metadata: run_metadata: 25 rows where experiment.library_layout = "SINGLE", experiment.library_selection = "Oligo-dT" and tissue_curation

25 rows where experiment.library_layout = "SINGLE", experiment.library_selection = "Oligo-dT" and tissue_curation_coarse = "Reproductive System"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	sample.description	sample.title	sample.alias	sample.attributes	experiment.title	experiment.alias	experiment.library_name	experiment.design_description	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.study_ref	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.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.nofeature_rate.mate1	seqdetective.sparsity.mate1	seqdetective.pos_strand_rate.mate1	seqdetective.readlen.mate1	seqdetective.judgement.mate1	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
29259	29259	SRR27336917	SRX23013778	SRS19977075	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalKO gonads 31dpf rep2	miR214 PaternalKO gonads 31dpf rep2	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalKO\|biological replicate:rep2\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A11	miR214 PaternalKO gonads 31dpf rep2	miR214 PaternalKO gonads 31dpf rep2	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalKO_gonads_31dpf_rep2.fastq.gz	fastq	2327996832.0	27714248.0	miR214 PaternalKO gonads 31dpf rep2.fastq.gz	0:84	A:602135965;C:552786494;G:537368428;T:635697339;N:8606	84		602135965	552786494	537368428	635697339	8606	SRX23013778	SRS19977075	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95369	0.06146	0.69203	0.47259	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29260	29260	SRR27336918	SRX23013777	SRS19977074	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalKO gonads 31dpf rep1	miR214 PaternalKO gonads 31dpf rep1	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalKO\|biological replicate:rep1\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A10	miR214 PaternalKO gonads 31dpf rep1	miR214 PaternalKO gonads 31dpf rep1	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalKO_gonads_31dpf_rep1.fastq.gz	fastq	2500978452.0	29773553.0	miR214 PaternalKO gonads 31dpf rep1.fastq.gz	0:84	A:646162933;C:593855971;G:578265372;T:682684551;N:9625	84		646162933	593855971	578265372	682684551	9625	SRX23013777	SRS19977074	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95147	0.05972	0.69071	0.47043	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29261	29261	SRR27336919	SRX23013776	SRS19977073	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalHET gonads 31dpf rep4	miR214 maternalHET gonads 31dpf rep4	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalHET\|biological replicate:rep4\|number of gonads:7 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A9	miR214 maternalHET gonads 31dpf rep4	miR214 maternalHET gonads 31dpf rep4	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalHET_gonads_31dpf_rep4.fastq.gz	fastq	2365480908.0	28160487.0	miR214 maternalHET gonads 31dpf rep4.fastq.gz	0:84	A:613121312;C:560582165;G:549338096;T:642429834;N:9501	84		613121312	560582165	549338096	642429834	9501	SRX23013776	SRS19977073	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95304	0.05342	0.7108	0.46822	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29262	29262	SRR27336920	SRX23013775	SRS19977072	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalHET gonads 31dpf rep3	miR214 maternalHET gonads 31dpf rep3	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalHET\|biological replicate:rep3\|number of gonads:7 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A8	miR214 maternalHET gonads 31dpf rep3	miR214 maternalHET gonads 31dpf rep3	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalHET_gonads_31dpf_rep3.fastq.gz	fastq	2537794644.0	30211841.0	miR214 maternalHET gonads 31dpf rep3.fastq.gz	0:84	A:658687178;C:600742464;G:585643169;T:692712057;N:9776	84		658687178	600742464	585643169	692712057	9776	SRX23013775	SRS19977072	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95177	0.06701	0.68195	0.47393	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29263	29263	SRR27336921	SRX23013774	SRS19977071	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalHET gonads 31dpf rep2	miR214 maternalHET gonads 31dpf rep2	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalHET\|biological replicate:rep2\|number of gonads:7 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A7	miR214 maternalHET gonads 31dpf rep2	miR214 maternalHET gonads 31dpf rep2	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalHET_gonads_31dpf_rep2.fastq.gz	fastq	2417384424.0	28778386.0	miR214 maternalHET gonads 31dpf rep2.fastq.gz	0:84	A:625935186;C:574179061;G:560498085;T:656762980;N:9112	84		625935186	574179061	560498085	656762980	9112	SRX23013774	SRS19977071	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95259	0.05852	0.6981	0.47435	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29264	29264	SRR27336922	SRX23013773	SRS19977070	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalHET gonads 31dpf rep1	miR214 maternalHET gonads 31dpf rep1	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalHET\|biological replicate:rep1\|number of gonads:7 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A6	miR214 maternalHET gonads 31dpf rep1	miR214 maternalHET gonads 31dpf rep1	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalHET_gonads_31dpf_rep1.fastq.gz	fastq	2330886180.0	27748645.0	miR214 maternalHET gonads 31dpf rep1.fastq.gz	0:84	A:601589571;C:554105326;G:542789267;T:632393158;N:8858	84		601589571	554105326	542789267	632393158	8858	SRX23013773	SRS19977070	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95338	0.05239	0.71366	0.47291	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29265	29265	SRR27336923	SRX23013772	SRS19977069	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalKO gonads 31dpf rep4	miR214 maternalKO gonads 31dpf rep4	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalKO\|biological replicate:rep4\|number of gonads:8 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A5	miR214 maternalKO gonads 31dpf rep4	miR214 maternalKO gonads 31dpf rep4	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalKO_gonads_31dpf_rep4.fastq.gz	fastq	2340233784.0	27859926.0	miR214 maternalKO gonads 31dpf rep4.fastq.gz	0:84	A:606735187;C:553647808;G:539865459;T:639976430;N:8900	84		606735187	553647808	539865459	639976430	8900	SRX23013772	SRS19977069	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95406	0.06415	0.68225	0.47695	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29266	29266	SRR27336924	SRX23013771	SRS19977068	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalKO gonads 31dpf rep3	miR214 maternalKO gonads 31dpf rep3	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalKO\|biological replicate:rep3\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A4	miR214 maternalKO gonads 31dpf rep3	miR214 maternalKO gonads 31dpf rep3	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalKO_gonads_31dpf_rep3.fastq.gz	fastq	2058505512.0	24506018.0	miR214 maternalKO gonads 31dpf rep3.fastq.gz	0:84	A:537425814;C:485664494;G:471526682;T:563881213;N:7309	84		537425814	485664494	471526682	563881213	7309	SRX23013771	SRS19977068	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95296	0.06728	0.69266	0.47627	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29267	29267	SRR27336925	SRX23013770	SRS19977067	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalHET gonads 31dpf rep4	miR214 PaternalHET gonads 31dpf rep4	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalHET\|biological replicate:rep4\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A17	miR214 PaternalHET gonads 31dpf rep4	miR214 PaternalHET gonads 31dpf rep4	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalHET_gonads_31dpf_rep4.fastq.gz	fastq	3001613328.0	35733492.0	miR214 PaternalHET gonads 31dpf rep4.fastq.gz	0:84	A:778860501;C:711155422;G:688784969;T:822801157;N:11279	84		778860501	711155422	688784969	822801157	11279	SRX23013770	SRS19977067	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95361	0.05653	0.7051	0.48382	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29268	29268	SRR27336926	SRX23013769	SRS19977066	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalHET gonads 31dpf rep3	miR214 PaternalHET gonads 31dpf rep3	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalHET\|biological replicate:rep3\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A16	miR214 PaternalHET gonads 31dpf rep3	miR214 PaternalHET gonads 31dpf rep3	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalHET_gonads_31dpf_rep3.fastq.gz	fastq	3053630664.0	36352746.0	miR214 PaternalHET gonads 31dpf rep3.fastq.gz	0:84	A:785219727;C:726431662;G:713454025;T:828513556;N:11694	84		785219727	726431662	713454025	828513556	11694	SRX23013769	SRS19977066	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95309	0.04588	0.71997	0.46447	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29269	29269	SRR27336927	SRX23013768	SRS19977065	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalHET gonads 31dpf rep2	miR214 PaternalHET gonads 31dpf rep2	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalHET\|biological replicate:rep2\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A15	miR214 PaternalHET gonads 31dpf rep2	miR214 PaternalHET gonads 31dpf rep2	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalHET_gonads_31dpf_rep2.fastq.gz	fastq	3063695208.0	36472562.0	miR214 PaternalHET gonads 31dpf rep2.fastq.gz	0:84	A:784924646;C:728941687;G:720847462;T:828969510;N:11903	84		784924646	728941687	720847462	828969510	11903	SRX23013768	SRS19977065	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95413	0.04739	0.71936	0.4704	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29270	29270	SRR27336928	SRX23013767	SRS19977064	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalHET gonads 31dpf rep1	miR214 PaternalHET gonads 31dpf rep1	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalHET\|biological replicate:rep1\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:heterozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A14	miR214 PaternalHET gonads 31dpf rep1	miR214 PaternalHET gonads 31dpf rep1	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalHET_gonads_31dpf_rep1.fastq.gz	fastq	2699154024.0	32132786.0	miR214 PaternalHET gonads 31dpf rep1.fastq.gz	0:84	A:694174797;C:642049572;G:627991562;T:734927762;N:10331	84		694174797	642049572	627991562	734927762	10331	SRX23013767	SRS19977064	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95518	0.05525	0.70285	0.47695	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29271	29271	SRR27336929	SRX23013766	SRS19977063	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalKO gonads 31dpf rep4	miR214 PaternalKO gonads 31dpf rep4	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalKO\|biological replicate:rep4\|number of gonads:8 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A13	miR214 PaternalKO gonads 31dpf rep4	miR214 PaternalKO gonads 31dpf rep4	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalKO_gonads_31dpf_rep4.fastq.gz	fastq	2514248016.0	29931524.0	miR214 PaternalKO gonads 31dpf rep4.fastq.gz	0:84	A:648908956;C:598837726;G:580002743;T:686488678;N:9913	84		648908956	598837726	580002743	686488678	9913	SRX23013766	SRS19977063	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.94978	0.06951	0.67896	0.47686	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29272	29272	SRR27336930	SRX23013765	SRS19977062	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 PaternalKO gonads 31dpf rep3	miR214 PaternalKO gonads 31dpf rep3	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:PaternalKO\|biological replicate:rep3\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a heterozygous female crossed to a homozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A12	miR214 PaternalKO gonads 31dpf rep3	miR214 PaternalKO gonads 31dpf rep3	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_PaternalKO_gonads_31dpf_rep3.fastq.gz	fastq	2499529200.0	29756300.0	miR214 PaternalKO gonads 31dpf rep3.fastq.gz	0:84	A:642490769;C:597403823;G:580565141;T:679060154;N:9313	84		642490769	597403823	580565141	679060154	9313	SRX23013765	SRS19977062	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95284	0.05602	0.70289	0.47154	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29273	29273	SRR27336931	SRX23013764	SRS19977061	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalKO gonads 31dpf rep2	miR214 maternalKO gonads 31dpf rep2	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalKO\|biological replicate:rep2\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A3	miR214 maternalKO gonads 31dpf rep2	miR214 maternalKO gonads 31dpf rep2	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalKO_gonads_31dpf_rep2.fastq.gz	fastq	2529742404.0	30115981.0	miR214 maternalKO gonads 31dpf rep2.fastq.gz	0:84	A:652091166;C:600932059;G:589100617;T:687608862;N:9700	84		652091166	600932059	589100617	687608862	9700	SRX23013764	SRS19977061	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95498	0.05524	0.70366	0.47319	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29274	29274	SRR27336932	SRX23013763	SRS19977060	SRP479907	PRJNA1056454	miR214 regulates sex determination through gsdf in zebrafish	PRJNA1056454	Other	Sex determination is a variable and complex mechanism yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it we can provide a piece of the puzzle which once again highlights the complexity and flexibility of sex determination.	CrisprCas9 generated using 2 sgRNAs >F3 crossed toTgvasa:eGFP	miR214 maternalKO gonads 31dpf rep1	miR214 maternalKO gonads 31dpf rep1	strain:mz 06de tgvasa:eGFP\|isolate:not applicable\|breed:TUE\|cultivar:not applicable\|ecotype:not applicable\|age:27 dpf\|dev stage:27 dpf\|sex:not applicable\|tissue:gonads\|parental ko:maternalKO\|biological replicate:rep1\|number of gonads:9 gonads\|birth date:21.09.2018\|collection date:not applicable\|genotype:homozygous mutation for miR 214 from a homozygous female crossed to a heterozygous male\|geo loc name:not applicable\|growth protocol:standard\|phenotype:n1\|sample type:tissue\|BioSampleModel:Model organism or animal	= xlfn.CONCAT"mrna sequencing of zebrafish: " A2	miR214 maternalKO gonads 31dpf rep1	miR214 maternalKO gonads 31dpf rep1	NGS library prep was performed with Illumina's TruSeq stranded mRNA LT Sample Prep Kit following Illuminas standard protocol Part # 15031047 Rev E. Libraries were prepared with a starting amount of 193 ng and amplified in 13 PCR cycles Libraries were profiled in a DNA 1000 Chip on a 2100 Bioanalyzer Agilent technologies and quantified using the Qubit dsDNA HS Assay Kit in a Qubit 2 0 Fluorometer Life technologies. All 16 samples were pooled in equimolar ratio and sequenced on 1 NextSeq 500 Highoutput FC SR for 1 x 84 cycles plus 7 cycles for the index read.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP479907		miR214_maternalKO_gonads_31dpf_rep1.fastq.gz	fastq	2310878136.0	27510454.0	miR214 maternalKO gonads 31dpf rep1.fastq.gz	0:84	A:598541924;C:547875391;G:533137786;T:631314274;N:8761	84		598541924	547875391	533137786	631314274	8761	SRX23013763	SRS19977060	SRA1775014	Rene Ketting group\|Ketting Lab	Rene Ketting group	1	0.95279	0.06446	0.68757	0.4758	84	B	usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	Germany	2023-12-24	Larval	Larval	Gonad	Reproductive System
29720	29720	SRR27485665	SRX23156884	SRS20107305	SRP482074	PRJNA1061456	tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development	PRJNA1061456	Other				ovary R3	strain:TLAB fish\|isolate:NA\|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin\|cultivar:NA\|ecotype:NA\|dev stage:adult\|collection date:2022\|geo loc name:Austria\|sex:female\|tissue:ovary\|replicate:3\|BioSampleModel:Model organism or animal	mRNA seq of zebrafish: ovary rep4	EV06008	EV06008	RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP482074		EV06008.R1.fastq.gz	fastq	585955025.0	7769646.0	EV06008.R1.fastq.gz	0:75.42	A:167210227;C:106735220;G:128095616;T:183896888;N:17074	75		167210227	106735220	128095616	183896888	17074	SRX23156884	SRS20107305	SRA1783314	Medical University of Vienna\|Cell and Developmental Biology	Medical University of Vienna	1	0.85544	0.05096	0.78441	0.53007	76	B	usable mapping rate	illumina	nextseq	3prime	poly_a	lexogen	bulk	unknown	unknown	Austria	2024-01-11	Adult	Adult	Gonad	Reproductive System
29731	29731	SRR27485676	SRX23156873	SRS20107294	SRP482074	PRJNA1061456	tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development	PRJNA1061456	Other				ovary R2	strain:TLAB fish\|isolate:NA\|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin\|cultivar:NA\|ecotype:NA\|dev stage:adult\|collection date:2022\|geo loc name:Austria\|sex:female\|tissue:ovary\|replicate:2\|BioSampleModel:Model organism or animal	mRNA seq of zebrafish: ovary rep4	EV06001	EV06001	RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP482074		EV06001.R1.fastq.gz	fastq	685280356.0	9098789.0	EV06001.R1.fastq.gz	0:75.32	A:194596366;C:122550539;G:153504013;T:214558450;N:70988	75		194596366	122550539	153504013	214558450	70988	SRX23156873	SRS20107294	SRA1783314	Medical University of Vienna\|Cell and Developmental Biology	Medical University of Vienna	1	0.8304	0.04498	0.80166	0.5028	74	B	usable mapping rate	illumina	nextseq	3prime	poly_a	lexogen	bulk	unknown	unknown	Austria	2024-01-11	Adult	Adult	Gonad	Reproductive System
29738	29738	SRR27477298	SRX23148649	SRS20099367	SRP482074	PRJNA1061456	tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development	PRJNA1061456	Other				ovary R4	strain:TLAB fish\|isolate:NA\|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin\|cultivar:NA\|ecotype:NA\|dev stage:adult\|collection date:2022\|geo loc name:Austria\|sex:female\|tissue:ovary\|replicate:4\|BioSampleModel:Model organism or animal	mRNA seq of zebrafish: ovary rep4	EV09001	EV09001	RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP482074		EV09001.R1.fastq.gz	fastq	456295310.0	6058854.0	EV09001.R1.fastq.gz	0:75.31	A:135579999;C:83364677;G:101608151;T:135700843;N:41640	75		135579999	83364677	101608151	135700843	41640	SRX23148649	SRS20099367	SRA1782413	Medical University of Vienna\|Cell and Developmental Biology	Medical University of Vienna	1	0.85088	0.05876	0.7791	0.50948	75	B	usable mapping rate	illumina	nextseq	3prime	poly_a	lexogen	bulk	unknown	unknown	Austria	2024-01-10	Adult	Adult	Gonad	Reproductive System
70364	70364	SRR21073877	SRX17088847	SRS14371197	SRP388936	PRJNA849909	Danio rerio strain:AB Raw sequence reads	PRJNA849909	Whole Genome Sequencing	normal ovary of zebrafish			MT 6	strain:AB\|age:4 mpf of bmp4 deficient fish 3\|BioSampleModel:Model organism or animal	RNAseq of follicle	s128	s128	normal RNA Seq of ovary	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP388936		MT6.fq.gz	fastq	3497983350.0	23319889.0	MT6.fq.gz	0:0 1:150	A:925962113;C:824839459;G:828143623;T:919023343;N:14812	0	150	925962113	824839459	828143623	919023343	14812	SRX17088847	SRS14371197	SRA1476176	University of Macau\|Faculty of Health Sciences	University of Macau	1	0.94049	0.02767	0.72734	0.48914	150	B	usable mapping rate	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2022-08-16	Adult	Adult	Gonad	Reproductive System
70365	70365	SRR21073878	SRX17088846	SRS14371196	SRP388936	PRJNA849909	Danio rerio strain:AB Raw sequence reads	PRJNA849909	Whole Genome Sequencing	normal ovary of zebrafish			MT 5	strain:AB\|age:8 mpf of bmp4 deficient fish 2\|BioSampleModel:Model organism or animal	RNAseq of follicle	s127	s127	normal RNA Seq of ovary	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP388936		MT5.fq.gz	fastq	3386696550.0	22577977.0	MT5.fq.gz	0:0 1:150	A:912598403;C:783846328;G:783277440;T:906957617;N:16762	0	150	912598403	783846328	783277440	906957617	16762	SRX17088846	SRS14371196	SRA1476176	University of Macau\|Faculty of Health Sciences	University of Macau	1	0.9431	0.0445	0.71246	0.50398	150	B	usable mapping rate	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2022-08-16	Adult	Adult	Gonad	Reproductive System
70366	70366	SRR21073879	SRX17088845	SRS14371195	SRP388936	PRJNA849909	Danio rerio strain:AB Raw sequence reads	PRJNA849909	Whole Genome Sequencing	normal ovary of zebrafish			MT 4	strain:AB\|age:8 mpf of bmp4 deficient fish 1\|BioSampleModel:Model organism or animal	RNAseq of follicle	s126	s126	normal RNA Seq of ovary	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP388936	loader:fastq load.py	._MT_4_2.fq MT_4_2.fq	fastq fastq	1888773150.0	12591821.0	MT4.fq.tar.gz	0:150	A:511378286;C:435985420;G:435316617;T:506079213;N:13614	150		511378286	435985420	435316617	506079213	13614	SRX17088845	SRS14371195	SRA1476176	University of Macau\|Faculty of Health Sciences	University of Macau	1	0.94333	0.04222	0.71478	0.50684	150	B	usable mapping rate	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2022-08-16	Adult	Adult	Gonad	Reproductive System
70367	70367	SRR21073880	SRX17088844	SRS14371194	SRP388936	PRJNA849909	Danio rerio strain:AB Raw sequence reads	PRJNA849909	Whole Genome Sequencing	normal ovary of zebrafish			WT 3	strain:AB\|age:8 mpf of wide type fish 3\|BioSampleModel:Model organism or animal	RNAseq of follicle	s125	s125	normal RNA Seq of ovary	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP388936		WT3.fq.gz	fastq	3292567800.0	21950452.0	WT3.fq.gz	0:150 1:0	A:868410355;C:785426866;G:781134863;T:857556374;N:39342	150	0	868410355	785426866	781134863	857556374	39342	SRX17088844	SRS14371194	SRA1476176	University of Macau\|Faculty of Health Sciences	University of Macau	1	0.94868	0.0215	0.73673	0.49069	150	B	usable mapping rate	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2022-08-16	Adult	Adult	Gonad	Reproductive System
70368	70368	SRR21073881	SRX17088843	SRS14371193	SRP388936	PRJNA849909	Danio rerio strain:AB Raw sequence reads	PRJNA849909	Whole Genome Sequencing	normal ovary of zebrafish			WT 2	strain:AB\|age:8 mpf of wide type fish 2\|BioSampleModel:Model organism or animal	RNAseq of follicle	s124	s124	normal RNA Seq of ovary	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP388936	loader:fastq load.py	WT2.fq.gz	fastq	3252087750.0	21680585.0	WT2.fq.tar.gz	0:150	A:844915133;C:783918734;G:794244671;T:828984595;N:24617	150		844915133	783918734	794244671	828984595	24617	SRX17088843	SRS14371193	SRA1476176	University of Macau\|Faculty of Health Sciences	University of Macau	1	0.93242	0.05061	0.725	0.49837	150	B	usable mapping rate	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2022-08-25	Adult	Adult	Gonad	Reproductive System
70369	70369	SRR21073882	SRX17088842	SRS14371192	SRP388936	PRJNA849909	Danio rerio strain:AB Raw sequence reads	PRJNA849909	Whole Genome Sequencing	normal ovary of zebrafish			WT 1	strain:AB\|age:8 mpf of wide type fish 1\|BioSampleModel:Model organism or animal	RNAseq of follicle	s123	s123	normal RNA Seq of ovary	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP388936		WT1.fq.gz	fastq	3302333850.0	22015559.0	WT1.fq.gz	0:0 1:150	A:865685853;C:788747204;G:788058590;T:859821131;N:21072	0	150	865685853	788747204	788058590	859821131	21072	SRX17088842	SRS14371192	SRA1476176	University of Macau\|Faculty of Health Sciences	University of Macau	1	0.94952	0.02093	0.7376	0.49025	150	B	usable mapping rate	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2022-08-16	Adult	Adult	Gonad	Reproductive 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");;