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20 rows where devstage_curation = "Zygote" and tissue_curation = "Multi-tissue"

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experiment.library_selection 2

experiment.library_layout 2

tissue_curation_coarse 1

tissue_curation 1

  • Multi-tissue · 20 ✖

technology 1

experiment.platform 1

experiment.library_strategy 1

experiment.library_source 1

devstage_curation_coarse 1

devstage_curation 1

  • Zygote · 20 ✖
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
175 175 DRR084197 DRX078028 DRS086522 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     natural paring early sample zebrafish ovary isolated from adult fish natural paring oocyte maturation. [RNAseq replicate2] SAMD00073604   sample name:M 4th|replicate:biological replicate 2                 Illumina HiSeq 2500 sequencing of SAMD00073604 DRX078028 zebrafish ovary isolated from adult fish natural paring oocyte maturation. [RNAseq replicate2] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073604       1389837888.0 38606608.0 DRR084197 0:36 A:320671418;C:336948866;G:347550258;T:381720581;N:2946765 36       320671418 336948866 347550258 381720581 2946765 DRX078028 DRS086522 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.89763   0.02235   0.76445   0.46381   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Zygote Embryo Multi-tissue Multi-system
181 181 DRR084191 DRX078022 DRS086516 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     natural paring early sample zebrafish ovary isolated from adult fish natural paring oocyte maturation. [RNAseq replicate1] SAMD00073598   sample name:M|replicate:biological replicate 1                 Illumina HiSeq 2500 sequencing of SAMD00073598 DRX078022 zebrafish ovary isolated from adult fish natural paring oocyte maturation. [RNAseq replicate1] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073598       1050981012.0 29193917.0 DRR084191 0:36 A:241048832;C:256186268;G:260277071;T:293299597;N:169244 36       241048832 256186268 260277071 293299597 169244 DRX078022 DRS086516 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.9088   0.02369   0.7624   0.47998   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Zygote Embryo Multi-tissue Multi-system
10188 10188 ERR600685 ERX557514 ERS460539 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537630 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:42:28Z|External Id:SAMEA2537630|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:42:28Z|INSDC status:public|Submitter Id:stI oocytes TC9 WT F sc 1951842|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TCGAAGTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC9 WT F sc 1951842|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#9 10325318 Illumina sequencing of library 10325318 constructed from sample accession ERS460539 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TCGAAGTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#9.cram cram 2109545984.0 16480828.0 SC RUN 13129 8#9 0:53 1:75 A:539694535;C:346663352;G:388843341;T:829045236;N:5299520 53 75     539694535 346663352 388843341 829045236 5299520 ERX557514 ERS460539 ERA358077 SC Wellcome Sanger Institute 2 0.39712 0.80906 0.2298 0.0288 0.97575 0.82292 0.20258 0.50014 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10189 10189 ERR600684 ERX557513 ERS460538 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537629 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:41:18Z|External Id:SAMEA2537629|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:41:18Z|INSDC status:public|Submitter Id:stI oocytes TC8 buc 4 sc 1951841|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TTCCATTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC8 buc 4 sc 1951841|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#8 10325317 Illumina sequencing of library 10325317 constructed from sample accession ERS460538 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TTCCATTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#8.cram cram 1995224064.0 15587688.0 SC RUN 13129 8#8 0:53 1:75 A:508909383;C:332355977;G:373835062;T:775089830;N:5033812 53 75     508909383 332355977 373835062 775089830 5033812 ERX557513 ERS460538 ERA358077 SC Wellcome Sanger Institute 2 0.31242 0.8426 0.16835 0.02824 0.96921 0.81606 0.27677 0.49882 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10190 10190 ERR600683 ERX557512 ERS460537 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537628 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:57:23Z|External Id:SAMEA2537628|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:57:23Z|INSDC status:public|Submitter Id:stI oocytes TC7 buc 3 sc 1951840|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TAGTCTTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC7 buc 3 sc 1951840|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#7 10325316 Illumina sequencing of library 10325316 constructed from sample accession ERS460537 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TAGTCTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#7.cram cram 1335316864.0 10432163.0 SC RUN 13129 8#7 0:53 1:75 A:318582120;C:238156133;G:258642941;T:516548945;N:3386725 53 75     318582120 238156133 258642941 516548945 3386725 ERX557512 ERS460537 ERA358077 SC Wellcome Sanger Institute 2 0.32517 0.89235 0.16229 0.04485 0.97634 0.90057 0.32073 0.47925 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10191 10191 ERR600682 ERX557511 ERS460536 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537627 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:42:28Z|External Id:SAMEA2537627|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:42:28Z|INSDC status:public|Submitter Id:stI oocytes TC6 buc 2 sc 1951839|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TGTGGTTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC6 buc 2 sc 1951839|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#6 10325315 Illumina sequencing of library 10325315 constructed from sample accession ERS460536 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TGTGGTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#6.cram cram 2044001792.0 15968764.0 SC RUN 13129 8#6 0:53 1:75 A:525134102;C:334554692;G:372135205;T:806953076;N:5224717 53 75     525134102 334554692 372135205 806953076 5224717 ERX557511 ERS460536 ERA358077 SC Wellcome Sanger Institute 2 0.32466 0.83888 0.17696 0.03057 0.97451 0.82938 0.2392 0.48605 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10192 10192 ERR600681 ERX557510 ERS460535 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537626 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:41:18Z|External Id:SAMEA2537626|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:41:18Z|INSDC status:public|Submitter Id:stI oocytes TC5 buc 1 sc 1951838|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TCCTCAATAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC5 buc 1 sc 1951838|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#5 10325314 Illumina sequencing of library 10325314 constructed from sample accession ERS460535 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TCCTCAAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#5.cram cram 2936817024.0 22943883.0 SC RUN 13129 8#5 0:53 1:75 A:708314449;C:473731341;G:531306146;T:1215982569;N:7482519 53 75     708314449 473731341 531306146 1215982569 7482519 ERX557510 ERS460535 ERA358077 SC Wellcome Sanger Institute 2 0.38759 0.88578 0.22255 0.03034 0.9707 0.80984 0.2075 0.47267 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10193 10193 ERR600680 ERX557509 ERS460534 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537625 SC ArrayExpress Genotype:Tgbuc:del80|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:57:23Z|External Id:SAMEA2537625|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:57:23Z|INSDC status:public|Submitter Id:stI oocytes TC4 Tg 1 sc 1951837|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TACAGGATAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC4 Tg 1 sc 1951837|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#4 10325313 Illumina sequencing of library 10325313 constructed from sample accession ERS460534 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TACAGGAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#4.cram cram 2384869248.0 18631791.0 SC RUN 13129 8#4 0:53 1:75 A:579389373;C:378753292;G:429075103;T:991563565;N:6087915 53 75     579389373 378753292 429075103 991563565 6087915 ERX557509 ERS460534 ERA358077 SC Wellcome Sanger Institute 2 0.48038 0.84929 0.28951 0.03671 0.97788 0.81249 0.13153 0.4899 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10194 10194 ERR600679 ERX557508 ERS460533 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537624 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:42:28Z|External Id:SAMEA2537624|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:42:28Z|INSDC status:public|Submitter Id:stI oocytes TC3 WT 3 sc 1951836|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TAGTGACTAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC3 WT 3 sc 1951836|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#3 10325312 Illumina sequencing of library 10325312 constructed from sample accession ERS460533 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TAGTGACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#3.cram cram 2105031424.0 16445558.0 SC RUN 13129 8#3 0:53 1:75 A:508334707;C:332423893;G:374815782;T:884154321;N:5302721 53 75     508334707 332423893 374815782 884154321 5302721 ERX557508 ERS460533 ERA358077 SC Wellcome Sanger Institute 2 0.50684 0.84751 0.30664 0.04222 0.97853 0.81343 0.11336 0.49639 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10195 10195 ERR600678 ERX557507 ERS460532 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537623 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:41:18Z|External Id:SAMEA2537623|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:41:18Z|INSDC status:public|Submitter Id:stI oocytes TC2 WT 2 sc 1951835|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TTCCTGCTAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC2 WT 2 sc 1951835|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#2 10325311 Illumina sequencing of library 10325311 constructed from sample accession ERS460532 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TTCCTGCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#2.cram cram 1616469504.0 12628668.0 SC RUN 13129 8#2 0:53 1:75 A:415492342;C:254209235;G:288719848;T:653979238;N:4068841 53 75     415492342 254209235 288719848 653979238 4068841 ERX557507 ERS460532 ERA358077 SC Wellcome Sanger Institute 2 0.44661 0.81908 0.25181 0.0449 0.96469 0.80306 0.22578 0.49499 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10196 10196 ERR600677 ERX557506 ERS460531 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537622 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:57:22Z|External Id:SAMEA2537622|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:57:22Z|INSDC status:public|Submitter Id:stI oocytes TC1 WT 1 sc 1951834|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TGCGATCTAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC1 WT 1 sc 1951834|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#1 10325310 Illumina sequencing of library 10325310 constructed from sample accession ERS460531 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TGCGATCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#1.cram cram 1741512832.0 13605569.0 SC RUN 13129 8#1 0:53 1:75 A:460247357;C:265029516;G:295203994;T:716636989;N:4394976 53 75     460247357 265029516 295203994 716636989 4394976 ERX557506 ERS460531 ERA358077 SC Wellcome Sanger Institute 2 0.36591 0.79177 0.21838 0.03785 0.97569 0.81095 0.16098 0.49496 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10197 10197 ERR596433 ERX553396 ERS462797 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547987 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:41:51Z|External Id:SAMEA2547987|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:41:51Z|INSDC status:public|Submitter Id:stI oocytes Fraction9 WT F sc 1971686|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction9 WT F sc 1971686|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#9 10347698 Illumina sequencing of library 10347698 constructed from sample accession ERS462797 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence GATCAG. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#9.cram cram 552103200.0 1840344.0 SC RUN 13147 1#9 0:150 1:150 A:124691243;C:154385942;G:155440122;T:117585893;N:0 150 150     124691243 154385942 155440122 117585893 0 ERX553396 ERS462797 ERA356861 SC Wellcome Sanger Institute 2 0.97349 0.97184 0.25562 0.26367 0.73754 0.76534 0.68526 0.65497 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10198 10198 ERR596432 ERX553395 ERS462796 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547986 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:58:35Z|External Id:SAMEA2547986|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:58:35Z|INSDC status:public|Submitter Id:stI oocytes Fraction8 buc 4 sc 1971685|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction8 buc 4 sc 1971685|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#8 10347697 Illumina sequencing of library 10347697 constructed from sample accession ERS462796 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence ACTTGA. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#8.cram cram 625194300.0 2083981.0 SC RUN 13147 1#8 0:150 1:150 A:145587865;C:170554648;G:171453968;T:137597813;N:6 150 150     145587865 170554648 171453968 137597813 6 ERX553395 ERS462796 ERA356861 SC Wellcome Sanger Institute 2 0.97066 0.96788 0.23219 0.23823 0.7205 0.75623 0.61734 0.60233 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10199 10199 ERR596431 ERX553394 ERS462795 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547985 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:42:18Z|External Id:SAMEA2547985|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:42:18Z|INSDC status:public|Submitter Id:stI oocytes Fraction7 buc 3 sc 1971684|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction7 buc 3 sc 1971684|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#7 10347696 Illumina sequencing of library 10347696 constructed from sample accession ERS462795 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence CAGATC. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#7.cram cram 498083400.0 1660278.0 SC RUN 13147 1#7 0:150 1:150 A:127449944;C:127409242;G:133869886;T:109354327;N:1 150 150     127449944 127409242 133869886 109354327 1 ERX553394 ERS462795 ERA356861 SC Wellcome Sanger Institute 2 0.94952 0.95502 0.14913 0.14846 0.73807 0.74572 0.54621 0.54335 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10200 10200 ERR596430 ERX553393 ERS462794 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547984 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:41:51Z|External Id:SAMEA2547984|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:41:51Z|INSDC status:public|Submitter Id:stI oocytes Fraction6 buc 2 sc 1971683|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction6 buc 2 sc 1971683|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#6 10347695 Illumina sequencing of library 10347695 constructed from sample accession ERS462794 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence GCCAAT. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#6.cram cram 433626600.0 1445422.0 SC RUN 13147 1#6 0:150 1:150 A:113030099;C:110060861;G:116695113;T:93840526;N:1 150 150     113030099 110060861 116695113 93840526 1 ERX553393 ERS462794 ERA356861 SC Wellcome Sanger Institute 2 0.94512 0.95418 0.13754 0.13509 0.76274 0.77542 0.54752 0.54127 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10201 10201 ERR596429 ERX553392 ERS462793 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547983 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:58:34Z|External Id:SAMEA2547983|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:58:34Z|INSDC status:public|Submitter Id:stI oocytes Fraction5 buc 1 sc 1971682|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction5 buc 1 sc 1971682|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#5 10347694 Illumina sequencing of library 10347694 constructed from sample accession ERS462793 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence ACAGTG. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#5.cram cram 670533600.0 2235112.0 SC RUN 13147 1#5 0:150 1:150 A:152057213;C:184952145;G:191337018;T:142187224;N:0 150 150     152057213 184952145 191337018 142187224 0 ERX553392 ERS462793 ERA356861 SC Wellcome Sanger Institute 2 0.95987 0.95954 0.20495 0.20606 0.73726 0.7529 0.61328 0.61986 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10202 10202 ERR596428 ERX553391 ERS462792 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547982 SC ArrayExpress Genotype:Tgbuc:del80|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:42:18Z|External Id:SAMEA2547982|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:42:18Z|INSDC status:public|Submitter Id:stI oocytes Fraction4 Tg 1 sc 1971681|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction4 Tg 1 sc 1971681|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#4 10347693 Illumina sequencing of library 10347693 constructed from sample accession ERS462792 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence TGACCA. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#4.cram cram 524202300.0 1747341.0 SC RUN 13147 1#4 0:150 1:150 A:117529161;C:147865152;G:153007969;T:105800018;N:0 150 150     117529161 147865152 153007969 105800018 0 ERX553391 ERS462792 ERA356861 SC Wellcome Sanger Institute 2 0.95955 0.96175 0.21001 0.20834 0.76445 0.78281 0.70435 0.68975 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10203 10203 ERR596427 ERX553390 ERS462791 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547981 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:41:51Z|External Id:SAMEA2547981|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:41:51Z|INSDC status:public|Submitter Id:stI oocytes Fraction3 WT 3 sc 1971680|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction3 WT 3 sc 1971680|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#3 10347692 Illumina sequencing of library 10347692 constructed from sample accession ERS462791 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence TTAGGC. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#3.cram cram 1142124300.0 3807081.0 SC RUN 13147 1#3 0:150 1:150 A:239327535;C:334933829;G:339423780;T:228439155;N:1 150 150     239327535 334933829 339423780 228439155 1 ERX553390 ERS462791 ERA356861 SC Wellcome Sanger Institute 2 0.98041 0.98099 0.28225 0.28585 0.80273 0.81012 0.81256 0.81436 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10204 10204 ERR596426 ERX553389 ERS462790 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547980 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:58:34Z|External Id:SAMEA2547980|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:58:34Z|INSDC status:public|Submitter Id:stI oocytes Fraction2 WT 2 sc 1971679|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction2 WT 2 sc 1971679|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#2 10347691 Illumina sequencing of library 10347691 constructed from sample accession ERS462790 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence CGATGT. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#2.cram cram 714969600.0 2383232.0 SC RUN 13147 1#2 0:150 1:150 A:151578902;C:207835645;G:217545196;T:138009856;N:1 150 150     151578902 207835645 217545196 138009856 1 ERX553389 ERS462790 ERA356861 SC Wellcome Sanger Institute 2 0.97925 0.981 0.2548 0.25496 0.77447 0.78462 0.77035 0.76498 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10205 10205 ERR596425 ERX553388 ERS462789 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547979 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:42:18Z|External Id:SAMEA2547979|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:42:18Z|INSDC status:public|Submitter Id:stI oocytes Fraction1 WT 1 sc 1971678|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction1 WT 1 sc 1971678|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#1 10347690 Illumina sequencing of library 10347690 constructed from sample accession ERS462789 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence ATCACG. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#1.cram cram 567682800.0 1892276.0 SC RUN 13147 1#1 0:150 1:150 A:133087363;C:153887726;G:158264603;T:122443107;N:1 150 150     133087363 153887726 158264603 122443107 1 ERX553388 ERS462789 ERA356861 SC Wellcome Sanger Institute 2 0.94832 0.94927 0.19305 0.19445 0.72421 0.73551 0.59172 0.60783 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system

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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");;