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13 rows where experiment.library_selection = "PCR", experiment.library_source = "TRANSCRIPTOMIC" and tissue_curation_coarse = "Skeletal Element"

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tissue_curation_coarse 1

  • Skeletal Element · 13 ✖

tissue_curation 1

technology 1

experiment.platform 1

experiment.library_strategy 1

experiment.library_source 1

  • TRANSCRIPTOMIC · 13 ✖

experiment.library_selection 1

  • PCR · 13 ✖

experiment.library_layout 1

devstage_curation_coarse 1

devstage_curation 1

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.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
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");;