metadata: run_metadata: 18 rows where devstage_curation_coarse = "Adult" and tissue

18 rows where devstage_curation_coarse = "Adult" and tissue_curation = "Bone or Cartilage"

descending

Link	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.attributes	GEOsample.title	GEOsample.dataprocessing	GEOsample.source	GEOsample.extractprotocol	GEOsample.characteristics	GEOsample.accession	experiment.title	experiment.alias	experiment.library_name	experiment.design_description	experiment.library_construction_protocol	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.spot_descriptor	experiment.study_ref	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.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	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
38060	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	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	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
53148	53148	SRR9692022	SRX6451056	SRS5104327	SRP214773	PRJNA554788	Gene expression analysis in the zebrafish fractured scale	GSE134330	Transcriptome Analysis	Bone is a connective tissue which undergoes continuous remodeling including bone resorption and formation by osteoclasts OCs and osteoblasts OBs respectively. Recently extracellular vesicles EVs are increasingly appreciated as a regulator of intercellular communication between OCs and OBs. The zebrafish scale is a thin membranous bone embedded in the skin and consists of OBs OCs and bone matrix providing an elegant model to visualize OC OB communication. Here we developed a double transgenic zebrafish line trap:GFP; osterix:mCherry which expresses GFP and mCherry under the control of the OC specific trap tartrate resistant acid phosphatase and OB specific osterix enhancer respectively. Utilizing this double transgenic line in combination with Hoechst 33342 Hoe staining we isolated four distinct fractions from the scale at 1 day post fracture by flow cytometry GFP– mCh+ Hoehigh OB fraction GFPlow mCh+ Hoehigh OC precursor pOC fraction GFPhigh Hoehigh mature OC mOC fraction and mCh+ Hoe– OB derived extracellular vesicle EV fraction. In this study we have performed RNA seq analysis using these four fractions to examine the gene expression profile of each fraction. Overall design: mRNA profiles of isolated OBs pOCs mOCs and OB derived EVs in the zebrafish fractured scales were generated by Quartz seq using Illumina NextSeq500.		pubmed:32327701		EV 2	GSM3942348	source name:osteoblast derived extracellular vesicles\|age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblast derived extracellular vesicles\|molecule type:Amplified RNA	EV 2	Illumina RTA software was used for base calling. Sequence reads were mapped to the zebrafish reference genome GRCz11 using HiSAT2 version 2.1.0. Reads per million RPM were calculated using the Subread ver. 1.6.4. Genome build: GRCz11 Supplementary files format and content: Reads per million RPM values for each sample.	osteoblast derived extracellular vesicles	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the 3’ ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblast derived extracellular vesicles\|molecule type:Amplified RNA	GSM3942348	GSM3942348: EV 2; Danio rerio; RNA Seq	GSM3942348		1	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the three prime ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	NextSeq 500		SRP214773	EV_2_R1.fastq.gz EV_2_R2.fastq.gz	fastq fastq	6759957000.0	22533190.0	GSM3942348 r1	0:150 1:150	A:1706593126;C:1699056754;G:1646763192;T:1707067337;N:476591	150	150	1706593126	1699056754	1646763192	1707067337	476591	SRX6451056	SRS5104327	SRA921382	GEO	Kanazawa University	2	0.94501	0.94549	0.02885	0.03033	0.80458	0.80957	0.48799	0.50474	150	150	B	B	biological fallback assumption	illumina	nextseq	3prime	poly_a	nextera	sc	single_cell_plate	quartzseq	Japan	2019-07-16	Adult	Adult	Bone or Cartilage	Skeletal Element
53149	53149	SRR9692021	SRX6451055	SRS5104326	SRP214773	PRJNA554788	Gene expression analysis in the zebrafish fractured scale	GSE134330	Transcriptome Analysis	Bone is a connective tissue which undergoes continuous remodeling including bone resorption and formation by osteoclasts OCs and osteoblasts OBs respectively. Recently extracellular vesicles EVs are increasingly appreciated as a regulator of intercellular communication between OCs and OBs. The zebrafish scale is a thin membranous bone embedded in the skin and consists of OBs OCs and bone matrix providing an elegant model to visualize OC OB communication. Here we developed a double transgenic zebrafish line trap:GFP; osterix:mCherry which expresses GFP and mCherry under the control of the OC specific trap tartrate resistant acid phosphatase and OB specific osterix enhancer respectively. Utilizing this double transgenic line in combination with Hoechst 33342 Hoe staining we isolated four distinct fractions from the scale at 1 day post fracture by flow cytometry GFP– mCh+ Hoehigh OB fraction GFPlow mCh+ Hoehigh OC precursor pOC fraction GFPhigh Hoehigh mature OC mOC fraction and mCh+ Hoe– OB derived extracellular vesicle EV fraction. In this study we have performed RNA seq analysis using these four fractions to examine the gene expression profile of each fraction. Overall design: mRNA profiles of isolated OBs pOCs mOCs and OB derived EVs in the zebrafish fractured scales were generated by Quartz seq using Illumina NextSeq500.		pubmed:32327701		EV 1	GSM3942347	source name:osteoblast derived extracellular vesicles\|age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblast derived extracellular vesicles\|molecule type:Amplified RNA	EV 1	Illumina RTA software was used for base calling. Sequence reads were mapped to the zebrafish reference genome GRCz11 using HiSAT2 version 2.1.0. Reads per million RPM were calculated using the Subread ver. 1.6.4. Genome build: GRCz11 Supplementary files format and content: Reads per million RPM values for each sample.	osteoblast derived extracellular vesicles	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the 3’ ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblast derived extracellular vesicles\|molecule type:Amplified RNA	GSM3942347	GSM3942347: EV 1; Danio rerio; RNA Seq	GSM3942347		1	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the three prime ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	NextSeq 500		SRP214773	EV_1_R1.fastq.gz EV_1_R2.fastq.gz	fastq fastq	6368980200.0	21229934.0	GSM3942347 r1	0:150 1:150	A:1609224577;C:1593521490;G:1569729629;T:1596056057;N:448447	150	150	1609224577	1593521490	1569729629	1596056057	448447	SRX6451055	SRS5104326	SRA921382	GEO	Kanazawa University	2	0.93738	0.93601	0.02919	0.03087	0.79669	0.80312	0.50627	0.50567	150	150	B	B	biological fallback assumption	illumina	nextseq	3prime	poly_a	nextera	sc	single_cell_plate	quartzseq	Japan	2019-07-16	Adult	Adult	Bone or Cartilage	Skeletal Element
53154	53154	SRR9692016	SRX6451050	SRS5104321	SRP214773	PRJNA554788	Gene expression analysis in the zebrafish fractured scale	GSE134330	Transcriptome Analysis	Bone is a connective tissue which undergoes continuous remodeling including bone resorption and formation by osteoclasts OCs and osteoblasts OBs respectively. Recently extracellular vesicles EVs are increasingly appreciated as a regulator of intercellular communication between OCs and OBs. The zebrafish scale is a thin membranous bone embedded in the skin and consists of OBs OCs and bone matrix providing an elegant model to visualize OC OB communication. Here we developed a double transgenic zebrafish line trap:GFP; osterix:mCherry which expresses GFP and mCherry under the control of the OC specific trap tartrate resistant acid phosphatase and OB specific osterix enhancer respectively. Utilizing this double transgenic line in combination with Hoechst 33342 Hoe staining we isolated four distinct fractions from the scale at 1 day post fracture by flow cytometry GFP– mCh+ Hoehigh OB fraction GFPlow mCh+ Hoehigh OC precursor pOC fraction GFPhigh Hoehigh mature OC mOC fraction and mCh+ Hoe– OB derived extracellular vesicle EV fraction. In this study we have performed RNA seq analysis using these four fractions to examine the gene expression profile of each fraction. Overall design: mRNA profiles of isolated OBs pOCs mOCs and OB derived EVs in the zebrafish fractured scales were generated by Quartz seq using Illumina NextSeq500.		pubmed:32327701		OB 2	GSM3942342	source name:osteoblasts\|age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblasts\|molecule type:Amplified RNA	OB 2	Illumina RTA software was used for base calling. Sequence reads were mapped to the zebrafish reference genome GRCz11 using HiSAT2 version 2.1.0. Reads per million RPM were calculated using the Subread ver. 1.6.4. Genome build: GRCz11 Supplementary files format and content: Reads per million RPM values for each sample.	osteoblasts	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the 3’ ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblasts\|molecule type:Amplified RNA	GSM3942342	GSM3942342: OB 2; Danio rerio; RNA Seq	GSM3942342		1	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the three prime ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	NextSeq 500		SRP214773	OB_2_R1.fastq.gz OB_2_R2.fastq.gz	fastq fastq	4566907200.0	15223024.0	GSM3942342 r1	0:150 1:150	A:1133280984;C:1162119484;G:1119861724;T:1151514772;N:130236	150	150	1133280984	1162119484	1119861724	1151514772	130236	SRX6451050	SRS5104321	SRA921382	GEO	Kanazawa University	2	0.9502	0.9473	0.0382	0.04036	0.77853	0.78719	0.47336	0.4862	150	150	B	B	biological fallback assumption	illumina	nextseq	3prime	poly_a	nextera	sc	single_cell_plate	quartzseq	Japan	2019-07-16	Adult	Adult	Bone or Cartilage	Skeletal Element
53155	53155	SRR9692015	SRX6451049	SRS5104320	SRP214773	PRJNA554788	Gene expression analysis in the zebrafish fractured scale	GSE134330	Transcriptome Analysis	Bone is a connective tissue which undergoes continuous remodeling including bone resorption and formation by osteoclasts OCs and osteoblasts OBs respectively. Recently extracellular vesicles EVs are increasingly appreciated as a regulator of intercellular communication between OCs and OBs. The zebrafish scale is a thin membranous bone embedded in the skin and consists of OBs OCs and bone matrix providing an elegant model to visualize OC OB communication. Here we developed a double transgenic zebrafish line trap:GFP; osterix:mCherry which expresses GFP and mCherry under the control of the OC specific trap tartrate resistant acid phosphatase and OB specific osterix enhancer respectively. Utilizing this double transgenic line in combination with Hoechst 33342 Hoe staining we isolated four distinct fractions from the scale at 1 day post fracture by flow cytometry GFP– mCh+ Hoehigh OB fraction GFPlow mCh+ Hoehigh OC precursor pOC fraction GFPhigh Hoehigh mature OC mOC fraction and mCh+ Hoe– OB derived extracellular vesicle EV fraction. In this study we have performed RNA seq analysis using these four fractions to examine the gene expression profile of each fraction. Overall design: mRNA profiles of isolated OBs pOCs mOCs and OB derived EVs in the zebrafish fractured scales were generated by Quartz seq using Illumina NextSeq500.		pubmed:32327701		OB 1	GSM3942341	source name:osteoblasts\|age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblasts\|molecule type:Amplified RNA	OB 1	Illumina RTA software was used for base calling. Sequence reads were mapped to the zebrafish reference genome GRCz11 using HiSAT2 version 2.1.0. Reads per million RPM were calculated using the Subread ver. 1.6.4. Genome build: GRCz11 Supplementary files format and content: Reads per million RPM values for each sample.	osteoblasts	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the 3’ ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	age:adult\|genotype:wild type\|tissue:Sorted from the fractured sclae\|cell type:osteoblasts\|molecule type:Amplified RNA	GSM3942341	GSM3942341: OB 1; Danio rerio; RNA Seq	GSM3942341		1	Total RNAs were extracted from sorted cells using RNeasy Mini Kit QIAGEN. Cells were directly sorted in a lysis buffer containing 1 μg/mL of polyinosinic polycytidylic acid and total RNA was extracted using RNeasy Mini Kit. Reverse transcription RT was performed using Super Script III Thermo Fisher Scientific and an RT primer which contains oligo dT T7 promoter and PCR target region sequences. post digestion of remaining RT primers by exonuclease I Takara a poly A tail was added to the three prime ends of the first strand cDNAs using terminal transferase Sigma. The second strand DNA was then synthesized using MightyAmp DNA polymerase Thermo Fisher Scientific and a tagging primer which contains oligo dT and PCR target region sequences. PCR amplification was performed using a suppression primer which allow to amplify small size DNA that contains complementary sequences at both ends of the template DNA. The amplified double strand cDNA was purified using QIAquick PCR Purification Kit Qiagen. Library preparation was performed using Nextera XT DNA Library Preparation Kit illumina.	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	NextSeq 500		SRP214773	OB_1_R1.fastq.gz OB_1_R2.fastq.gz	fastq fastq	3924215700.0	13080719.0	GSM3942341 r1	0:150 1:150	A:983923789;C:989882668;G:965519773;T:984780602;N:108868	150	150	983923789	989882668	965519773	984780602	108868	SRX6451049	SRS5104320	SRA921382	GEO	Kanazawa University	2	0.95148	0.94857	0.03822	0.04077	0.77705	0.78729	0.48248	0.49117	150	150	B	B	biological fallback assumption	illumina	nextseq	3prime	poly_a	nextera	sc	single_cell_plate	quartzseq	Japan	2019-07-16	Adult	Adult	Bone or Cartilage	Skeletal Element
74701	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	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	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	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	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	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	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	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	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	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	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	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	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

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;