trimmed using Trimmomatic v0.36 Bolger et al. 2014. Mapped to the Danio rerio Zv9 fom Ensembl. TMM normalization Robinson and Oshlack 2010 was performed using edgeR. Cutoff of genes considered expressed was determined by calculationg the minimum value of the bimodal distribution of counts. Assembly: Danio rerio Ensembl Zv9 Supplementary files format and content: Comma delimited text file includes counts for wildtype samples,laser captured cartilage without xxx from cranial base in occipital region,N/A,RNA was isolated using the ARCTURUS PicoPure RNA Isolation Kit ThermoFisher Scientific; Cat# KIT0204 according to the manufacturer’s instructions and DNase treatment was done using RNase Free DNase Qiagen; Cat#79254. RNA was amplified one round using MessageAmp II aRNA Kit ThermoFisher Scientific; Cat# AM1751. The RNA integrity was evaluated on the observation of a signature electropherogram pattern Bioanalyzer. A minimum of 5 10 ng of amplified RNA was used per sample for the construction of each library. RNA seq libraries were prepared by the National Research Council NRC Saskatoon using the Illumina TruSeq RNA Sample Prep Kit v2 with the following modification: the protocol was started at the Elute Prime Fragment step using5 µl amplified mRNA the minimum amount was 5 10 ng mRNA as determined using Quant iT RiboGreen RNA Assay Kit Invitrogen. The quality of each cDNA library was checked on a DNA 1000 chip using the 2100 Bioanalyzer Agilent Technologies Inc..,standard conditions EM filled dishes at 28.5C,tissue:cartilage|age:6dpf|genotype:wild type,GSM7967331,GSM7967331: Z1 WT; Danio rerio; RNA Seq,GSM7967331 r1,GSM7967331,1,RNA was isolated using the ARCTURUS PicoPure RNA Isolation Kit ThermoFisher Scientific; Cat# KIT0204 according to the manufacturer's instructions and DNase treatment was done using RNase Free DNase Qiagen; Cat#79254. RNA was amplified one round using MessageAmp II aRNA Kit ThermoFisher Scientific; Cat# AM1751. The RNA integrity was evaluated on the observation of a signature electropherogram pattern Bioanalyzer. A minimum of 5 10 ng of amplified RNA was used per sample for the construction of each library. RNA seq libraries were prepared by the National Research Council NRC Saskatoon using the Illumina TruSeq RNA Sample Prep Kit v2 with the following modification: the protocol was started at the Elute Prime Fragment step using5 µl amplified mRNA the minimum amount was 5 10 ng mRNA as determined using Quant iT RiboGreen RNA Assay Kit Invitrogen. The quality of each cDNA library was checked on a DNA 1000 chip using the 2100 Bioanalyzer Agilent Technologies Inc..,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP477408,,,Z1_R1.fastq.gz Z1_R2.fastq.gz,fastq fastq,9727948522.0,48158161.0,GSM7967331 r1,0:101 1:101,A:2710612972;C:2124743635;G:2101950141;T:2787702029;N:2939745,101,101,,,2710612972,2124743635,2101950141,2787702029,2939745,SRX22861015,SRS19836055,SRA1767043,"3B14 HSC, Anatomy and Cell Biology, University of Saskatchewan","3B14 HSC, Anatomy and Cell Biology, University of Saskatchewan",2,0.92553,0.92633,0.25474,0.25434,0.83362,0.83615,0.76464,0.75351,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,Canada,2023-12-11,Larval,Larval,Bone or Cartilage,Skeletal Element 30210,SRR27722348,SRX23388314,SRS20249507,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,2 F5 NPs,,isolate:b1 F5|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,2 F5 NPs,2 F5 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701134_L1EGI0701134--WT_M5.R1.raw.fastq.gz L1EGI0701134_L1EGI0701134--WT_M5.R2.raw.fastq.gz,fastq fastq,6858985646.0,22711873.0,L1EGI0701134 L1EGI0701134 WT M5.R1.raw.fastq.gz,0:151 1:151,A:1775374486;C:1607590004;G:1736749854;T:1739241353;N:29949,151,151,,,1775374486,1607590004,1736749854,1739241353,29949,SRX23388314,SRS20249507,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30211,SRR27722349,SRX23388313,SRS20249506,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,2 F4 NPs,,isolate:b1 F4|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,2 F4 NPs,2 F4 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701133--WT_M4.R1.raw.fastq.gz L1EGI0701133--WT_M4.R2.raw.fastq.gz,fastq fastq,8367706978.0,27707639.0,L1EGI0701133 WT M4.R1.raw.fastq.gz,0:151 1:151,A:2190978299;C:1972956945;G:2068607164;T:2135130434;N:34136,151,151,,,2190978299,1972956945,2068607164,2135130434,34136,SRX23388313,SRS20249506,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30212,SRR27722350,SRX23388312,SRS20249505,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,2 F3 NPs,,isolate:b1 F3|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,2 F3 NPs,2 F3 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701132--WT_M3.R1.raw.fastq.gz L1EGI0701132--WT_M3.R2.raw.fastq.gz,fastq fastq,8356526334.0,27670617.0,L1EGI0701132 WT M3.R1.raw.fastq.gz,0:151 1:151,A:2162579680;C:1984443655;G:2083109306;T:2126359754;N:33939,151,151,,,2162579680,1984443655,2083109306,2126359754,33939,SRX23388312,SRS20249505,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30213,SRR27722351,SRX23388311,SRS20249504,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,2 F2 NPs,,isolate:b1 F2|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,2 F2 NPs,2 F2 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701131--WT_M2.R1.raw.fastq.gz L1EGI0701131--WT_M2.R2.raw.fastq.gz,fastq fastq,8143546874.0,26965387.0,L1EGI0701131 WT M2.R1.raw.fastq.gz,0:151 1:151,A:2114633540;C:1938964033;G:2015877300;T:2074038855;N:33146,151,151,,,2114633540,1938964033,2015877300,2074038855,33146,SRX23388311,SRS20249504,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30214,SRR27722352,SRX23388310,SRS20249503,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,2 F1 NPs,,isolate:b1 F1|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,2 F1 NPs,2 F1 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701130--WT_M1.R1.raw.fastq.gz L1EGI0701130--WT_M1.R2.raw.fastq.gz,fastq fastq,9004594174.0,29816537.0,L1EGI0701130 WT M1.R1.raw.fastq.gz,0:151 1:151,A:2356139884;C:2114457727;G:2228436842;T:2305522562;N:37159,151,151,,,2356139884,2114457727,2228436842,2305522562,37159,SRX23388310,SRS20249503,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30215,SRR27722353,SRX23388309,SRS20249502,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,1 F5 WT,,isolate:b1 F5|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,1 F5 WT,1 F5 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701128--WT_F5.R1.raw.fastq.gz L1EGI0701128--WT_F5.R2.raw.fastq.gz,fastq fastq,9595399794.0,31772847.0,L1EGI0701128 WT F5.R1.raw.fastq.gz,0:151 1:151,A:2471647902;C:2293433569;G:2400056012;T:2430223486;N:38825,151,151,,,2471647902,2293433569,2400056012,2430223486,38825,SRX23388309,SRS20249502,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30216,SRR27722354,SRX23388308,SRS20249501,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,1 F4 WT,,isolate:b1 F4|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,1 F4 WT,1 F4 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701127--WT_F4.R1.raw.fastq.gz L1EGI0701127--WT_F4.R2.raw.fastq.gz,fastq fastq,7628679456.0,25260528.0,L1EGI0701127 WT F4.R1.raw.fastq.gz,0:151 1:151,A:2006324404;C:1789150133;G:1873940582;T:1959232617;N:31720,151,151,,,2006324404,1789150133,1873940582,1959232617,31720,SRX23388308,SRS20249501,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30217,SRR27722355,SRX23388307,SRS20249500,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,1 F3 WT,,isolate:b1 F3|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,1 F3 WT,1 F3 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701126--WT_F3.R1.raw.fastq.gz L1EGI0701126--WT_F3.R2.raw.fastq.gz,fastq fastq,8853107954.0,29314927.0,L1EGI0701126 WT F3.R1.raw.fastq.gz,0:151 1:151,A:2281668777;C:2122390553;G:2205818678;T:2243193679;N:36267,151,151,,,2281668777,2122390553,2205818678,2243193679,36267,SRX23388307,SRS20249500,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30218,SRR27722356,SRX23388306,SRS20249499,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,4 M5 NPs,,isolate:b1 M5|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,4 M5 NPs,4 M5 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701146--NPs_M5.R1.raw.fastq.gz L1EGI0701146--NPs_M5.R2.raw.fastq.gz,fastq fastq,7440341686.0,24636893.0,L1EGI0701146 NPs M5.R1.raw.fastq.gz,0:151 1:151,A:1926837197;C:1774447312;G:1865805171;T:1873221668;N:30338,151,151,,,1926837197,1774447312,1865805171,1873221668,30338,SRX23388306,SRS20249499,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30219,SRR27722357,SRX23388305,SRS20249498,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,4 M4 NPs,,isolate:b1 M4|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,4 M4 NPs,4 M4 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701145_L1EGI0701145--NPs_M4.R1.raw.fastq.gz L1EGI0701145_L1EGI0701145--NPs_M4.R2.raw.fastq.gz,fastq fastq,7482324518.0,24775909.0,L1EGI0701145 L1EGI0701145 NPs M4.R1.raw.fastq.gz,0:151 1:151,A:2074937139;C:1646093888;G:1749156387;T:2012102736;N:34368,151,151,,,2074937139,1646093888,1749156387,2012102736,34368,SRX23388305,SRS20249498,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30220,SRR27722358,SRX23388304,SRS20249497,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,4 M3 NPs,,isolate:b1 M3|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,4 M3 NPs,4 M3 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701144--NPs_M3.R1.raw.fastq.gz L1EGI0701144--NPs_M3.R2.raw.fastq.gz,fastq fastq,8439432280.0,27945140.0,L1EGI0701144 NPs M3.R1.raw.fastq.gz,0:151 1:151,A:2168219326;C:2022693060;G:2132822366;T:2115662612;N:34916,151,151,,,2168219326,2022693060,2132822366,2115662612,34916,SRX23388304,SRS20249497,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30221,SRR27722359,SRX23388303,SRS20249496,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,4 M2 NPs,,isolate:b1 M2|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,4 M2 NPs,4 M2 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701143--NPs_M2.R1.raw.fastq.gz L1EGI0701143--NPs_M2.R2.raw.fastq.gz,fastq fastq,7033808614.0,23290757.0,L1EGI0701143 NPs M2.R1.raw.fastq.gz,0:151 1:151,A:1828789906;C:1675914023;G:1760006026;T:1769068832;N:29827,151,151,,,1828789906,1675914023,1760006026,1769068832,29827,SRX23388303,SRS20249496,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30222,SRR27722360,SRX23388302,SRS20249495,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,4 M1 NPs,,isolate:b1 M1|host:male|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,4 M1 NPs,4 M1 NPs,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701142--NPs_M1.R1.raw.fastq.gz L1EGI0701142--NPs_M1.R2.raw.fastq.gz,fastq fastq,8087463964.0,26779682.0,L1EGI0701142 NPs M1.R1.raw.fastq.gz,0:151 1:151,A:2097695704;C:1931279917;G:2029894750;T:2028560473;N:33120,151,151,,,2097695704,1931279917,2029894750,2028560473,33120,SRX23388302,SRS20249495,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30223,SRR27722361,SRX23388301,SRS20249494,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,3 M5 WT,,isolate:b1 M5|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,3 M5 WT,3 M5 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701140--NPs_F5.R1.raw.fastq.gz L1EGI0701140--NPs_F5.R2.raw.fastq.gz,fastq fastq,8478344376.0,28073988.0,L1EGI0701140 NPs F5.R1.raw.fastq.gz,0:151 1:151,A:2202734913;C:2015133130;G:2106431143;T:2154009977;N:35213,151,151,,,2202734913,2015133130,2106431143,2154009977,35213,SRX23388301,SRS20249494,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30224,SRR27722362,SRX23388300,SRS20249493,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,3 M4 WT,,isolate:b1 M4|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,3 M4 WT,3 M4 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701139--NPs_F4.R1.raw.fastq.gz L1EGI0701139--NPs_F4.R2.raw.fastq.gz,fastq fastq,8569883596.0,28377098.0,L1EGI0701139 NPs F4.R1.raw.fastq.gz,0:151 1:151,A:2215047248;C:2038336388;G:2145335785;T:2171128844;N:35331,151,151,,,2215047248,2038336388,2145335785,2171128844,35331,SRX23388300,SRS20249493,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30225,SRR27722363,SRX23388299,SRS20249492,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,3 M3 WT,,isolate:b1 M3|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,3 M3 WT,3 M3 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701138--NPs_F3.R1.raw.fastq.gz L1EGI0701138--NPs_F3.R2.raw.fastq.gz,fastq fastq,7930364168.0,26259484.0,L1EGI0701138 NPs F3.R1.raw.fastq.gz,0:151 1:151,A:2046759305;C:1898600276;G:1959125241;T:2025847086;N:32260,151,151,,,2046759305,1898600276,1959125241,2025847086,32260,SRX23388299,SRS20249492,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30226,SRR27722364,SRX23388298,SRS20249491,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,3 M2 WT,,isolate:b1 M2|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,3 M2 WT,3 M2 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701137--NPs_F2.R1.raw.fastq.gz L1EGI0701137--NPs_F2.R2.raw.fastq.gz,fastq fastq,6914965272.0,22897236.0,L1EGI0701137 NPs F2.R1.raw.fastq.gz,0:151 1:151,A:1789644342;C:1644676301;G:1738643678;T:1741972870;N:28081,151,151,,,1789644342,1644676301,1738643678,1741972870,28081,SRX23388298,SRS20249491,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30227,SRR27722365,SRX23388297,SRS20249490,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,3 M1 WT,,isolate:b1 M1|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,3 M1 WT,3 M1 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701136--NPs_F1.R1.raw.fastq.gz L1EGI0701136--NPs_F1.R2.raw.fastq.gz,fastq fastq,7957071840.0,26347920.0,L1EGI0701136 NPs F1.R1.raw.fastq.gz,0:151 1:151,A:2056500264;C:1899503313;G:1979706436;T:2021329536;N:32291,151,151,,,2056500264,1899503313,1979706436,2021329536,32291,SRX23388297,SRS20249490,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30228,SRR27722366,SRX23388296,SRS20249489,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,1 F2 WT,,isolate:b1 F2|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,1 F2 WT,1 F2 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701125--WT_F2.R1.raw.fastq.gz L1EGI0701125--WT_F2.R2.raw.fastq.gz,fastq fastq,7960683760.0,26359880.0,L1EGI0701125 WT F2.R1.raw.fastq.gz,0:151 1:151,A:2087534093;C:1862286963;G:1962292721;T:2048536454;N:33529,151,151,,,2087534093,1862286963,1962292721,2048536454,33529,SRX23388296,SRS20249489,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 30229,SRR27722367,SRX23388295,SRS20249488,SRP485828,PRJNA1068830,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,PRJNA1068830,Other,Employing standard polystyrene NPs as the representative the investigation of the bone loss in the caudal fin from environmentally realistic concentration of NPs was assessed in zebrafish.,,,,,1 F1 WT,,isolate:b1 F1|host:female|collection date:2022 09 06|geo loc name:China:qingdao|tissue:b1|BioSampleModel:Invertebrate,,,,,,,,,skeletal toxicity studies of polystyrene nanoplastic in zebrafish,1 F1 WT,1 F1 WT,bone,,,RNA-Seq,TRANSCRIPTOMIC,other,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP485828,,,L1EGI0701124--WT_F1.R1.raw.fastq.gz L1EGI0701124--WT_F1.R2.raw.fastq.gz,fastq fastq,8373285522.0,27726111.0,L1EGI0701124 WT F1.R1.raw.fastq.gz,0:151 1:151,A:2148645285;C:1996284185;G:2121066399;T:2107255525;N:34128,151,151,,,2148645285,1996284185,2121066399,2107255525,34128,SRX23388295,SRS20249488,SRA1791477,zhejiang university|the college of animal science,zhejiang university,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2024-01-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 38060,SRR1524244,SRX661009,SRS665984,SRP044781,PRJNA255848,Danio rerio Transcriptome,PRJNA255848,Transcriptome Analysis,Transcriptome analysis of 12 zebrafish tissues,parent bioproject:PRJNA255979,pubmed:27189481,Zebrafish Bones,Zebrafish B1s,F Dr 8,,strain:AB|age:5 month|biomaterial provider:INRA|sex:female|tissue:B1s|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish B1s,F Dr 8,F Dr 8,Total RNA was qualified using an Agilent BioAnalyzer and 1 µg was used for polyA selection and library construction with Illumina's TruSeq stranded total RNA sample preparation kit according to the manufacturer's instructions TruSeq stranded total RNA SamplePrep Guide RevC,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2000,2000Application ReadForward11Application ReadReverse101,SRP044781,,,F_Dr_8_ACAGTG_L003_R2.fastq.gz F_Dr_8_ACAGTG_L003_R1.fastq.gz,fastq fastq,19343193000.0,96715965.0,F Dr 8 files,0:100 1:100,A:5011655819;C:4570121318;G:4634671917;T:4933523152;N:193220794,100,100,,,5011655819,4570121318,4634671917,4933523152,193220794,SRX661009,SRS665984,SRA176464,INRA|Fish Physiology and Genomics,INRA PhyloFish,2,0.88337,0.91338,0.05259,0.05508,0.75103,0.75317,0.51459,0.51744,100,100,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,France,2014-07-26,Adult,Adult,Bone or Cartilage,Skeletal Element 58579,SRR11425295,SRX8003661,SRS6377641,SRP254053,PRJNA615232,Control of osteoblast regeneration by a train of Erk activity waves,GSE147551,Transcriptome Analysis,We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin we could sort osteoblasts into separate Erk+ and Erk populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically dusp2 dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal which anti correlates with Erk activity.,,pubmed:33408418,,high Erk activity; rep1,GSM4433141,,tissue:high Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales,high Erk activity; rep1,Reads were trimmed by Trim Galore 0.4.1 with q 15 paired and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq,high Erk activity,Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 µm disposable chip. Initially events were gated using Forward versus Side Scatter Areas 488 nm laser. Then single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally H2A mCherry+ Venus hGeminin and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,Scale regeneration was induced by plucking about 50 scales in three rows from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp all regenerating scales were plucked and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 µl of 13U/ml Liberase DH Research Grade Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min 500 µl of supernatant was removed quenched with 65µl sheep serum Sigma S2263 on ice and 500 µl of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 µl filters Corning #431750 pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure Invitrogen AM2616. Before sorting 1 µg/ml DAPI Sigma D9542 was added to the tube.,fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales,GSM4433141,GSM4433141: high Erk activity; rep1; Danio rerio; RNA Seq,GSM4433141,,1,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,GEO Accession:GSM4433141,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,BGISEQ,BGISEQ-500,,SRP254053,,,3G_plus_1.fq.gz 3G_plus_2.fq.gz,fastq fastq,4698595200.0,46985952.0,GSM4433141 r1,0:100 1:100,A:1261622105;C:1085007643;G:1066886112;T:1285079340;N:0,100,100,,,1261622105,1085007643,1066886112,1285079340,0,SRX8003661,SRS6377641,SRA1059429,GEO,"Poss, Cell Biology, Duke University",1,0.86576,,0.11767,,0.81262,,0.52377,,100,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 58580,SRR11425294,SRX8003660,SRS6377640,SRP254053,PRJNA615232,Control of osteoblast regeneration by a train of Erk activity waves,GSE147551,Transcriptome Analysis,We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin we could sort osteoblasts into separate Erk+ and Erk populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically dusp2 dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal which anti correlates with Erk activity.,,pubmed:33408418,,low Erk activity; rep3,GSM4433140,,tissue:low Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales,low Erk activity; rep3,Reads were trimmed by Trim Galore 0.4.1 with q 15 paired and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq,low Erk activity,Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 µm disposable chip. Initially events were gated using Forward versus Side Scatter Areas 488 nm laser. Then single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally H2A mCherry+ Venus hGeminin and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,Scale regeneration was induced by plucking about 50 scales in three rows from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp all regenerating scales were plucked and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 µl of 13U/ml Liberase DH Research Grade Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min 500 µl of supernatant was removed quenched with 65µl sheep serum Sigma S2263 on ice and 500 µl of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 µl filters Corning #431750 pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure Invitrogen AM2616. Before sorting 1 µg/ml DAPI Sigma D9542 was added to the tube.,fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales,GSM4433140,GSM4433140: low Erk activity; rep3; Danio rerio; RNA Seq,GSM4433140,,1,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,GEO Accession:GSM4433140,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,BGISEQ,BGISEQ-500,,SRP254053,,,6B_minus_1.fq.gz 6B_minus_2.fq.gz,fastq fastq,4707217000.0,47072170.0,GSM4433140 r1,0:100 1:100,A:1268188059;C:1086056259;G:1067448053;T:1285524629;N:0,100,100,,,1268188059,1086056259,1067448053,1285524629,0,SRX8003660,SRS6377640,SRA1059429,GEO,"Poss, Cell Biology, Duke University",1,0.88883,,0.05585,,0.82071,,0.47905,,100,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 58581,SRR11425293,SRX8003659,SRS6377639,SRP254053,PRJNA615232,Control of osteoblast regeneration by a train of Erk activity waves,GSE147551,Transcriptome Analysis,We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin we could sort osteoblasts into separate Erk+ and Erk populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically dusp2 dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal which anti correlates with Erk activity.,,pubmed:33408418,,low Erk activity; rep2,GSM4433139,,tissue:low Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales,low Erk activity; rep2,Reads were trimmed by Trim Galore 0.4.1 with q 15 paired and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq,low Erk activity,Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 µm disposable chip. Initially events were gated using Forward versus Side Scatter Areas 488 nm laser. Then single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally H2A mCherry+ Venus hGeminin and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,Scale regeneration was induced by plucking about 50 scales in three rows from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp all regenerating scales were plucked and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 µl of 13U/ml Liberase DH Research Grade Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min 500 µl of supernatant was removed quenched with 65µl sheep serum Sigma S2263 on ice and 500 µl of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 µl filters Corning #431750 pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure Invitrogen AM2616. Before sorting 1 µg/ml DAPI Sigma D9542 was added to the tube.,fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales,GSM4433139,GSM4433139: low Erk activity; rep2; Danio rerio; RNA Seq,GSM4433139,,1,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,GEO Accession:GSM4433139,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,BGISEQ,BGISEQ-500,,SRP254053,,,5G_minus_1.fq.gz 5G_minus_2.fq.gz,fastq fastq,4705295600.0,47052956.0,GSM4433139 r1,0:100 1:100,A:1240779500;C:1112511484;G:1096653049;T:1255351567;N:0,100,100,,,1240779500,1112511484,1096653049,1255351567,0,SRX8003659,SRS6377639,SRA1059429,GEO,"Poss, Cell Biology, Duke University",1,0.89254,,0.04065,,0.81197,,0.46307,,100,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 58582,SRR11425292,SRX8003658,SRS6377638,SRP254053,PRJNA615232,Control of osteoblast regeneration by a train of Erk activity waves,GSE147551,Transcriptome Analysis,We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin we could sort osteoblasts into separate Erk+ and Erk populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically dusp2 dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal which anti correlates with Erk activity.,,pubmed:33408418,,low Erk activity; rep1,GSM4433138,,tissue:low Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales,low Erk activity; rep1,Reads were trimmed by Trim Galore 0.4.1 with q 15 paired and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq,low Erk activity,Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 µm disposable chip. Initially events were gated using Forward versus Side Scatter Areas 488 nm laser. Then single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally H2A mCherry+ Venus hGeminin and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,Scale regeneration was induced by plucking about 50 scales in three rows from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp all regenerating scales were plucked and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 µl of 13U/ml Liberase DH Research Grade Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min 500 µl of supernatant was removed quenched with 65µl sheep serum Sigma S2263 on ice and 500 µl of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 µl filters Corning #431750 pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure Invitrogen AM2616. Before sorting 1 µg/ml DAPI Sigma D9542 was added to the tube.,fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales,GSM4433138,GSM4433138: low Erk activity; rep1; Danio rerio; RNA Seq,GSM4433138,,1,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,GEO Accession:GSM4433138,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,BGISEQ,BGISEQ-500,,SRP254053,,,3G_minus_1.fq.gz 3G_minus_2.fq.gz,fastq fastq,4707783400.0,47077834.0,GSM4433138 r1,0:100 1:100,A:1275040914;C:1077730597;G:1059242617;T:1295769272;N:0,100,100,,,1275040914,1077730597,1059242617,1295769272,0,SRX8003658,SRS6377638,SRA1059429,GEO,"Poss, Cell Biology, Duke University",1,0.8629,,0.13994,,0.7838,,0.50568,,100,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 58583,SRR11425297,SRX8003657,SRS6377637,SRP254053,PRJNA615232,Control of osteoblast regeneration by a train of Erk activity waves,GSE147551,Transcriptome Analysis,We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin we could sort osteoblasts into separate Erk+ and Erk populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically dusp2 dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal which anti correlates with Erk activity.,,pubmed:33408418,,high Erk activity; rep3,GSM4433143,,tissue:high Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales,high Erk activity; rep3,Reads were trimmed by Trim Galore 0.4.1 with q 15 paired and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq,high Erk activity,Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 µm disposable chip. Initially events were gated using Forward versus Side Scatter Areas 488 nm laser. Then single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally H2A mCherry+ Venus hGeminin and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,Scale regeneration was induced by plucking about 50 scales in three rows from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp all regenerating scales were plucked and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 µl of 13U/ml Liberase DH Research Grade Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min 500 µl of supernatant was removed quenched with 65µl sheep serum Sigma S2263 on ice and 500 µl of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 µl filters Corning #431750 pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure Invitrogen AM2616. Before sorting 1 µg/ml DAPI Sigma D9542 was added to the tube.,fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales,GSM4433143,GSM4433143: high Erk activity; rep3; Danio rerio; RNA Seq,GSM4433143,,1,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,GEO Accession:GSM4433143,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,BGISEQ,BGISEQ-500,,SRP254053,,,6B_plus_1.fq.gz 6B_plus_2.fq.gz,fastq fastq,4703728000.0,47037280.0,GSM4433143 r1,0:100 1:100,A:1231849303;C:1116643672;G:1102072724;T:1253162301;N:0,100,100,,,1231849303,1116643672,1102072724,1253162301,0,SRX8003657,SRS6377637,SRA1059429,GEO,"Poss, Cell Biology, Duke University",1,0.89702,,0.07131,,0.82978,,0.49499,,100,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 58584,SRR11425296,SRX8003656,SRS6377636,SRP254053,PRJNA615232,Control of osteoblast regeneration by a train of Erk activity waves,GSE147551,Transcriptome Analysis,We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin we could sort osteoblasts into separate Erk+ and Erk populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically dusp2 dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal which anti correlates with Erk activity.,,pubmed:33408418,,high Erk activity; rep2,GSM4433142,,tissue:high Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales,high Erk activity; rep2,Reads were trimmed by Trim Galore 0.4.1 with q 15 paired and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq,high Erk activity,Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 µm disposable chip. Initially events were gated using Forward versus Side Scatter Areas 488 nm laser. Then single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally H2A mCherry+ Venus hGeminin and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,Scale regeneration was induced by plucking about 50 scales in three rows from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp all regenerating scales were plucked and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 µl of 13U/ml Liberase DH Research Grade Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min 500 µl of supernatant was removed quenched with 65µl sheep serum Sigma S2263 on ice and 500 µl of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 µl filters Corning #431750 pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure Invitrogen AM2616. Before sorting 1 µg/ml DAPI Sigma D9542 was added to the tube.,fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales,GSM4433142,GSM4433142: high Erk activity; rep2; Danio rerio; RNA Seq,GSM4433142,,1,RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation – BT01,GEO Accession:GSM4433142,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,BGISEQ,BGISEQ-500,,SRP254053,,,5G_plus_1.fq.gz 5G_plus_2.fq.gz,fastq fastq,4708623600.0,47086236.0,GSM4433142 r1,0:100 1:100,A:1200601624;C:1150903127;G:1136628277;T:1220490572;N:0,100,100,,,1200601624,1150903127,1136628277,1220490572,0,SRX8003656,SRS6377636,SRA1059429,GEO,"Poss, Cell Biology, Duke University",1,0.90729,,0.03751,,0.84433,,0.50342,,100,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-25,Undetermined,Undetermined,Bone or Cartilage,Skeletal Element 74701,SRR24003726,SRX19807142,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 4,case2 4,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_4_1.fq.gz case2_4_2.fq.gz,fastq fastq,6631325400.0,22104418.0,case2 4 1.fq.gz,0:150 1:150,A:1790451511;C:1523987494;G:1517049214;T:1799837181;N:0,150,150,,,1790451511,1523987494,1517049214,1799837181,0,SRX19807142,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.94202,0.94054,0.06448,0.06393,0.71415,0.71445,0.52801,0.52947,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74702,SRR24003727,SRX19807141,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 3,case2 3,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_3_1.fq.gz case2_3_2.fq.gz,fastq fastq,6706743300.0,22355811.0,case2 3 1.fq.gz,0:150 1:150,A:1845685627;C:1507725453;G:1499541624;T:1853790596;N:0,150,150,,,1845685627,1507725453,1499541624,1853790596,0,SRX19807141,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.94268,0.93594,0.08009,0.07937,0.70402,0.70441,0.4556,0.48818,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74703,SRR24003728,SRX19807140,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 2,case2 2,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_2_1.fq.gz case2_2_2.fq.gz,fastq fastq,6677092200.0,22256974.0,case2 2 1.fq.gz,0:150 1:150,A:1864795230;C:1474224567;G:1465199644;T:1872872759;N:0,150,150,,,1864795230,1474224567,1465199644,1872872759,0,SRX19807140,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.93359,0.92743,0.0959,0.09583,0.69089,0.69234,0.48419,0.48121,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74704,SRR24003729,SRX19807139,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 1,case2 1,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_1_1.fq.gz case2_1_2.fq.gz,fastq fastq,6644478600.0,22148262.0,case2 1 1.fq.gz,0:150 1:150,A:1863814645;C:1460246773;G:1453279946;T:1867137236;N:0,150,150,,,1863814645,1460246773,1453279946,1867137236,0,SRX19807139,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.93932,0.9379,0.09722,0.09709,0.71985,0.71873,0.49646,0.5522,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74705,SRR24003730,SRX19807138,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,control2 6,control2 6,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,control2_6_1.fq.gz control2_6_2.fq.gz,fastq fastq,6817849200.0,22726164.0,control2 6 1.fq.gz,0:150 1:150,A:1916198776;C:1480570561;G:1501234091;T:1919845772;N:0,150,150,,,1916198776,1480570561,1501234091,1919845772,0,SRX19807138,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.94697,0.9369,0.06934,0.06812,0.76824,0.77114,0.49005,0.54882,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74706,SRR24003731,SRX19807137,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,control2 5,control2 5,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,control2_5_1.fq.gz control2_5_2.fq.gz,fastq fastq,6730171500.0,22433905.0,control2 5 1.fq.gz,0:150 1:150,A:1881763818;C:1469481635;G:1493477302;T:1885448745;N:0,150,150,,,1881763818,1469481635,1493477302,1885448745,0,SRX19807137,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.9399,0.92905,0.0832,0.08122,0.70993,0.71228,0.54991,0.58952,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74707,SRR24003732,SRX19807136,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,control2 4,control2 4,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,control2_4_1.fq.gz control2_4_2.fq.gz,fastq fastq,6660686100.0,22202287.0,control2 4 1.fq.gz,0:150 1:150,A:1846205332;C:1486328129;G:1477889862;T:1850262777;N:0,150,150,,,1846205332,1486328129,1477889862,1850262777,0,SRX19807136,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.94251,0.94001,0.08206,0.082,0.69483,0.69524,0.49193,0.49602,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74708,SRR24003733,SRX19807135,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,control2 3,control2 3,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,control2_3_1.fq.gz control2_3_2.fq.gz,fastq fastq,6683569500.0,22278565.0,control2 3 1.fq.gz,0:150 1:150,A:1846755716;C:1494194697;G:1482717957;T:1859901130;N:0,150,150,,,1846755716,1494194697,1482717957,1859901130,0,SRX19807135,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.93255,0.93106,0.10717,0.10731,0.67665,0.67791,0.54876,0.52297,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74709,SRR24003734,SRX19807134,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 7,case2 7,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_7_1.fq.gz case2_7_2.fq.gz,fastq fastq,6770748000.0,22569160.0,case2 7 1.fq.gz,0:150 1:150,A:1918448687;C:1455131518;G:1474277741;T:1922890054;N:0,150,150,,,1918448687,1455131518,1474277741,1922890054,0,SRX19807134,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.94025,0.92953,0.08709,0.0851,0.73864,0.73914,0.5716,0.56037,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74710,SRR24003735,SRX19807133,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 6,case2 6,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_6_1.fq.gz case2_6_2.fq.gz,fastq fastq,6743372700.0,22477909.0,case2 6 1.fq.gz,0:150 1:150,A:1825699499;C:1533637372;G:1552424547;T:1831611282;N:0,150,150,,,1825699499,1533637372,1552424547,1831611282,0,SRX19807133,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.95425,0.94313,0.05313,0.05246,0.77268,0.77461,0.52616,0.5227,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74711,SRR24003736,SRX19807132,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,case2 5,case2 5,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,case2_5_1.fq.gz case2_5_2.fq.gz,fastq fastq,6810815400.0,22702718.0,case2 5 1.fq.gz,0:150 1:150,A:1861549181;C:1529649127;G:1553365612;T:1866251480;N:0,150,150,,,1861549181,1529649127,1553365612,1866251480,0,SRX19807132,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.94842,0.93757,0.06448,0.06317,0.74036,0.74097,0.53479,0.52393,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74712,SRR24003737,SRX19807131,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,control2 2,control2 2,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,control2_2_1.fq.gz control2_2_2.fq.gz,fastq fastq,6693643800.0,22312146.0,control2 2 1.fq.gz,0:150 1:150,A:1846873501;C:1499207913;G:1490122627;T:1857439759;N:0,150,150,,,1846873501,1499207913,1490122627,1857439759,0,SRX19807131,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.93282,0.93092,0.09007,0.0899,0.68672,0.68793,0.55221,0.55318,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element 74713,SRR24003738,SRX19807130,SRS17168877,SRP429947,PRJNA949785,Sequencing of zebrafish bone tissues,PRJNA949785,Other,Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass,,,,,eight month zebrafish bone tissues,,breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of b1 tissue in zebrafish,control2 1,control2 1,Qualified total RNA was purified by DNase I and mRNA was enriched by adding OligodT attached magnetic beads. Subsequently fragment buffer was added to cleave the mRNA into small fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first cDNA strand and then the second cDNA strand was generated. End repair and adaptor ligation were performed by adding A tailing Mix and RNA Index Adapters and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products. The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality of the final library was tested. The qualified library was replicated by rolling circle replication to form DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently sequencing was performed on the BGIISEQ500 platform BGI Shenzhen Guangdong China using combined probe anchored polymerisation.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,BGISEQ,BGISEQ-500,,SRP429947,,,control2_1_1.fq.gz control2_1_2.fq.gz,fastq fastq,6629354100.0,22097847.0,control2 1 1.fq.gz,0:150 1:150,A:1819412655;C:1492313439;G:1486507818;T:1831120188;N:0,150,150,,,1819412655,1492313439,1486507818,1831120188,0,SRX19807130,SRS17168877,SRA1612461,"Sun Yat-sen University|Department of Epidemiology, School of Public Healt",Sun Yat-sen University,2,0.93273,0.93086,0.08814,0.08711,0.67748,0.67696,0.5355,0.54253,150,150,B,B,biological fallback assumption,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-29,Adult,Adult,Bone or Cartilage,Skeletal Element