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run_metadata

21 rows where experiment.library_layout = "SINGLE", experiment.library_selection = "cDNA" and experiment.library_strategy = "FL-cDNA"

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devstage_curation 8

devstage_curation_coarse 2

tissue_curation_coarse 1

tissue_curation 1

technology 1

experiment.platform 1

experiment.library_strategy 1

  • FL-cDNA · 21 ✖

experiment.library_source 1

experiment.library_selection 1

  • cDNA · 21 ✖

experiment.library_layout 1

  • SINGLE · 21 ✖
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
75461 75461 SRR24682216 SRX20461657 SRS17774528 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         75% epiboly   strain:AB|dev stage:75% epiboly|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 75% epiboly 75% epiboly 75% epiboly The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604104_1_r64400e_20220511_065818_2_E02.ccs.bam bam 2445533795.0 757816.0 P02TYR22604104 1 r64400e 20220511 065818 2 E02.ccs.bam 0:3227.08 A:707827290;C:530585152;G:559097725;T:648023628;N:0 3227       707827290 530585152 559097725 648023628 0 SRX20461657 SRS17774528 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.54087   0.01072   0.84772   0.44148   4236   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Gastrula Embryo Embryo Imprecise All anatomical structures
75462 75462 SRR24682217 SRX20461656 SRS17774527 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Shield   strain:AB|dev stage:Shield|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Shield Shield Shield The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604103_1_r64400e_20220511_065818_2_E02.ccs.bam bam 2465358437.0 742181.0 P02TYR22604103 1 r64400e 20220511 065818 2 E02.ccs.bam 0:3321.78 A:703901230;C:545159399;G:572405158;T:643892650;N:0 3321       703901230 545159399 572405158 643892650 0 SRX20461656 SRS17774527 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.53343   0.00627   0.84307   0.44973   3519   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Gastrula Embryo Embryo Imprecise All anatomical structures
75463 75463 SRR24682218 SRX20461655 SRS17774526 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         50% epiboly   strain:AB|dev stage:50% epiboly|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 50% epiboly 50% epiboly 50% epiboly The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604117_1_r64400e_20220511_065818_2_E02.ccs.bam bam 2347198259.0 696031.0 P02TYR22604117 1 r64400e 20220511 065818 2 E02.ccs.bam 0:3372.26 A:663704982;C:525754765;G:550887011;T:606851501;N:0 3372       663704982 525754765 550887011 606851501 0 SRX20461655 SRS17774526 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.53029   0.00409   0.84798   0.45394   3517   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Gastrula Embryo Embryo Imprecise All anatomical structures
75464 75464 SRR24682219 SRX20461654 SRS17774525 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Dome   strain:AB|dev stage:Dome|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Dome Dome Dome The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604102_1_r64400e_20220511_065818_2_E02.ccs.bam bam 3154546886.0 890787.0 P02TYR22604102 1 r64400e 20220511 065818 2 E02.ccs.bam 0:3541.30 A:897866757;C:700790757;G:734990612;T:820898760;N:0 3541       897866757 700790757 734990612 820898760 0 SRX20461654 SRS17774525 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.49522   0.00439   0.84411   0.45054   5785   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Blastula Embryo Embryo Imprecise All anatomical structures
75465 75465 SRR24682220 SRX20461653 SRS17774524 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Oblong   strain:AB|dev stage:Oblong|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Oblong Oblong Oblong The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604100_1_r64400e_20220511_065818_2_E02.ccs.bam bam 3883927264.0 1087850.0 P02TYR22604100 1 r64400e 20220511 065818 2 E02.ccs.bam 0:3570.28 A:1097185313;C:871304396;G:915871000;T:999566555;N:0 3570       1097185313 871304396 915871000 999566555 0 SRX20461653 SRS17774524 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.50563   0.00093   0.84372   0.45982   4109   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Blastula Embryo Embryo Imprecise All anatomical structures
75466 75466 SRR24682221 SRX20461652 SRS17774523 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         1k cell   strain:AB|dev stage:1k cell|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 1k cell 1k cell 1k cell The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604099_1_r64053_20220510_083113_3_G01.ccs.bam bam 1879917938.0 693905.0 P02TYR22604099 1 r64053 20220510 083113 3 G01.ccs.bam 0:2709.19 A:532599205;C:423737589;G:447933988;T:475647156;N:0 2709       532599205 423737589 447933988 475647156 0 SRX20461652 SRS17774523 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.60112   0.00068   0.81998   0.49181   3694   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Blastula Embryo Embryo Imprecise All anatomical structures
75467 75467 SRR24682222 SRX20461651 SRS17774522 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         128 cell   strain:AB|dev stage:128 cell|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 128 cell 128 cell 128 cell The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604098_1_r64053_20220510_083113_3_G01.ccs.bam bam 2358442303.0 844527.0 P02TYR22604098 1 r64053 20220510 083113 3 G01.ccs.bam 0:2792.62 A:664024741;C:534780676;G:563369243;T:596267643;N:0 2792       664024741 534780676 563369243 596267643 0 SRX20461651 SRS17774522 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.58542   0.00059   0.82688   0.49158   2312   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Blastula Embryo Embryo Imprecise All anatomical structures
75468 75468 SRR24682223 SRX20461650 SRS17774521 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Day 6   strain:AB|dev stage:Day 6|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Day 6 Day 6 Day 6 The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604121_1_r64053_20220510_083113_4_H01.ccs.bam bam 3576691396.0 1042575.0 P02TYR22604121 1 r64053 20220510 083113 4 H01.ccs.bam 0:3430.63 A:1032009772;C:784907708;G:883573062;T:876200854;N:0 3430       1032009772 784907708 883573062 876200854 0 SRX20461650 SRS17774521 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.55138   0.00608   0.81343   0.43998   3611   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Larval Larval Embryo Imprecise All anatomical structures
75469 75469 SRR24682224 SRX20461649 SRS17774520 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         2 cell   strain:AB|dev stage:2 cell|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 2 cell 2 cell 2 cell The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604097_1_r64053_20220510_083113_3_G01.ccs.bam bam 2615775919.0 929356.0 P02TYR22604097 1 r64053 20220510 083113 3 G01.ccs.bam 0:2814.61 A:735214781;C:591950532;G:624727601;T:663883005;N:0 2814       735214781 591950532 624727601 663883005 0 SRX20461649 SRS17774520 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.58166   0.00058   0.82933   0.48648   1706   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Cleavage Embryo Embryo Imprecise All anatomical structures
75470 75470 SRR24682225 SRX20461648 SRS17774519 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Day 5   strain:AB|dev stage:Day 5|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Day 5 Day 5 Day 5 The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22614797_1_r64053_20220510_083113_4_H01.ccs.bam bam 923406733.0 413841.0 P02TYR22614797 1 r64053 20220510 083113 4 H01.ccs.bam 0:2231.31 A:257122055;C:215009385;G:229534901;T:221740392;N:0 2231       257122055 215009385 229534901 221740392 0 SRX20461648 SRS17774519 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.70962   0.00154   0.83396   0.39035   1103   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Larval Larval Embryo Imprecise All anatomical structures
75471 75471 SRR24682232 SRX20461647 SRS17774518 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Day 4   strain:AB|dev stage:Day 4|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Day 4 Day 4 Day 4 The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604118_1_r64053_20220510_083113_4_H01.ccs.bam bam 2334261139.0 804621.0 P02TYR22604118 1 r64053 20220510 083113 4 H01.ccs.bam 0:2901.07 A:674950884;C:505309669;G:540040111;T:613960475;N:0 2901       674950884 505309669 540040111 613960475 0 SRX20461647 SRS17774518 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.55416   0.00471   0.7876   0.47236   1761   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Larval Larval Embryo Imprecise All anatomical structures
75472 75472 SRR24682226 SRX20461646 SRS17774517 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Protruding mouth   strain:AB|dev stage:Protruding mouth|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Protruding mouth Protruding mouth Protruding mouth The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604116_1_r64053_20220510_083113_4_H01.ccs.bam bam 1077487821.0 468721.0 P02TYR22604116 1 r64053 20220510 083113 4 H01.ccs.bam 0:2298.78 A:311816839;C:236155861;G:251680246;T:277834875;N:0 2298       311816839 236155861 251680246 277834875 0 SRX20461646 SRS17774517 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.64634   0.00375   0.79699   0.49179   1337   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Larval Larval Embryo Imprecise All anatomical structures
75473 75473 SRR24682227 SRX20461645 SRS17774516 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Long pec   strain:AB|dev stage:Long pec|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Long pec Long pec Long pec The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604115_1_r64053_20220510_083113_4_H01.ccs.bam bam 1178984706.0 503711.0 P02TYR22604115 1 r64053 20220510 083113 4 H01.ccs.bam 0:2340.60 A:339563380;C:259007450;G:276316201;T:304097675;N:0 2340       339563380 259007450 276316201 304097675 0 SRX20461645 SRS17774516 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.62569   0.00525   0.80267   0.47146   1199   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Hatching Embryo Embryo Imprecise All anatomical structures
75474 75474 SRR24682228 SRX20461644 SRS17774515 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Prim 25   strain:AB|dev stage:Prim 25|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Prim 25 Prim 25 Prim 25 The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604113_1_r64053_20220510_083113_4_H01.ccs.bam bam 1418704698.0 658058.0 P02TYR22604113 1 r64053 20220510 083113 4 H01.ccs.bam 0:2155.90 A:417372714;C:300192249;G:323204197;T:377935538;N:0 2155       417372714 300192249 323204197 377935538 0 SRX20461644 SRS17774515 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.62867   0.0097   0.79415   0.47483   3839   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Pharyngula Embryo Embryo Imprecise All anatomical structures
75475 75475 SRR24682229 SRX20461643 SRS17774514 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Prim 15   strain:AB|dev stage:Prim 15|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Prim 15 Prim 15 Prim 15 The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604112_1_r64399e_20220512_090859_1_A02.ccs.bam bam 1383213564.0 564062.0 P02TYR22604112 1 r64399e 20220512 090859 1 A02.ccs.bam 0:2452.24 A:403982699;C:294632569;G:316412345;T:368185951;N:0 2452       403982699 294632569 316412345 368185951 0 SRX20461643 SRS17774514 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.5998   0.0069   0.79636   0.46586   2601   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Pharyngula Embryo Embryo Imprecise All anatomical structures
75476 75476 SRR24682230 SRX20461642 SRS17774513 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         Prim 5   strain:AB|dev stage:Prim 5|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: Prim 5 Prim 5 Prim 5 The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604110_1_r64399e_20220512_090859_1_A02.ccs.bam bam 1245119132.0 541632.0 P02TYR22604110 1 r64399e 20220512 090859 1 A02.ccs.bam 0:2298.83 A:367833391;C:262003404;G:283350026;T:331932311;N:0 2298       367833391 262003404 283350026 331932311 0 SRX20461642 SRS17774513 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.62578   0.00824   0.79669   0.47095   636   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Pharyngula Embryo Embryo Imprecise All anatomical structures
75477 75477 SRR24682231 SRX20461641 SRS17774512 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         20 25 Somites   strain:AB|dev stage:20 25 Somites|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 20 25 Somites 20 25 Somites 20 25 Somites The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604108_1_r64399e_20220512_090859_1_A02.ccs.bam bam 2078794793.0 725960.0 P02TYR22604108 1 r64399e 20220512 090859 1 A02.ccs.bam 0:2863.51 A:605292389;C:441948349;G:472618370;T:558935685;N:0 2863       605292389 441948349 472618370 558935685 0 SRX20461641 SRS17774512 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.55105   0.00964   0.80831   0.45443   1451   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Segmentation Embryo Embryo Imprecise All anatomical structures
75478 75478 SRR24682233 SRX20461640 SRS17774511 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         14 19 Somites   strain:AB|dev stage:14 19 Somites|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 14 19 Somites 14 19 Somites 14 19 Somites The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604106_1_r64399e_20220512_090859_1_A02.ccs.bam bam 2511998751.0 864091.0 P02TYR22604106 1 r64399e 20220512 090859 1 A02.ccs.bam 0:2907.10 A:730743897;C:535154858;G:572074928;T:674025068;N:0 2907       730743897 535154858 572074928 674025068 0 SRX20461640 SRS17774511 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.54959   0.01154   0.816   0.44689   2262   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Segmentation Embryo Embryo Imprecise All anatomical structures
75479 75479 SRR24682234 SRX20461639 SRS17774510 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         1 4 Somites   strain:AB|dev stage:1 4 Somites|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 1 4 Somites 1 4 Somites 1 4 Somites The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604105_1_r64399e_20220512_090859_1_A02.ccs.bam bam 2199775856.0 820475.0 P02TYR22604105 1 r64399e 20220512 090859 1 A02.ccs.bam 0:2681.10 A:637639661;C:475508465;G:505308978;T:581318752;N:0 2681       637639661 475508465 505308978 581318752 0 SRX20461639 SRS17774510 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.60261   0.00759   0.83583   0.49086   1389   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Segmentation Embryo Embryo Imprecise All anatomical structures
75480 75480 SRR24682235 SRX20461638 SRS17774509 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         1 cell   strain:AB|dev stage:1cell|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: 1 cell 1 cell 1 cell The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22604096_1_r64053_20220510_083113_3_G01.ccs.bam bam 2275468478.0 775186.0 P02TYR22604096 1 r64053 20220510 083113 3 G01.ccs.bam 0:2935.38 A:638155276;C:516035520;G:543447739;T:577829943;N:0 2935       638155276 516035520 543447739 577829943 0 SRX20461638 SRS17774509 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.56682   0.00066   0.82994   0.48167   1465   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Zygote Embryo Embryo Imprecise All anatomical structures
75481 75481 SRR24682236 SRX20461637 SRS17774508 SRP438861 PRJNA973729 Danio rerio strain:AB Raw sequence reads PRJNA973729 Other Full length transcriptome at 21 developmental stages during embryonic development of Zebrafish.         unfertilized   strain:AB|dev stage:unfertilized|sex:not determined|tissue:embryo|BioSampleModel:Model organism or animal                 full length transcriptome of Danio rerio: unfertilized unfertilized unfertilized The RNA of each sample was reversely transcribed into cDNA using a SMARTer PCR cDNA Synthesis Kit. Prime STAR GXL DNA Polymerase Kit was used to PCR amplify the full length cDNA. The SMARTbell libraries were constructed with the SMARTbell template prep kit. Conduct damage repair and end repair. The stem loop sequencing adaptors were linked to both ends of the DNA fragment and used to remove the failed fragment using exonuclease.     FL-cDNA TRANSCRIPTOMIC cDNA SINGLE PACBIO_SMRT Sequel   SRP438861   assembly:GRCz11 P02TYR22614794_1_r64053_20220510_083113_3_G01.ccs.bam bam 2243456468.0 884312.0 P02TYR22614794 1 r64053 20220510 083113 3 G01.ccs.bam 0:2536.95 A:619660008;C:518127052;G:544711614;T:560957794;N:0 2536       619660008 518127052 544711614 560957794 0 SRX20461637 SRS17774508 SRA1641718 Institute of hydrobiology, chinese academy od sciences|Aquatic Biodiversity and Resource Conservation Res Institute of hydrobiology, chinese academy od sciences 1 0.61172   0.00053   0.84859   0.47684   2357   T   long read pacbio pacbio_modern full_length cdna_unspecified smarter bulk unknown unknown   China 2023-05-21 Zygote Embryo Embryo Imprecise All anatomical structures

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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");;