metadata: run_metadata: 103 rows where devstage_curation_coarse = "Embryo" and experiment.library

103 rows where devstage_curation_coarse = "Embryo" and experiment.library_selection = "RANDOM PCR"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	study.attributes	sample.description	sample.title	sample.alias	sample.centername	sample.attributes	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.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.mapping_rate.mate2	seqdetective.nofeature_rate.mate1	seqdetective.nofeature_rate.mate2	seqdetective.sparsity.mate1	seqdetective.sparsity.mate2	seqdetective.pos_strand_rate.mate1	seqdetective.pos_strand_rate.mate2	seqdetective.readlen.mate1	seqdetective.readlen.mate2	seqdetective.judgement.mate1	seqdetective.judgement.mate2	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
9775	9775	ERR3838754	ERX3851420	ERS4266444	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma prim5 wt rep2	SAMEA6501995	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501995\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma prim5 wt rep2\|age:24\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma prim5 wt rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma prim5 wt rep2 p	Soma prim5 wt rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Somatic_prim5_rep2_R1.fastq.gz Somatic_prim5_rep2_R2.fastq.gz	fastq fastq	2664555542.0	17942996.0	E MTAB 8707:Somatic prim5 rep2 R	0:74.25 1:74.25	A:757990974;C:568005838;G:586848520;T:749991976;N:1718234	74	74	757990974	568005838	586848520	749991976	1718234	ERX3851420	ERS4266444	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92034	0.91779	0.22669	0.22761	0.74769	0.74911	0.45866	0.45282	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9776	9776	ERR3838753	ERX3851419	ERS4266443	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma prim5 wt rep1	SAMEA6501994	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501994\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma prim5 wt rep1\|age:24\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma prim5 wt rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma prim5 wt rep1 p	Soma prim5 wt rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Somatic_prim5_rep1_R1.fastq.gz Somatic_prim5_rep1_R2.fastq.gz	fastq fastq	1847156504.0	12386853.0	E MTAB 8707:Somatic prim5 rep1 R	0:74.56 1:74.56	A:519724449;C:399975516;G:411702918;T:514818493;N:935128	74	74	519724449	399975516	411702918	514818493	935128	ERX3851419	ERS4266443	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93526	0.93319	0.24244	0.24304	0.75073	0.75201	0.44773	0.44885	76	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9777	9777	ERR3838752	ERX3851418	ERS4266442	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma prim5 Morpholino rep2	SAMEA6501993	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501993\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma prim5 Morpholino rep2\|age:24\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma prim5 Morpholino rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma prim5 Morpholino rep2 p	Soma prim5 Morpholino rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Morpholino antisense oligo against Tdrd7 transcript\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S14_R1.fastq.gz S14_R2.fastq.gz	fastq fastq	953947657.0	6389852.0	E MTAB 8707:S14 R	0:74.64 1:74.65	A:271485260;C:204208876;G:210319402;T:267490986;N:443133	74	74	271485260	204208876	210319402	267490986	443133	ERX3851418	ERS4266442	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93577	0.93619	0.1141	0.11516	0.72644	0.72892	0.4694	0.46965	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9778	9778	ERR3838751	ERX3851417	ERS4266441	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma prim5 Morpholino rep1	SAMEA6501992	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501992\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma prim5 Morpholino rep1\|age:24\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma prim5 Morpholino rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma prim5 Morpholino rep1 p	Soma prim5 Morpholino rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Morpholino antisense oligo against Tdrd7 transcript\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S12_R1.fastq.gz S12_R2.fastq.gz	fastq fastq	753719404.0	5057589.0	E MTAB 8707:S12 R	0:74.51 1:74.52	A:216097326;C:160004832;G:164724356;T:212507268;N:385622	74	74	216097326	160004832	164724356	212507268	385622	ERX3851417	ERS4266441	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93958	0.93943	0.10854	0.1092	0.73267	0.73663	0.45629	0.47862	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9779	9779	ERR3838750	ERX3851416	ERS4266440	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma prim5 5mismatch Morpholino rep2	SAMEA6501991	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501991\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma prim5 5mismatch Morpholino rep2\|age:24\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma prim5 5mismatch Morpholino rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma prim5 5mismatch Morpholino rep2 p	Soma prim5 5mismatch Morpholino rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Control morpholino antisense oligo with 5 mismatches\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S18_R1.fastq.gz S18_R2.fastq.gz	fastq fastq	847966718.0	5668126.0	E MTAB 8707:S18 R	0:74.80 1:74.80	A:230723434;C:191446710;G:197114792;T:228326953;N:354829	74	74	230723434	191446710	197114792	228326953	354829	ERX3851416	ERS4266440	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92436	0.92488	0.08973	0.09012	0.73971	0.74192	0.45291	0.45397	76	73	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9780	9780	ERR3838749	ERX3851415	ERS4266439	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma prim5 5mismatch Morpholino rep1	SAMEA6501990	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501990\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma prim5 5mismatch Morpholino rep1\|age:24\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma prim5 5mismatch Morpholino rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma prim5 5mismatch Morpholino rep1 p	Soma prim5 5mismatch Morpholino rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Control morpholino antisense oligo with 5 mismatches\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S16_R1.fastq.gz S16_R2.fastq.gz	fastq fastq	444518989.0	2971315.0	E MTAB 8707:S16 R	0:74.80 1:74.80	A:121398448;C:100282796;G:103112415;T:119559792;N:165538	74	74	121398448	100282796	103112415	119559792	165538	ERX3851415	ERS4266439	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92469	0.92438	0.09917	0.10006	0.72279	0.7251	0.45852	0.46016	73	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9781	9781	ERR3838748	ERX3851414	ERS4266438	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma High rep2	SAMEA6501989	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501989\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma High rep2\|age:3.3\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:blastula high\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma High rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma High rep2 p	Soma High rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula high\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Fabio_High_rep2_soma_R1.fastq.gz Fabio_High_rep2_soma_R2.fastq.gz	fastq fastq	2072343523.0	13904136.0	E MTAB 8707:Fabio High rep2 soma R	0:74.52 1:74.53	A:596021076;C:439789413;G:451992691;T:583604290;N:936053	74	74	596021076	439789413	451992691	583604290	936053	ERX3851414	ERS4266438	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.94263	0.94098	0.04804	0.04844	0.75797	0.76039	0.50847	0.5014	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9782	9782	ERR3838747	ERX3851413	ERS4266437	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma High rep1	SAMEA6501988	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:01Z\|External Id:SAMEA6501988\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:01Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma High rep1\|age:3.3\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:blastula high\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma High rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma High rep1 p	Soma High rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula high\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Somatic_High_rep1_R1.fastq.gz Somatic_High_rep1_R2.fastq.gz	fastq fastq	6013555644.0	40662218.0	E MTAB 8707:Somatic High rep1 R	0:73.94 1:73.95	A:1821348300;C:1185534582;G:1227848010;T:1774836657;N:3988095	73	73	1821348300	1185534582	1227848010	1774836657	3988095	ERX3851413	ERS4266437	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93539	0.9357	0.07066	0.07028	0.76197	0.76386	0.54301	0.54343	76	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9783	9783	ERR3838746	ERX3851412	ERS4266436	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma dome rep2	SAMEA6501987	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501987\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma dome rep2\|age:4.3\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:blastula dome\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma dome rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma dome rep2 p	Soma dome rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula dome\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S10_R1.fastq.gz S10_R2.fastq.gz	fastq fastq	1086124503.0	7272505.0	E MTAB 8707:S10 R	0:74.67 1:74.68	A:305920447;C:235855931;G:243442186;T:300439294;N:466645	74	74	305920447	235855931	243442186	300439294	466645	ERX3851412	ERS4266436	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.94089	0.94085	0.04872	0.04916	0.7419	0.74355	0.51209	0.5119	74	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9784	9784	ERR3838745	ERX3851411	ERS4266435	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma dome rep1	SAMEA6501986	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501986\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma dome rep1\|age:4.3\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:blastula dome\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma dome rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma dome rep1 p	Soma dome rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula dome\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S8_R1.fastq.gz S8_R2.fastq.gz	fastq fastq	336100162.0	2240589.0	E MTAB 8707:S8 R	0:75.00 1:75.00	A:93960580;C:73499585;G:75981355;T:92580945;N:77697	75	75	93960580	73499585	75981355	92580945	77697	ERX3851411	ERS4266435	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93874	0.93856	0.05265	0.0517	0.74188	0.74381	0.51181	0.51086	75	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9785	9785	ERR3838744	ERX3851410	ERS4266434	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma 256 cell rep2	SAMEA6501985	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501985\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma 256 cell rep2\|age:2.5\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:blastula 256 cell\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma 256 cell rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma 256 cell rep2 p	Soma 256 cell rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula 256 cell\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S2_R1.fastq.gz S2_R2.fastq.gz	fastq fastq	1272080863.0	8551103.0	E MTAB 8707:S2 R	0:74.38 1:74.38	A:364033393;C:268850689;G:276270908;T:362172455;N:753418	74	74	364033393	268850689	276270908	362172455	753418	ERX3851410	ERS4266434	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.80562	0.80436	0.23702	0.23786	0.77914	0.77991	0.51225	0.5092	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9786	9786	ERR3838743	ERX3851409	ERS4266433	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma 256 cell rep1	SAMEA6501984	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501984\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma 256 cell rep1\|age:2.5\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:blastula 256 cell\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma 256 cell rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma 256 cell rep1 p	Soma 256 cell rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula 256 cell\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Somatic_256_rep1_R1.fastq.gz Somatic_256_rep1_R2.fastq.gz	fastq fastq	2254901578.0	15144857.0	E MTAB 8707:Somatic 256 rep1 R	0:74.44 1:74.45	A:648357135;C:475813294;G:492914743;T:636658631;N:1157775	74	74	648357135	475813294	492914743	636658631	1157775	ERX3851409	ERS4266433	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92992	0.92787	0.07245	0.07214	0.7599	0.76084	0.53758	0.53839	74	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9787	9787	ERR3838742	ERX3851408	ERS4266432	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma 10somites rep2	SAMEA6501983	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501983\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma 10somites rep2\|age:14\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:10 somites\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma 10somites rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma 10somites rep2 p	Soma 10somites rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:10 somites\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S6_R1.fastq.gz S6_R2.fastq.gz	fastq fastq	1244080980.0	8338002.0	E MTAB 8707:S6 R	0:74.60 1:74.60	A:356418931;C:263292901;G:270630630;T:353140798;N:597720	74	74	356418931	263292901	270630630	353140798	597720	ERX3851408	ERS4266432	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.86791	0.86732	0.20223	0.20398	0.75588	0.75883	0.4862	0.48313	76	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Segmentation	Embryo	Whole Organism	All anatomical structures
9788	9788	ERR3838741	ERX3851407	ERS4266431	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Soma 10somites rep1	SAMEA6501982	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501982\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:Soma 10somites rep1\|age:14\|broker name:ArrayExpress\|cell type:whole embryo\|common name:zebrafish\|developmental stage:10 somites\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:Soma 10somites rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:Soma 10somites rep1 p	Soma 10somites rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:10 somites\|Experimental Factor: compound:n1\|Experimental Factor: cell type:whole embryo	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S4_R1.fastq.gz S4_R2.fastq.gz	fastq fastq	946153328.0	6354843.0	E MTAB 8707:S4 R	0:74.44 1:74.45	A:268310887;C:203457903;G:208969410;T:264875129;N:539999	74	74	268310887	203457903	208969410	264875129	539999	ERX3851407	ERS4266431	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92415	0.92372	0.12138	0.12268	0.74061	0.74422	0.47246	0.47448	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Segmentation	Embryo	Whole Organism	All anatomical structures
9789	9789	ERR3838740	ERX3851406	ERS4266430	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC prim5 wt rep2	SAMEA6501981	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501981\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC prim5 wt rep2\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC prim5 wt rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC prim5 wt rep2 p	PGC prim5 wt rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	PGC_prim5_rep2_R1.fastq.gz PGC_prim5_rep2_R2.fastq.gz	fastq fastq	2236371655.0	15023634.0	E MTAB 8707:PGC prim5 rep2 R	0:74.43 1:74.43	A:619039687;C:495191024;G:509021767;T:611885185;N:1233992	74	74	619039687	495191024	509021767	611885185	1233992	ERX3851406	ERS4266430	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93137	0.92838	0.23991	0.24045	0.71435	0.71591	0.49054	0.49302	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9790	9790	ERR3838739	ERX3851405	ERS4266429	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC prim5 wt rep1	SAMEA6501980	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501980\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC prim5 wt rep1\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC prim5 wt rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC prim5 wt rep1 p	PGC prim5 wt rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	PGC_prim5_rep1_R1.fastq.gz PGC_prim5_rep1_R2.fastq.gz	fastq fastq	1619398294.0	10873533.0	E MTAB 8707:PGC prim5 rep1 R	0:74.46 1:74.47	A:450612629;C:355178930;G:365650222;T:447083613;N:872900	74	74	450612629	355178930	365650222	447083613	872900	ERX3851405	ERS4266429	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92755	0.92901	0.22893	0.22952	0.71131	0.71372	0.49829	0.50019	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9791	9791	ERR3838738	ERX3851404	ERS4266428	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC prim5 Morpholino rep2	SAMEA6501979	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501979\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC prim5 Morpholino rep2\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC prim5 Morpholino rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC prim5 Morpholino rep2 p	PGC prim5 Morpholino rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Morpholino antisense oligo against Tdrd7 transcript\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S13_R1.fastq.gz S13_R2.fastq.gz	fastq fastq	906443913.0	6069224.0	E MTAB 8707:S13 R	0:74.67 1:74.68	A:256935983;C:195137600;G:200975999;T:253026767;N:367564	74	74	256935983	195137600	200975999	253026767	367564	ERX3851404	ERS4266428	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93468	0.93605	0.09793	0.09817	0.71163	0.71291	0.48766	0.48921	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9792	9792	ERR3838737	ERX3851403	ERS4266427	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC prim5 Morpholino rep1	SAMEA6501978	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501978\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC prim5 Morpholino rep1\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC prim5 Morpholino rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC prim5 Morpholino rep1 p	PGC prim5 Morpholino rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Morpholino antisense oligo against Tdrd7 transcript\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Fabio_cat_11_R1.fastq.gz Fabio_cat_11_R2.fastq.gz	fastq fastq	1078919524.0	7241200.0	E MTAB 8707:Fabio cat 11 R	0:74.50 1:74.50	A:308200726;C:229836659;G:236649504;T:303673221;N:559414	74	74	308200726	229836659	236649504	303673221	559414	ERX3851403	ERS4266427	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93808	0.93753	0.10449	0.10446	0.70733	0.71017	0.48103	0.48247	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9793	9793	ERR3838736	ERX3851402	ERS4266426	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC prim5 5mismatch Morpholino rep2	SAMEA6501977	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501977\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC prim5 5mismatch Morpholino rep2\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC prim5 5mismatch Morpholino rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC prim5 5mismatch Morpholino rep2 p	PGC prim5 5mismatch Morpholino rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Control morpholino antisense oligo with 5 mismatches\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S17_R1.fastq.gz S17_R2.fastq.gz	fastq fastq	673911944.0	4501723.0	E MTAB 8707:S17 R	0:74.85 1:74.85	A:184466911;C:150779527;G:155693395;T:182720480;N:251631	74	74	184466911	150779527	155693395	182720480	251631	ERX3851402	ERS4266426	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.9199	0.92023	0.08791	0.08923	0.70132	0.70378	0.49183	0.49425	75	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9794	9794	ERR3838735	ERX3851401	ERS4266425	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC prim5 5mismatch Morpholino rep1	SAMEA6501976	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501976\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC prim5 5mismatch Morpholino rep1\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC prim5 5mismatch Morpholino rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC prim5 5mismatch Morpholino rep1 p	PGC prim5 5mismatch Morpholino rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:pharyngula prim 5\|Experimental Factor: compound:Control morpholino antisense oligo with 5 mismatches\|Experimental Factor: dose:0.3\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S15_R1.fastq.gz S15_R2.fastq.gz	fastq fastq	565636692.0	3782000.0	E MTAB 8707:S15 R	0:74.78 1:74.78	A:157353454;C:124504476;G:128260137;T:155314004;N:204621	74	74	157353454	124504476	128260137	155314004	204621	ERX3851401	ERS4266425	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.91956	0.91996	0.08306	0.08458	0.69982	0.70203	0.48525	0.48771	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Pharyngula	Embryo	Whole Organism	All anatomical structures
9795	9795	ERR3838734	ERX3851400	ERS4266424	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC High rep2	SAMEA6501975	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501975\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC High rep2\|age:3.3\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:blastula high\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC High rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC High rep2 p	PGC High rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula high\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	PGC_High_rep2_R1.fastq.gz PGC_High_rep2_R2.fastq.gz	fastq fastq	2491013839.0	16740632.0	E MTAB 8707:PGC High rep2 R	0:74.40 1:74.40	A:715637079;C:527451931;G:545855323;T:700774175;N:1295331	74	74	715637079	527451931	545855323	700774175	1295331	ERX3851400	ERS4266424	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93381	0.93556	0.06095	0.06172	0.76094	0.76364	0.52942	0.53118	74	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9796	9796	ERR3838733	ERX3851399	ERS4266423	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC High rep1	SAMEA6501974	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501974\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC High rep1\|age:3.3\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:blastula high\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC High rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC High rep1 p	PGC High rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula high\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	PGC_High_rep1_R1.fastq.gz PGC_High_rep1_R2.fastq.gz	fastq fastq	2055218051.0	13801653.0	E MTAB 8707:PGC High rep1 R	0:74.45 1:74.46	A:594747301;C:431446277;G:445665283;T:582330624;N:1028566	74	74	594747301	431446277	445665283	582330624	1028566	ERX3851399	ERS4266423	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93644	0.93494	0.06937	0.07015	0.76353	0.7653	0.45909	0.44979	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9797	9797	ERR3838732	ERX3851398	ERS4266422	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC dome rep2	SAMEA6501973	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501973\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC dome rep2\|age:4.3\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:blastula dome\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC dome rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC dome rep2 p	PGC dome rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula dome\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S9_R1.fastq.gz S9_R2.fastq.gz	fastq fastq	882858901.0	5912255.0	E MTAB 8707:S9 R	0:74.66 1:74.67	A:246639630;C:193554406;G:199940889;T:242369366;N:354610	74	74	246639630	193554406	199940889	242369366	354610	ERX3851398	ERS4266422	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.94045	0.9404	0.04635	0.04658	0.74582	0.74777	0.4915	0.49248	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9798	9798	ERR3838731	ERX3851397	ERS4266421	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC dome rep1	SAMEA6501972	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501972\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC dome rep1\|age:4.3\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:blastula dome\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC dome rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC dome rep1 p	PGC dome rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula dome\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S7_R1.fastq.gz S7_R2.fastq.gz	fastq fastq	592299285.0	3961989.0	E MTAB 8707:S7 R	0:74.75 1:74.75	A:166664600;C:128421892;G:132787149;T:164189412;N:236232	74	74	166664600	128421892	132787149	164189412	236232	ERX3851397	ERS4266421	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93981	0.94032	0.04868	0.04843	0.74627	0.74722	0.49243	0.48872	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9799	9799	ERR3838730	ERX3851396	ERS4266420	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC 256 cell rep2	SAMEA6501971	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501971\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC 256 cell rep2\|age:2.5\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:blastula 256 cell\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC 256 cell rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC 256 cell rep2 p	PGC 256 cell rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula 256 cell\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S1_R1.fastq.gz S1_R2.fastq.gz	fastq fastq	745277323.0	4983607.0	E MTAB 8707:S1 R	0:74.77 1:74.77	A:208352741;C:163024343;G:168234953;T:205391192;N:274094	74	74	208352741	163024343	168234953	205391192	274094	ERX3851396	ERS4266420	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.9393	0.9395	0.03941	0.03941	0.75473	0.75708	0.51338	0.51754	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9800	9800	ERR3838729	ERX3851395	ERS4266419	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC 256 cell rep1	SAMEA6501970	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501970\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC 256 cell rep1\|age:2.5\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:blastula 256 cell\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC 256 cell rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC 256 cell rep1 p	PGC 256 cell rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:blastula 256 cell\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	PGC_256_rep1_R1.fastq.gz PGC_256_rep1_R2.fastq.gz	fastq fastq	1876891175.0	12625794.0	E MTAB 8707:PGC 256 rep1 R	0:74.32 1:74.33	A:539140549;C:396392844;G:411568412;T:528672735;N:1116635	74	74	539140549	396392844	411568412	528672735	1116635	ERX3851395	ERS4266419	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.92251	0.92173	0.06705	0.06723	0.76059	0.76374	0.54467	0.54135	76	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Blastula	Embryo	Whole Organism	All anatomical structures
9801	9801	ERR3838728	ERX3851394	ERS4266418	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC 10somites rep2	SAMEA6501969	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501969\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC 10somites rep2\|age:14\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:10 somites\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC 10somites rep2\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC 10somites rep2 p	PGC 10somites rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:10 somites\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S5_R1.fastq.gz S5_R2.fastq.gz	fastq fastq	1186993033.0	7958634.0	E MTAB 8707:S5 R	0:74.57 1:74.58	A:332263881;C:259239478;G:267014990;T:327946611;N:528073	74	74	332263881	259239478	267014990	327946611	528073	ERX3851394	ERS4266418	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.90713	0.9062	0.10071	0.1016	0.73058	0.73279	0.48458	0.48038	74	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Segmentation	Embryo	Whole Organism	All anatomical structures
9802	9802	ERR3838727	ERX3851393	ERS4266417	ERP119601	PRJEB36411	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-8707	Transcriptome Analysis	Zebrafish Primordial Germ Cells PGCs were tracked in the TgBuc GFP line where the germ plasm protein Buc is fused to GFP. GFP positive cells were isolated via FACS and RNA seq was performed on polyadenylated transcripts for PGCs and somatic cells at 256 cell high dome 10 somites and prim 5 stages. Two hundred cells were used for each biological replicate. RNA seq was also performed on embryos in where Tdrd7 translation was inhibited via morpholino treatment.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC 10somites rep1	SAMEA6501968	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA FIRST PUBLIC:2020 04 30T04:03:48Z\|ENA LAST UPDATE:2020 01 24T08:44:00Z\|External Id:SAMEA6501968\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 04 30T04:03:48Z\|INSDC last update:2020 01 24T08:44:00Z\|INSDC status:public\|Submitter Id:E MTAB 8707:PGC 10somites rep1\|age:14\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:10 somites\|genotype:tgbuc:egfp\|phenotype:fluorescent PGCs due to germ plasm localised GFP\|sample name:E MTAB 8707:PGC 10somites rep1\|scientific name:Danio rerio\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 8707:PGC 10somites rep1 p	PGC 10somites rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: developmental stage:10 somites\|Experimental Factor: compound:n1\|Experimental Factor: cell type:primordial germ cell	OTHER	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP119601	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 01 24	S3_R1.fastq.gz S3_R2.fastq.gz	fastq fastq	1230551446.0	8251644.0	E MTAB 8707:S3 R	0:74.56 1:74.57	A:345409587;C:267720436;G:275626594;T:341185818;N:609011	74	74	345409587	267720436	275626594	341185818	609011	ERX3851393	ERS4266417	ERA2354529	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.90983	0.90985	0.1005	0.10037	0.72622	0.72825	0.49116	0.49135	76	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-01-24	Segmentation	Embryo	Whole Organism	All anatomical structures
10111	10111	ERR4911024	ERX4777847	ERS5435613	ERP125516	PRJEB41701	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-9857	Transcriptome Analysis	In this rescue experiment embryos were injected with a Tdrd7 targeting morpholino to block translation of tdrd7 RNA and simultaneously provided with a Tdrd7 morpholino resistant RNA.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 02	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC Rescue rep2	SAMEA7678632	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA first public:2020 12 24\|ENA last update:2020 12 02\|External Id:SAMEA7678632\|INSDC center alias:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 12 24T04:05:28Z\|INSDC last update:2020 12 02T17:13:26Z\|INSDC status:public\|Submitter Id:E MTAB 9857:PGC Rescue rep2\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:gfp\|sample name:E MTAB 9857:PGC Rescue rep2\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 9857:PGC Rescue rep2 p	PGC Rescue rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: compound:tdrd7 MO + tdrd7 rescue RNA	RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP125516	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 09	Tdrd7_Rescue_PGC_rep2_R1.fastq.gz Tdrd7_Rescue_PGC_rep2_R2.fastq.gz	fastq fastq	6487121744.0	43103086.0	E MTAB 9857:Tdrd7 Rescue PGC rep2 R	0:75.26 1:75.24	A:1769293880;C:1469053016;G:1516553427;T:1729496045;N:2725376	75	75	1769293880	1469053016	1516553427	1729496045	2725376	ERX4777847	ERS5435613	ERA3184570	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.95185	0.95349	0.04302	0.04315	0.72829	0.73022	0.47176	0.47104	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-12-02	Pharyngula	Embryo	Whole Organism	All anatomical structures
10112	10112	ERR4911023	ERX4777846	ERS5435612	ERP125516	PRJEB41701	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-9857	Transcriptome Analysis	In this rescue experiment embryos were injected with a Tdrd7 targeting morpholino to block translation of tdrd7 RNA and simultaneously provided with a Tdrd7 morpholino resistant RNA.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 02	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC Rescue rep1	SAMEA7678631	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA first public:2020 12 24\|ENA last update:2020 12 02\|External Id:SAMEA7678631\|INSDC center alias:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 12 24T04:05:28Z\|INSDC last update:2020 12 02T17:13:26Z\|INSDC status:public\|Submitter Id:E MTAB 9857:PGC Rescue rep1\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:gfp\|sample name:E MTAB 9857:PGC Rescue rep1\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 9857:PGC Rescue rep1 p	PGC Rescue rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: compound:tdrd7 MO + tdrd7 rescue RNA	RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP125516	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 09	Tdrd7_Rescue_PGC_rep1_R1.fastq.gz Tdrd7_Rescue_PGC_rep1_R2.fastq.gz	fastq fastq	5952473889.0	39454929.0	E MTAB 9857:Tdrd7 Rescue PGC rep1 R	0:75.44 1:75.43	A:1640467527;C:1332668425;G:1380033115;T:1597665169;N:1639653	75	75	1640467527	1332668425	1380033115	1597665169	1639653	ERX4777846	ERS5435612	ERA3184570	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.95086	0.95226	0.06292	0.0629	0.70341	0.70579	0.46524	0.46691	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-12-02	Pharyngula	Embryo	Whole Organism	All anatomical structures
10113	10113	ERR4911022	ERX4777845	ERS5435611	ERP125516	PRJEB41701	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-9857	Transcriptome Analysis	In this rescue experiment embryos were injected with a Tdrd7 targeting morpholino to block translation of tdrd7 RNA and simultaneously provided with a Tdrd7 morpholino resistant RNA.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 02	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC MO rep2	SAMEA7678630	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA first public:2020 12 24\|ENA last update:2020 12 02\|External Id:SAMEA7678630\|INSDC center alias:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 12 24T04:05:28Z\|INSDC last update:2020 12 02T17:13:26Z\|INSDC status:public\|Submitter Id:E MTAB 9857:PGC MO rep2\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:gfp\|sample name:E MTAB 9857:PGC MO rep2\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 9857:PGC MO rep2 p	PGC MO rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: compound:tdrd7 targeting MO	RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP125516	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 09	Tdrd7_MO_PGC_rep2_R1.fastq.gz Tdrd7_MO_PGC_rep2_R2.fastq.gz	fastq fastq	906443913.0	6069224.0	E MTAB 9857:Tdrd7 MO PGC rep2 R	0:74.67 1:74.68	A:256935983;C:195137600;G:200975999;T:253026767;N:367564	74	74	256935983	195137600	200975999	253026767	367564	ERX4777845	ERS5435611	ERA3184570	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.93468	0.93603	0.09796	0.09848	0.7119	0.71439	0.48682	0.48933	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-12-02	Pharyngula	Embryo	Whole Organism	All anatomical structures
10114	10114	ERR4911021	ERX4777844	ERS5435610	ERP125516	PRJEB41701	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-9857	Transcriptome Analysis	In this rescue experiment embryos were injected with a Tdrd7 targeting morpholino to block translation of tdrd7 RNA and simultaneously provided with a Tdrd7 morpholino resistant RNA.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 02	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC MO rep1	SAMEA7678629	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA first public:2020 12 24\|ENA last update:2020 12 02\|External Id:SAMEA7678629\|INSDC center alias:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 12 24T04:05:28Z\|INSDC last update:2020 12 02T17:13:26Z\|INSDC status:public\|Submitter Id:E MTAB 9857:PGC MO rep1\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:gfp\|sample name:E MTAB 9857:PGC MO rep1\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 9857:PGC MO rep1 p	PGC MO rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: compound:tdrd7 targeting MO	RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP125516	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 09	Tdrd7_MO_PGC_rep1_R1.fastq.gz Tdrd7_MO_PGC_rep1_R2.fastq.gz	fastq fastq	1078919524.0	7241200.0	E MTAB 9857:Tdrd7 MO PGC rep1 R	0:74.50 1:74.50	A:308200726;C:229836659;G:236649504;T:303673221;N:559414	74	74	308200726	229836659	236649504	303673221	559414	ERX4777844	ERS5435610	ERA3184570	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.938	0.93748	0.10463	0.10431	0.7077	0.70999	0.48098	0.48239	75	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-12-02	Pharyngula	Embryo	Whole Organism	All anatomical structures
10115	10115	ERR4911020	ERX4777843	ERS5435609	ERP125516	PRJEB41701	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-9857	Transcriptome Analysis	In this rescue experiment embryos were injected with a Tdrd7 targeting morpholino to block translation of tdrd7 RNA and simultaneously provided with a Tdrd7 morpholino resistant RNA.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 02	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC 5mm rep2	SAMEA7678628	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA first public:2020 12 24\|ENA last update:2020 12 02\|External Id:SAMEA7678628\|INSDC center alias:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 12 24T04:05:28Z\|INSDC last update:2020 12 02T17:13:26Z\|INSDC status:public\|Submitter Id:E MTAB 9857:PGC 5mm rep2\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:gfp\|sample name:E MTAB 9857:PGC 5mm rep2\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 9857:PGC 5mm rep2 p	PGC 5mm rep2 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: compound:tdrd7 5mismatch MO	RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP125516	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 09	Tdrd7_5mm_PGC_rep2_R1.fastq.gz Tdrd7_5mm_PGC_rep2_R2.fastq.gz	fastq fastq	673911944.0	4501723.0	E MTAB 9857:Tdrd7 5mm PGC rep2 R	0:74.85 1:74.85	A:184466911;C:150779527;G:155693395;T:182720480;N:251631	74	74	184466911	150779527	155693395	182720480	251631	ERX4777843	ERS5435609	ERA3184570	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.91989	0.92025	0.08795	0.08919	0.70096	0.70416	0.49184	0.49415	75	75	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-12-02	Pharyngula	Embryo	Whole Organism	All anatomical structures
10116	10116	ERR4911019	ERX4777842	ERS5435608	ERP125516	PRJEB41701	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E-MTAB-9857	Transcriptome Analysis	In this rescue experiment embryos were injected with a Tdrd7 targeting morpholino to block translation of tdrd7 RNA and simultaneously provided with a Tdrd7 morpholino resistant RNA.	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 02	Protocols: Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	PGC 5mm rep1	SAMEA7678627	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK	ENA first public:2020 12 24\|ENA last update:2020 12 02\|External Id:SAMEA7678627\|INSDC center alias:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC center name:MRC London Institute of Medical Sciences and Faculty of Medicine Imperial College London UK\|INSDC first public:2020 12 24T04:05:28Z\|INSDC last update:2020 12 02T17:13:26Z\|INSDC status:public\|Submitter Id:E MTAB 9857:PGC 5mm rep1\|age:24\|broker name:ArrayExpress\|cell type:primordial germ cell\|common name:zebrafish\|developmental stage:pharyngula prim 5\|genotype:tgbuc:gfp\|sample name:E MTAB 9857:PGC 5mm rep1\|strain:AB	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	E MTAB 9857:PGC 5mm rep1 p	PGC 5mm rep1 p	RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	Zebrafish PGCs were isolated via FACS post embryo dissociation. The embryos were grown until the desired stage at 28.5C and collected in synchronous batches. Cell dissociation occurred via pipetting thoroughly up and down the pooled embryos until the solution appeared homogeneous. Yolk excess was removed by two rounds of centrifugation at 300 x g 5 minutes. Cells were passed through a 50 μm mesh and loaded into a FACS Aria II machine for cell sorting. Morpholino antisense oligos were used in order to inhibit Tdrd7 translation during zebrafish development. Stock morpholinos were diluted in phenol red and about 0.3 pM were injected into the yolk of a fertilised zebrafish embryo. As experimental control a group of embryos were injected with morpholinos having 5 mismatches for the target Tdrd7 transcript. A rescue experiment was performed with Tdrd7 MO resistant RNA from tdrd7 transcript. The RNA was in vitro transcribed and co injected in once cell embryo to rescue MO mediated Tdrd7 KD. Cells were lysed in presence of RNAse inhibitor 0.2 U/μl and cDNA generated from the cell lysate. cDNA was generated with the Takara SMART Seq® v4 Ultra® Low Input RNA Kit as from manufacturer's instruction. In brief reverse transcription was carried out in presence of the SMART Seq CDS Primer II A and SMARTScribeTM Reverse Transcriptase Takara Bio Europe 634889 France. Library amplification occurred according to protocol recommendations and the amplified cDNA purified via the Agencourt AMPure XP beads kit Beckman Coulter A63880 USA.	Experimental Factor: compound:tdrd7 5mismatch MO	RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	NextSeq 550		ERP125516	NextSeq 550 paired end sequencing; RNA seq of zebrafish primordial germ cells and somatic cells during early embryogenesis	ENA FIRST PUBLIC:2020 12 24\|ENA LAST UPDATE:2020 12 09	Tdrd7_5mm_PGC_rep1_R1.fastq.gz Tdrd7_5mm_PGC_rep1_R2.fastq.gz	fastq fastq	565636692.0	3782000.0	E MTAB 9857:Tdrd7 5mm PGC rep1 R	0:74.78 1:74.78	A:157353454;C:124504476;G:128260137;T:155314004;N:204621	74	74	157353454	124504476	128260137	155314004	204621	ERX4777842	ERS5435608	ERA3184570	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	MRC London Institute of Medical Sciences and Faculty of Medicine, Imperial College, London, UK\|European Nucleotide Archive	2	0.91957	0.91995	0.08301	0.0845	0.69929	0.70195	0.48544	0.4877	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	random_priming	unknown	sc	single_cell_plate	smartseq	United Kingdom	2020-12-02	Pharyngula	Embryo	Whole Organism	All anatomical structures
34127	34127	SRR31359854	SRX26733717	SRS23223868	SRP545360	PRJNA1186345	The pronephros/cloaca development difference between WT and gdf11 mutants at 24 hpf	PRJNA1186345	Other	To identify specific genes or signaling pathways or genes with altered expression in pronephric ducts and cloaca in the absence of Gdf11 we analyzed transcriptomic changes using RNA deep sequencing on WT and gdf11 mutant embryos in Tgcdh17 dsRed background at 24 hpf.				LJW KV FKDL210002409 1a		strain:LJW KV FKDL210002409 1a\|isolate:zebrafish\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|collection date:2024 02 18\|geo loc name:China: Anhui Medical University Hefei\|sex:not applicable\|tissue:zebrafish\|BioSampleModel:Model organism or animal	zebrafish mRNA sequencing	LJW KV FKDL210002409 1a	LJW KV FKDL210002409 1a	RNA seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 1000		SRP545360			LJW-KV_FKDL210002409-1a_1.clean.fq.gz LJW-KV_FKDL210002409-1a_2.clean.fq.gz	fastq fastq	8667883500.0	28892945.0	LJW KV FKDL210002409 1a 1.clean.fq.gz	0:150 1:150	A:2771307253;C:1399313804;G:1767761135;T:2729383521;N:117787	150	150	2771307253	1399313804	1767761135	2729383521	117787	SRX26733717	SRS23223868	SRA2015444	Anhui Medical University\|Basical Medicine	Anhui Medical University												B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2024-11-15	Undetermined	Embryo	Undetermined	Embryo Imprecise
39629	39629	SRR1947863	SRX981062	SRS889614	SRP056748	PRJNA279991	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	PRJNA279991	Other	Transcriptional events during initial vertebrate heart development in vivo remain poorly understood. Mesp1 a bHLH transcription factor has been described as the earliest transcriptional regulator of cardiac progenitors in multiple species and represents an excellent candidate for the investigation of relevant targets during cardiovascular development. We report here that both depletion and mutation of Mespaa the zebrafish homolog of mammalian Mesp1 lead to randomization of cardiac looping together with significant cardiac morphogenesis defects. These disruptions are preceded by a defect in cardiac left right asymmetry. Surprisingly the defect in asymmetry was found to occur independently of defects in the transient organ of laterality the Kupffer’s vesicle KV. We show that Mespaa regulates miR 430 expression during gastrulation to control the levels of Nodal signaling and that this regulation is required for asymmetric laterality signaling in the prospective heart field. Ectopic expression of miR 430 is sufficient to induce cardiac laterality defects and consistent with Mespaa over expression in this system the reduction of miR 430 leads to cardia bifida. This study reveals a novel transcriptional regulation of miR 430 by Mespaa and a role for this pathway in cardiac laterality during gastrulation.			Danio rerio injected with mespaa morpholino 5.5hpf	Zebrafish injected with mespaa morpholino		strain:Ekkwill\|dev stage:5.5hpf\|sex:pooled male and female\|tissue:whole embryo\|BioSampleModel:Model organism or animal	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	Zebrafish injected with mespaa morpholino replicate 2	Zebrafish injected with mespaa morpholino replicate 2	1			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP056748		loader:latf load	Mespa-230413_TGTGAA_L008_R2.fastq.gz Mespa-230413_TGTGAA_L008_R1.fastq.gz	fastq fastq	7275994449.0	42132158.0	RNAseq Danio rerio 5.5hpf mespaa morpholino replicate2	0:101 1:101	A:2058072859;C:1476303521;G:1525105443;T:2088915957;N:127596669	101	101	2058072859	1476303521	1525105443	2088915957	127596669	SRX981062	SRS889614	SRA249481	Gladstone Institute\|Bioinformatics	Gladstone Institutes	2	0.86631	0.83649	0.14484	0.22396	0.78861	0.90727	0.65055	0.64516	101	101	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	United States	2015-04-07	Gastrula	Embryo	Whole Organism	All anatomical structures
39630	39630	SRR1947880	SRX981061	SRS895863	SRP056748	PRJNA279991	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	PRJNA279991	Other	Transcriptional events during initial vertebrate heart development in vivo remain poorly understood. Mesp1 a bHLH transcription factor has been described as the earliest transcriptional regulator of cardiac progenitors in multiple species and represents an excellent candidate for the investigation of relevant targets during cardiovascular development. We report here that both depletion and mutation of Mespaa the zebrafish homolog of mammalian Mesp1 lead to randomization of cardiac looping together with significant cardiac morphogenesis defects. These disruptions are preceded by a defect in cardiac left right asymmetry. Surprisingly the defect in asymmetry was found to occur independently of defects in the transient organ of laterality the Kupffer’s vesicle KV. We show that Mespaa regulates miR 430 expression during gastrulation to control the levels of Nodal signaling and that this regulation is required for asymmetric laterality signaling in the prospective heart field. Ectopic expression of miR 430 is sufficient to induce cardiac laterality defects and consistent with Mespaa over expression in this system the reduction of miR 430 leads to cardia bifida. This study reveals a novel transcriptional regulation of miR 430 by Mespaa and a role for this pathway in cardiac laterality during gastrulation.			Danio rerio injected with negative control morpholino 5.5hpf	Zebrafish injected with untargeted negative control morpholino		strain:Ekkwill\|dev stage:5.5 hpf\|sex:pooled male and female\|tissue:whole embryo\|BioSampleModel:Model organism or animal	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	Zebrafish injected with untargeted negative control morpholino replicate 2	Zebrafish injected with untargeted negative control morpholino replicate 2	1			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP056748		loader:latf load	Std-230413_GTGTTA_L008_R1.fastq.gz Std-230413_GTGTTA_L008_R2.fastq.gz	fastq fastq	10015452496.0	49581448.0	RNAseq Danio rerio 5.5hpf negative control morpholino replicate2	0:101 1:101	A:2883382922;C:1998043392;G:2046542450;T:2937071125;N:150412607	101	101	2883382922	1998043392	2046542450	2937071125	150412607	SRX981061	SRS895863	SRA249481	Gladstone Institute\|Bioinformatics	Gladstone Institutes	2	0.8766	0.85002	0.17158	0.25762	0.77167	0.89057	0.64584	0.66342	101	101	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	United States	2016-03-31	Gastrula	Embryo	Whole Organism	All anatomical structures
39631	39631	SRR1947876	SRX981011	SRS895863	SRP056748	PRJNA279991	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	PRJNA279991	Other	Transcriptional events during initial vertebrate heart development in vivo remain poorly understood. Mesp1 a bHLH transcription factor has been described as the earliest transcriptional regulator of cardiac progenitors in multiple species and represents an excellent candidate for the investigation of relevant targets during cardiovascular development. We report here that both depletion and mutation of Mespaa the zebrafish homolog of mammalian Mesp1 lead to randomization of cardiac looping together with significant cardiac morphogenesis defects. These disruptions are preceded by a defect in cardiac left right asymmetry. Surprisingly the defect in asymmetry was found to occur independently of defects in the transient organ of laterality the Kupffer’s vesicle KV. We show that Mespaa regulates miR 430 expression during gastrulation to control the levels of Nodal signaling and that this regulation is required for asymmetric laterality signaling in the prospective heart field. Ectopic expression of miR 430 is sufficient to induce cardiac laterality defects and consistent with Mespaa over expression in this system the reduction of miR 430 leads to cardia bifida. This study reveals a novel transcriptional regulation of miR 430 by Mespaa and a role for this pathway in cardiac laterality during gastrulation.			Danio rerio injected with negative control morpholino 5.5hpf	Zebrafish injected with untargeted negative control morpholino		strain:Ekkwill\|dev stage:5.5 hpf\|sex:pooled male and female\|tissue:whole embryo\|BioSampleModel:Model organism or animal	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	Zebrafish injected with untargeted negative control morpholino	Zebrafish injected with untargeted negative control morpholino replicate 1	1			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP056748		loader:latf load	Std-190413_ACACGA_L008_R2.fastq.gz Std-190413_ACACGA_L008_R1.fastq.gz	fastq fastq	10412449358.0	51546779.0	RNAseq Danio rerio 5.5hpf negative control morpholino replicate1	0:101 1:101	A:2998996009;C:2064995108;G:2125498634;T:3066600855;N:156358752	101	101	2998996009	2064995108	2125498634	3066600855	156358752	SRX981011	SRS895863	SRA249481	Gladstone Institute\|Bioinformatics	Gladstone Institutes	2	0.87394	0.84802	0.15672	0.23447	0.77072	0.89049	0.63241	0.65533	101	101	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	United States	2016-03-31	Gastrula	Embryo	Whole Organism	All anatomical structures
39632	39632	SRR1947862	SRX974390	SRS889614	SRP056748	PRJNA279991	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	PRJNA279991	Other	Transcriptional events during initial vertebrate heart development in vivo remain poorly understood. Mesp1 a bHLH transcription factor has been described as the earliest transcriptional regulator of cardiac progenitors in multiple species and represents an excellent candidate for the investigation of relevant targets during cardiovascular development. We report here that both depletion and mutation of Mespaa the zebrafish homolog of mammalian Mesp1 lead to randomization of cardiac looping together with significant cardiac morphogenesis defects. These disruptions are preceded by a defect in cardiac left right asymmetry. Surprisingly the defect in asymmetry was found to occur independently of defects in the transient organ of laterality the Kupffer’s vesicle KV. We show that Mespaa regulates miR 430 expression during gastrulation to control the levels of Nodal signaling and that this regulation is required for asymmetric laterality signaling in the prospective heart field. Ectopic expression of miR 430 is sufficient to induce cardiac laterality defects and consistent with Mespaa over expression in this system the reduction of miR 430 leads to cardia bifida. This study reveals a novel transcriptional regulation of miR 430 by Mespaa and a role for this pathway in cardiac laterality during gastrulation.			Danio rerio injected with mespaa morpholino 5.5hpf	Zebrafish injected with mespaa morpholino		strain:Ekkwill\|dev stage:5.5hpf\|sex:pooled male and female\|tissue:whole embryo\|BioSampleModel:Model organism or animal	Zebrafish Mespaa regulates miR 430 expression during gastrulation and initiates cardiac laterality	RNAseq analysis of mespaa knockdown embryos	Zebrafish injected with mespaa morpholino replicate 1	1			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>100</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>	SRP056748		loader:latf load	Mespa-190413_CACACA_L008_R2.fastq.gz Mespa-190413_CACACA_L008_R1.fastq.gz	fastq fastq	715965164.0	3668538.0	RNAseq Danio rerio 5.5hpf mespaa morpholino replicate1	0:101 1:101	A:203464307;C:144071219;G:148845038;T:209200873;N:10383727	101	101	203464307	144071219	148845038	209200873	10383727	SRX974390	SRS889614	SRA249481	Gladstone Institute\|Bioinformatics	Gladstone Institutes	2	0.86222	0.8307	0.14165	0.17545	0.7624	0.84415	0.65454	0.64758	101	101	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	United States	2015-04-07	Gastrula	Embryo	Whole Organism	All anatomical structures
49742	49742	SRR8197481	SRX5016863	SRS4049994	SRP169068	PRJNA495892	Danio rerio Genome sequencing	PRJNA495892	Whole Genome Sequencing	Transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		three samples of zebrafish unfertilized eggs and three samples zebrafish fries at the stage of prim5.	Model organism or animal sample from Danio rerio	The transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		isolate:zebrafish unfertilized eggs and zebrafish fries at the prim5 stage\|dev stage:2 stages of unfertilized egg and prim 5\|sex:pooled male and female\|tissue:zebrafish in 2 stages of unfertilized egg and prim 5\|BioSampleModel:Model organism or animal	RNA Seq of Danio rerio: prim5 stage	Z2 3 F	Z2 3 F	The unfertilized eggs of zebrafish were taken as three samples Z1 1 Z1 2 and Z1 3 respectively. And the fries of zebrafish were taken as three samples Z2 1 Z2 2 and Z2 3 in the prim5 stage.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP169068			Z2_3_1.fq.gz Z2_3_2.fq.gz	fastq fastq	6979181500.0	27916726.0	Z2 3 1.fq.gz	0:125 1:125	A:1822429760;C:1670132153;G:1694226275;T:1791552753;N:840559	125	125	1822429760	1670132153	1694226275	1791552753	840559	SRX5016863	SRS4049994	SRA810793	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.9586	0.9518	0.02217	0.02129	0.81022	0.80921	0.50342	0.51319	125	125	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2018-11-16	Multi-stage	Embryo	Oocyte	Reproductive System
49743	49743	SRR8197482	SRX5016862	SRS4049994	SRP169068	PRJNA495892	Danio rerio Genome sequencing	PRJNA495892	Whole Genome Sequencing	Transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		three samples of zebrafish unfertilized eggs and three samples zebrafish fries at the stage of prim5.	Model organism or animal sample from Danio rerio	The transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		isolate:zebrafish unfertilized eggs and zebrafish fries at the prim5 stage\|dev stage:2 stages of unfertilized egg and prim 5\|sex:pooled male and female\|tissue:zebrafish in 2 stages of unfertilized egg and prim 5\|BioSampleModel:Model organism or animal	RNA Seq of Danio rerio: prim5 stage	Z2 1 F	Z2 1 F	The unfertilized eggs of zebrafish were taken as three samples Z1 1 Z1 2 and Z1 3 respectively. And the fries of zebrafish were taken as three samples Z2 1 Z2 2 and Z2 3 in the prim5 stage.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP169068			Z2_1_2.fq.gz Z2_1_1.fq.gz	fastq fastq	6728695750.0	26914783.0	Z2 1 1.fq.gz	0:125 1:125	A:1732100690;C:1624557456;G:1649046037;T:1722193010;N:798557	125	125	1732100690	1624557456	1649046037	1722193010	798557	SRX5016862	SRS4049994	SRA810793	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.9585	0.95335	0.01902	0.01833	0.8131	0.81014	0.48431	0.493	125	125	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2018-11-16	Multi-stage	Embryo	Oocyte	Reproductive System
49744	49744	SRR8197483	SRX5016861	SRS4049994	SRP169068	PRJNA495892	Danio rerio Genome sequencing	PRJNA495892	Whole Genome Sequencing	Transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		three samples of zebrafish unfertilized eggs and three samples zebrafish fries at the stage of prim5.	Model organism or animal sample from Danio rerio	The transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		isolate:zebrafish unfertilized eggs and zebrafish fries at the prim5 stage\|dev stage:2 stages of unfertilized egg and prim 5\|sex:pooled male and female\|tissue:zebrafish in 2 stages of unfertilized egg and prim 5\|BioSampleModel:Model organism or animal	RNA Seq of Danio rerio: unfertilized egg	Z1 3 F	Z1 3 F	The unfertilized eggs of zebrafish were taken as three samples Z1 1 Z1 2 and Z1 3 respectively. And the fries of zebrafish were taken as three samples Z2 1 Z2 2 and Z2 3 in the prim5 stage.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP169068			Z1_3_1.fq.gz Z1_3_2.fq.gz	fastq fastq	6657035500.0	26628142.0	Z1 3 1.fq.gz	0:125 1:125	A:1796541492;C:1535300915;G:1557971133;T:1766443902;N:778058	125	125	1796541492	1535300915	1557971133	1766443902	778058	SRX5016861	SRS4049994	SRA810793	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.95543	0.94989	0.02312	0.02201	0.79689	0.79421	0.51212	0.51203	125	125	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2018-11-16	Multi-stage	Embryo	Oocyte	Reproductive System
49745	49745	SRR8197484	SRX5016860	SRS4049994	SRP169068	PRJNA495892	Danio rerio Genome sequencing	PRJNA495892	Whole Genome Sequencing	Transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		three samples of zebrafish unfertilized eggs and three samples zebrafish fries at the stage of prim5.	Model organism or animal sample from Danio rerio	The transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		isolate:zebrafish unfertilized eggs and zebrafish fries at the prim5 stage\|dev stage:2 stages of unfertilized egg and prim 5\|sex:pooled male and female\|tissue:zebrafish in 2 stages of unfertilized egg and prim 5\|BioSampleModel:Model organism or animal	RNA Seq of Danio rerio: unfertilized egg	Z1 2 F	Z1 2 F	The unfertilized eggs of zebrafish were taken as three samples Z1 1 Z1 2 and Z1 3 respectively. And the fries of zebrafish were taken as three samples Z2 1 Z2 2 and Z2 3 in the prim5 stage.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP169068			Z1_2_1.fq.gz Z1_2_2.fq.gz	fastq fastq	8869328500.0	35477314.0	Z1 2 1.fq.gz	0:125 1:125	A:2367358711;C:2085652811;G:2116692954;T:2298597848;N:1026176	125	125	2367358711	2085652811	2116692954	2298597848	1026176	SRX5016860	SRS4049994	SRA810793	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.95776	0.95084	0.01896	0.01811	0.79823	0.79608	0.49565	0.49345	125	125	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2018-11-18	Multi-stage	Embryo	Oocyte	Reproductive System
49746	49746	SRR8197485	SRX5016859	SRS4049994	SRP169068	PRJNA495892	Danio rerio Genome sequencing	PRJNA495892	Whole Genome Sequencing	Transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		three samples of zebrafish unfertilized eggs and three samples zebrafish fries at the stage of prim5.	Model organism or animal sample from Danio rerio	The transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		isolate:zebrafish unfertilized eggs and zebrafish fries at the prim5 stage\|dev stage:2 stages of unfertilized egg and prim 5\|sex:pooled male and female\|tissue:zebrafish in 2 stages of unfertilized egg and prim 5\|BioSampleModel:Model organism or animal	RNA Seq of Danio rerio: unfertilized egg	Z1 1 F	Z1 1 F	The unfertilized eggs of zebrafish were taken as three samples Z1 1 Z1 2 and Z1 3 respectively. And the fries of zebrafish were taken as three samples Z2 1 Z2 2 and Z2 3 in the prim5 stage.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP169068			Z1_1_1.fq.gz Z1_1_2.fq.gz	fastq fastq	7205390500.0	28821562.0	Z1 1 1.fq.gz	0:125 1:125	A:1900562357;C:1700185416;G:1728383049;T:1875415232;N:844446	125	125	1900562357	1700185416	1728383049	1875415232	844446	SRX5016859	SRS4049994	SRA810793	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.95593	0.95003	0.01844	0.01778	0.80064	0.80008	0.4858	0.48331	125	125	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2018-11-18	Multi-stage	Embryo	Oocyte	Reproductive System
49747	49747	SRR8197486	SRX5016858	SRS4049994	SRP169068	PRJNA495892	Danio rerio Genome sequencing	PRJNA495892	Whole Genome Sequencing	Transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		three samples of zebrafish unfertilized eggs and three samples zebrafish fries at the stage of prim5.	Model organism or animal sample from Danio rerio	The transcriptome data of zebrafish in two stages of unfertilized egg and prim 5.		isolate:zebrafish unfertilized eggs and zebrafish fries at the prim5 stage\|dev stage:2 stages of unfertilized egg and prim 5\|sex:pooled male and female\|tissue:zebrafish in 2 stages of unfertilized egg and prim 5\|BioSampleModel:Model organism or animal	RNA Seq of Danio rerio: prim5 stage	Z2 2 F	Z2 2 F	The unfertilized eggs of zebrafish were taken as three samples Z1 1 Z1 2 and Z1 3 respectively. And the fries of zebrafish were taken as three samples Z2 1 Z2 2 and Z2 3 in the prim5 stage.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP169068			Z2_2_2.fq.gz Z2_2_1.fq.gz	fastq fastq	7724266250.0	30897065.0	Z2 2 1.fq.gz	0:125 1:125	A:1986625683;C:1864133349;G:1894026843;T:1978566785;N:913590	125	125	1986625683	1864133349	1894026843	1978566785	913590	SRX5016858	SRS4049994	SRA810793	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.95577	0.94831	0.01968	0.01899	0.80793	0.80667	0.48789	0.48551	125	125	B	B	biological fallback assumption	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2018-11-16	Multi-stage	Embryo	Oocyte	Reproductive System
50511	50511	SRR8293425	SRX5108028	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	2 3K D03 1	2 3K D03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160828_125709_42199_c101055502550000001823247601061763_s1_p0.1.bax.h5 m160828_125709_42199_c101055502550000001823247601061763_s1_p0.2.bax.h5 m160828_125709_42199_c101055502550000001823247601061763_s1_p0.3.bax.h5 m160828_125709_42199_c101055502550000001823247601061763_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	3189114337.0	163482.0	2 3K D03 1.tar.gz		A:1019691460;C:775938787;G:628460211;T:736274173;N:0			1019691460	775938787	628460211	736274173	0	SRX5108028	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50512	50512	SRR8293426	SRX5108027	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	2 3K E03 1	2 3K E03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160828_171546_42199_c101055502550000001823247601061764_s1_p0.1.bax.h5 m160828_171546_42199_c101055502550000001823247601061764_s1_p0.2.bax.h5 m160828_171546_42199_c101055502550000001823247601061764_s1_p0.3.bax.h5 m160828_171546_42199_c101055502550000001823247601061764_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	3603145484.0	163482.0	2 3K E03 1.tar.gz		A:1041332538;C:789941375;G:785608794;T:952634306;N:0			1041332538	789941375	785608794	952634306	0	SRX5108027	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50513	50513	SRR8293427	SRX5108026	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	1 2K D05 1	1 2K D05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160831_064528_42199_c101016682550000001823228410211623_s1_p0.1.bax.h5 m160831_064528_42199_c101016682550000001823228410211623_s1_p0.2.bax.h5 m160831_064528_42199_c101016682550000001823228410211623_s1_p0.3.bax.h5 m160831_064528_42199_c101016682550000001823228410211623_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	4494598972.0	163482.0	1 2K D05 1.tar.gz		A:1263523570;C:919488657;G:1005901638;T:1241749988;N:0			1263523570	919488657	1005901638	1241749988	0	SRX5108026	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50514	50514	SRR8293428	SRX5108025	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	1 2K E05 1	1 2K E05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160831_110725_42199_c101016682550000001823228410211624_s1_p0.1.bax.h5 m160831_110725_42199_c101016682550000001823228410211624_s1_p0.2.bax.h5 m160831_110725_42199_c101016682550000001823228410211624_s1_p0.3.bax.h5 m160831_110725_42199_c101016682550000001823228410211624_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	4610281055.0	163482.0	1 2K E05 1.tar.gz		A:1313884618;C:971754386;G:994748647;T:1264950574;N:0			1313884618	971754386	994748647	1264950574	0	SRX5108025	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50515	50515	SRR8293429	SRX5108024	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	1 2K F03 1	1 2K F03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160828_213458_42199_c101055502550000001823247601061765_s1_p0.1.bax.h5 m160828_213458_42199_c101055502550000001823247601061765_s1_p0.2.bax.h5 m160828_213458_42199_c101055502550000001823247601061765_s1_p0.3.bax.h5 m160828_213458_42199_c101055502550000001823247601061765_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	6488051235.0	163482.0	1 2K F03 1.tar.gz		A:1835535517;C:1366315971;G:1464006715;T:1752025312;N:0			1835535517	1366315971	1464006715	1752025312	0	SRX5108024	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50516	50516	SRR8293430	SRX5108023	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	1 2K G05 1	1 2K G05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160829_020016_42199_c101055502550000001823247601061766_s1_p0.1.bax.h5 m160829_020016_42199_c101055502550000001823247601061766_s1_p0.2.bax.h5 m160829_020016_42199_c101055502550000001823247601061766_s1_p0.3.bax.h5 m160829_020016_42199_c101055502550000001823247601061766_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	6326394753.0	163482.0	1 2K G03 1.tar.gz		A:1844148357;C:1410947877;G:1367704673;T:1640545786;N:0			1844148357	1410947877	1367704673	1640545786	0	SRX5108023	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50517	50517	SRR8293431	SRX5108022	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	0.5 1K E03 1	0.5 1K E03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160921_142928_42199_c100979762550000001823212907061657_s1_X0.bas.h5 m160921_142928_42199_c100979762550000001823212907061657_s1_X0.3.bax.h5 m160921_142928_42199_c100979762550000001823212907061657_s1_X0.2.bax.h5 m160921_142928_42199_c100979762550000001823212907061657_s1_X0.1.bax.h5	pacbio_native pacbio_native pacbio_native pacbio_native	1906153604.0	163482.0	0.5 1K E03 1.tar.gz		A:568523342;C:407560314;G:389613623;T:500427928;N:0			568523342	407560314	389613623	500427928	0	SRX5108022	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-08	Zygote	Embryo	Gonad	Reproductive System
50518	50518	SRR8293432	SRX5108021	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	0.5 1K F03 1	0.5 1K F03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160921_184841_42199_c101055652550000001823238312291647_s1_p0.1.bax.h5 m160921_184841_42199_c101055652550000001823238312291647_s1_p0.2.bax.h5 m160921_184841_42199_c101055652550000001823238312291647_s1_p0.3.bax.h5 m160921_184841_42199_c101055652550000001823238312291647_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	4156910909.0	163482.0	0.5 1K F03 1.tar.gz		A:1183616929;C:878682771;G:890537851;T:1136413189;N:0			1183616929	878682771	890537851	1136413189	0	SRX5108021	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50519	50519	SRR8293433	SRX5108020	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	0.5 1K G03 1	0.5 1K G03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160829_063211_42199_c101055502550000001823247601061767_s1_p0.bas.h5 m160829_063211_42199_c101055502550000001823247601061767_s1_p0.3.bax.h5 m160829_063211_42199_c101055502550000001823247601061767_s1_p0.2.bax.h5 m160829_063211_42199_c101055502550000001823247601061767_s1_p0.1.bax.h5	pacbio_native pacbio_native pacbio_native pacbio_native	5660530911.0	163482.0	0.5 1K H03 1.tar.gz		A:1835439052;C:1406954743;G:1037776936;T:1307349158;N:0			1835439052	1406954743	1037776936	1307349158	0	SRX5108020	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-08	Zygote	Embryo	Gonad	Reproductive System
50520	50520	SRR8293434	SRX5108019	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	1 2K C05 1	1 2K C05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160831_022615_42199_c101016682550000001823228410211622_s1_p0.1.bax.h5 m160831_022615_42199_c101016682550000001823228410211622_s1_p0.2.bax.h5 m160831_022615_42199_c101016682550000001823228410211622_s1_p0.3.bax.h5 m160831_022615_42199_c101016682550000001823228410211622_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	3047073997.0	163482.0	1 2K C05 1.tar.gz		A:862003813;C:632482019;G:660595007;T:843966997;N:0			862003813	632482019	660595007	843966997	0	SRX5108019	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50521	50521	SRR8293435	SRX5108018	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	2 3K F05 1	2 3K F05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160831_152721_42199_c101016682550000001823228410211625_s1_p0.1.bax.h5 m160831_152721_42199_c101016682550000001823228410211625_s1_p0.2.bax.h5 m160831_152721_42199_c101016682550000001823228410211625_s1_p0.3.bax.h5 m160831_152721_42199_c101016682550000001823228410211625_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	3504827488.0	163482.0	2 3K F05 1.tar.gz		A:1035191904;C:787763869;G:735456262;T:916015813;N:0			1035191904	787763869	735456262	916015813	0	SRX5108018	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50522	50522	SRR8293436	SRX5108017	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	2 3K G05 1	2 3K G05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160831_195005_42199_c101016682550000001823228410211626_s1_p0.1.bax.h5 m160831_195005_42199_c101016682550000001823228410211626_s1_p0.2.bax.h5 m160831_195005_42199_c101016682550000001823228410211626_s1_p0.3.bax.h5 m160831_195005_42199_c101016682550000001823228410211626_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	3325636539.0	163482.0	2 3K G05 1.tar.gz		A:945624516;C:712334057;G:726829680;T:910995593;N:0			945624516	712334057	726829680	910995593	0	SRX5108017	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50523	50523	SRR8293437	SRX5108016	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	2 3K H05 1	2 3K H05 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160901_000924_42199_c101016682550000001823228410211627_s1_p0.1.bax.h5 m160901_000924_42199_c101016682550000001823228410211627_s1_p0.2.bax.h5 m160901_000924_42199_c101016682550000001823228410211627_s1_p0.3.bax.h5 m160901_000924_42199_c101016682550000001823228410211627_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	3219471171.0	163482.0	2 3K H05 1.tar.gz		A:955121582;C:717645710;G:671893655;T:846270302;N:0			955121582	717645710	671893655	846270302	0	SRX5108016	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50524	50524	SRR8293438	SRX5108015	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	3K plus C03 1	3K plus C03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160828_083719_42199_c101055502550000001823247601061762_s1_p0.1.bax.h5 m160828_083719_42199_c101055502550000001823247601061762_s1_p0.2.bax.h5 m160828_083719_42199_c101055502550000001823247601061762_s1_p0.3.bax.h5 m160828_083719_42199_c101055502550000001823247601061762_s1_p0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	2241335194.0	163482.0	3K plus C03 1.tar.gz		A:714450646;C:554512788;G:442348736;T:513624736;N:0			714450646	554512788	442348736	513624736	0	SRX5108015	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50525	50525	SRR8293439	SRX5108014	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	3K plus G03 1	3K plus G03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160921_231100_42199_c100829932550000001823181912311557_s1_X0.1.bax.h5 m160921_231100_42199_c100829932550000001823181912311557_s1_X0.2.bax.h5 m160921_231100_42199_c100829932550000001823181912311557_s1_X0.3.bax.h5 m160921_231100_42199_c100829932550000001823181912311557_s1_X0.bas.h5	pacbio_native pacbio_native pacbio_native pacbio_native	1500621674.0	163482.0	3K plus G03 1.tar.gz		A:461686513;C:353289117;G:298838025;T:376337789;N:0			461686513	353289117	298838025	376337789	0	SRX5108014	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-10	Zygote	Embryo	Gonad	Reproductive System
50526	50526	SRR8293440	SRX5108013	SRS4117494	SRP172911	PRJNA498365	Raw sequence reads in the unfertilized eggs of zebrafish Danio rerio	PRJNA498365	Other	Raw sequence reads of full length transcriptome sequencing in the unfertilized eggs of zebrafish Danio rerio.		Three female zebrafish were selected and 100 unfertilized eggs from each female were harvested as three samples Z1 1 Z1 2 and Z1 3 respectively; Identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.	Model organism or animal sample from Danio rerio	unfertilized eggs from three female zebrafish were harvested as samples Z1 M		isolate:3 female zebrafish were selected and 100 unfertilized eggs from each female were harvested as 3 samples Z1 1 Z1 2 and Z1 3 respectively; and identical quantities of RNA from Z1 1 Z1 2 and Z1 3 were combined into sample Z1 M.\|dev stage:unfertilized egg\|sex:female\|tissue:ovary\|BioSampleModel:Model organism or animal	Full length transcriptome sequencing of zebrafish Danio rerio : adult female unfertilized eggs.	3K plus H03 1	3K plus H03 1	RNA sample Z1 M was reverse transcribed into cDNA. Four fragment ranges 0.5 1K 1 2K 2 3K and >3K were prepared according to the PacBio Iso Seq protocol. PacBio RS II sequencing reactions of 16 SMRT single molecule real time cells 3 cells of 0.5 1K 5 cells of 1 2K 5 cells of 2 3K 3 cells of >3K were performed in DNA Sequencing Reagent 4.0 Clontech Mountain View California USA.			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	PACBIO_SMRT	PacBio RS II		SRP172911			m160922_033036_42199_c101055332550000001823238312291650_s1_p0.bas.h5 m160922_033036_42199_c101055332550000001823238312291650_s1_p0.3.bax.h5 m160922_033036_42199_c101055332550000001823238312291650_s1_p0.2.bax.h5 m160922_033036_42199_c101055332550000001823238312291650_s1_p0.1.bax.h5	pacbio_native pacbio_native pacbio_native pacbio_native	2783940881.0	163482.0	3K plus H03 1.tar.gz		A:785688594;C:616582821;G:618500268;T:743803835;N:0			785688594	616582821	618500268	743803835	0	SRX5108013	SRS4117494	SRA820074	Institute of Hydrobiology, Chinese Academy of Sciences\|State Key Laboratory of Freshwater Ecology and Bio	Institute of Hydrobiology, Chinese Academy of Sciences															pacbio	pacbio_early	full_length	random_priming	unknown	bulk	unknown	unknown	China	2018-12-08	Zygote	Embryo	Gonad	Reproductive System
60445	60445	SRR12272862	SRX8777892	SRS7048444	SRP272672	PRJNA647444	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemiRNA	PRJNA647444	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C2	C2 C2 2 4		replicate:biological replicate 2\|strain:AB\|isolate:C2\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:100ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C2C220200712	C2C220200712	RNA seq of zebrafish in different conditions			miRNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP272672		loader:fastq load.py	C2_C2_2_4.fq	fastq	542610936.0	21965958.0	C2 C2 2 4.fq.gz	0:24.70	A:95221617;C:122628624;G:167025611;T:157730855;N:4229	24		95221617	122628624	167025611	157730855	4229	SRX8777892	SRS7048444	SRA1101037	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.8119		0.10745		0.85717		0.51338		22		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-08-05	Undetermined	Embryo	Whole Organism	All anatomical structures
60446	60446	SRR12272863	SRX8777891	SRS7048443	SRP272672	PRJNA647444	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemiRNA	PRJNA647444	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C2	C2 C2 1 4		replicate:biological replicate 1\|strain:AB\|isolate:C2\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:100ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C2C220200711	C2C220200711	RNA seq of zebrafish in different conditions			miRNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP272672		loader:fastq load.py	C2_C2_1_4.fq	fastq	542847476.0	22614181.0	C2 C2 1 4.fq.gz	0:24.00	A:99999101;C:125407906;G:162383758;T:155055099;N:1612	24		99999101	125407906	162383758	155055099	1612	SRX8777891	SRS7048443	SRA1101037	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.84327		0.10491		0.83256		0.52046		19		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-08-05	Undetermined	Embryo	Whole Organism	All anatomical structures
60447	60447	SRR12272864	SRX8777890	SRS7048442	SRP272672	PRJNA647444	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemiRNA	PRJNA647444	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C1	C1 C1 2 4		replicate:biological replicate 2\|strain:AB\|isolate:C1\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:1ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C1C120200712	C1C120200712	RNA seq of zebrafish in different conditions			miRNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP272672		loader:fastq load.py	C1_C1_2_4.fq	fastq	570918284.0	22577002.0	C1 C1 2 4.fq.gz	0:25.29	A:100121235;C:130480588;G:178656113;T:161652765;N:7583	25		100121235	130480588	178656113	161652765	7583	SRX8777890	SRS7048442	SRA1101037	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.85096		0.12542		0.82873		0.51535		22		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-08-05	Undetermined	Embryo	Whole Organism	All anatomical structures
60448	60448	SRR12272865	SRX8777889	SRS7048441	SRP272672	PRJNA647444	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemiRNA	PRJNA647444	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C1	C1 C1 1 4		replicate:biological replicate 1\|strain:AB\|isolate:C1\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:1ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C1C120200711	C1C120200711	RNA seq of zebrafish in different conditions			miRNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP272672		loader:fastq load.py	C1_C1_1_4.fq	fastq	545089417.0	22812164.0	C1 C1 1 4.fq.gz	0:23.89	A:99851844;C:125314095;G:166401335;T:153521167;N:976	23		99851844	125314095	166401335	153521167	976	SRX8777889	SRS7048441	SRA1101037	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.84602		0.11725		0.83159		0.51353		19		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-08-05	Undetermined	Embryo	Whole Organism	All anatomical structures
60449	60449	SRR12272866	SRX8777888	SRS7048440	SRP272672	PRJNA647444	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemiRNA	PRJNA647444	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C0	C0 C0 2 4		replicate:biological replicate 2\|strain:AB\|isolate:C0\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:0ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C0C020200712	C0C020200712	RNA seq of zebrafish in different conditions			miRNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP272672		loader:fastq load.py	C0_C0_2_4.fq	fastq	527443144.0	23174740.0	C0 C0 2 4.fq.gz	0:22.76	A:102368401;C:120843229;G:151690193;T:152540806;N:515	22		102368401	120843229	151690193	152540806	515	SRX8777888	SRS7048440	SRA1101037	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.83063		0.08114		0.85169		0.50894		16		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-08-05	Undetermined	Embryo	Whole Organism	All anatomical structures
60450	60450	SRR12272867	SRX8777887	SRS7048439	SRP272672	PRJNA647444	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemiRNA	PRJNA647444	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C0	C0 C0 1 4		replicate:biological replicate 1\|strain:AB\|isolate:C0\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:0ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C0C020200711	C0C020200711	RNA seq of zebrafish in different conditions			miRNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP272672		loader:fastq load.py	C0_C0_1_4.fq	fastq	511759408.0	22673361.0	C0 C0 1 4.fq.gz	0:22.57	A:100879182;C:120237907;G:142799495;T:147842595;N:229	22		100879182	120237907	142799495	147842595	229	SRX8777887	SRS7048439	SRA1101037	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.83904		0.0823		0.84741		0.49929		22		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-08-05	Undetermined	Embryo	Whole Organism	All anatomical structures
60496	60496	SRR12328853	SRX8829078	SRS7048444	SRP273655	PRJNA648800	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemRNA	PRJNA648800	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C2	C2 C2 2 4		replicate:biological replicate 2\|strain:AB\|isolate:C2\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:100ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C2C220200712	C2C220200712	RNA seq of zebrafish in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	BGISEQ	BGISEQ-500		SRP273655			C2_C2_2_4_1.fq.gz C2_C2_2_4_2.fq.gz	fastq fastq	6974294600.0	69742946.0	C2 C2 2 4 1.fq.gz	0:100 1:100	A:2057162032;C:1418016219;G:1425580374;T:2073535975;N:0	100	100	2057162032	1418016219	1425580374	2073535975	0	SRX8829078	SRS7048444	SRA1103962	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.93171		0.17455		0.71626		0.54961		100		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-07-27	Undetermined	Embryo	Whole Organism	All anatomical structures
60497	60497	SRR12328854	SRX8829077	SRS7048443	SRP273655	PRJNA648800	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemRNA	PRJNA648800	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C2	C2 C2 1 4		replicate:biological replicate 1\|strain:AB\|isolate:C2\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:100ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C2C220200711	C2C220200711	RNA seq of zebrafish in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	BGISEQ	BGISEQ-500		SRP273655			C2_C2_1_4_2.fq.gz C2_C2_1_4_1.fq.gz	fastq fastq	6942905200.0	69429052.0	C2 C2 1 4 1.fq.gz	0:100 1:100	A:2025129308;C:1433430820;G:1434784226;T:2049560846;N:0	100	100	2025129308	1433430820	1434784226	2049560846	0	SRX8829077	SRS7048443	SRA1103962	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.93211		0.16662		0.71001		0.53674		100		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-07-27	Undetermined	Embryo	Whole Organism	All anatomical structures
60498	60498	SRR12328855	SRX8829076	SRS7048442	SRP273655	PRJNA648800	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemRNA	PRJNA648800	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C1	C1 C1 2 4		replicate:biological replicate 2\|strain:AB\|isolate:C1\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:1ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C1C120200712	C1C120200712	RNA seq of zebrafish in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	BGISEQ	BGISEQ-500		SRP273655			C1_C1_2_4_1.fq.gz C1_C1_2_4_2.fq.gz	fastq fastq	6973657600.0	69736576.0	C1 C1 2 4 1.fq.gz	0:100 1:100	A:2050440259;C:1423350359;G:1423015668;T:2076851314;N:0	100	100	2050440259	1423350359	1423015668	2076851314	0	SRX8829076	SRS7048442	SRA1103962	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.92911		0.1877		0.72025		0.58085		100		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-07-27	Undetermined	Embryo	Whole Organism	All anatomical structures
60499	60499	SRR12328856	SRX8829075	SRS7048441	SRP273655	PRJNA648800	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemRNA	PRJNA648800	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C1	C1 C1 1 4		replicate:biological replicate 1\|strain:AB\|isolate:C1\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:1ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C1C120200711	C1C120200711	RNA seq of zebrafish in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	BGISEQ	BGISEQ-500		SRP273655			C1_C1_1_4_1.fq.gz C1_C1_1_4_2.fq.gz	fastq fastq	6746729200.0	67467292.0	C1 C1 1 4 1.fq.gz	0:100 1:100	A:2004203843;C:1356765594;G:1357760526;T:2027999237;N:0	100	100	2004203843	1356765594	1357760526	2027999237	0	SRX8829075	SRS7048441	SRA1103962	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.92733		0.19903		0.72228		0.59259		100		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-07-27	Undetermined	Embryo	Whole Organism	All anatomical structures
60500	60500	SRR12328857	SRX8829074	SRS7048440	SRP273655	PRJNA648800	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemRNA	PRJNA648800	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C0	C0 C0 2 4		replicate:biological replicate 2\|strain:AB\|isolate:C0\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:0ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C0C020200712	C0C020200712	RNA seq of zebrafish in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	BGISEQ	BGISEQ-500		SRP273655			C0_C0_2_4_1.fq.gz C0_C0_2_4_2.fq.gz	fastq fastq	6924724800.0	69247248.0	C0 C0 2 4 1.fq.gz	0:100 1:100	A:1974618038;C:1471821932;G:1482725702;T:1995559128;N:0	100	100	1974618038	1471821932	1482725702	1995559128	0	SRX8829074	SRS7048440	SRA1103962	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.93473		0.14676		0.69649		0.50413		100		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-07-27	Undetermined	Embryo	Whole Organism	All anatomical structures
60501	60501	SRR12328858	SRX8829073	SRS7048439	SRP273655	PRJNA648800	mRNA and miRNA Seq in offspring post parental exposure to an antibiotic mixturemRNA	PRJNA648800	Other	Zebrafish embryos were exposed to environmentally relevant levels 1 and 100 ug/L of antibiotic mixtures 15 of the most commonly detected antibiotics for 150 days until sexual maturation. miRNA mRNA network analysis in offspring post parental exposure to an antibiotic mixture.			C0	C0 C0 1 4		replicate:biological replicate 1\|strain:AB\|isolate:C0\|breed:not applicable\|cultivar:not applicable\|ecotype:not applicable\|age:not applicable\|dev stage:not applicable\|sex:pooled male and female\|tissue:the whole\|collection date:2019 11 01\|geo loc name:China: Shenzhen Guangdong\|phenotype:0ug/L\|BioSampleModel:Model organism or animal	RNA seq of zebrafish	C0C020200711	C0C020200711	RNA seq of zebrafish in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	BGISEQ	BGISEQ-500		SRP273655			C0_C0_1_4_1.fq.gz C0_C0_1_4_2.fq.gz	fastq fastq	6899505600.0	68995056.0	C0 C0 1 4 1.fq.gz	0:100 1:100	A:1957459931;C:1477351919;G:1482435319;T:1982258431;N:0	100	100	1957459931	1477351919	1482435319	1982258431	0	SRX8829073	SRS7048439	SRA1103962	Southern University of Science and Technology\|School of Environmental Science and Engineering	Southern University of Science and Technology	1	0.93567		0.14057		0.6883		0.48707		100		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2020-07-27	Undetermined	Embryo	Whole Organism	All anatomical structures
64161	64161	SRR14308450	SRX10663886	SRS8758306	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					D1		strain:AB10\|age:24hpf10\|dev stage:24hpf10\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB10	L10	L10	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			D1.raw_1.fastq.gz D1.raw_2.fastq.gz	fastq fastq	6493890000.0	21646300.0	D1.raw 1.fastq.gz	0:150 1:150	A:1744755708;C:1484305355;G:1549325281;T:1715269253;N:234403	150	150	1744755708	1484305355	1549325281	1715269253	234403	SRX10663886	SRS8758306	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94046	0.93893	0.09092	0.08953	0.69179	0.6957	0.47163	0.4711	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64162	64162	SRR14308451	SRX10663885	SRS8758305	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					C3		strain:AB9\|age:24hpf9\|dev stage:24hpf9\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB9	L9	L9	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			C3.raw_1.fastq.gz C3.raw_2.fastq.gz	fastq fastq	6301176600.0	21003922.0	C3.raw 1.fastq.gz	0:150 1:150	A:1665737962;C:1471580978;G:1530541563;T:1633084943;N:231154	150	150	1665737962	1471580978	1530541563	1633084943	231154	SRX10663885	SRS8758305	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.93548	0.93245	0.07291	0.07262	0.76479	0.76779	0.47781	0.4799	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Cell Line	Cell Line
64163	64163	SRR14308452	SRX10663884	SRS8758304	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					C2		strain:AB8\|age:24hpf8\|dev stage:24hpf8\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB8	L8	L8	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			C2.raw_1.fastq.gz C2.raw_2.fastq.gz	fastq fastq	5887783500.0	19625945.0	C2.raw 1.fastq.gz	0:150 1:150	A:1539979565;C:1392825547;G:1451253488;T:1503541801;N:183099	150	150	1539979565	1392825547	1451253488	1503541801	183099	SRX10663884	SRS8758304	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94543	0.94466	0.06666	0.06614	0.73342	0.73468	0.46413	0.46432	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64164	64164	SRR14308453	SRX10663883	SRS8758303	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					C1		strain:AB7\|age:24hpf7\|dev stage:24hpf7\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB7	L7	L7	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			C1.raw_1.fastq.gz C1.raw_2.fastq.gz	fastq fastq	5878215900.0	19594053.0	C1.raw 1.fastq.gz	0:150 1:150	A:1567876584;C:1356626287;G:1407943115;T:1545550803;N:219111	150	150	1567876584	1356626287	1407943115	1545550803	219111	SRX10663883	SRS8758303	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.93508	0.93337	0.08056	0.08002	0.74024	0.74276	0.47159	0.47142	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64165	64165	SRR14308454	SRX10663882	SRS8758302	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					B3		strain:AB6\|age:24hpf6\|dev stage:24hpf6\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB6	L6	L6	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			B3.raw_1.fastq.gz B3.raw_2.fastq.gz	fastq fastq	5684530200.0	18948434.0	B3.raw 1.fastq.gz	0:150 1:150	A:1468959527;C:1362254368;G:1409533547;T:1443570573;N:212185	150	150	1468959527	1362254368	1409533547	1443570573	212185	SRX10663882	SRS8758302	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.74739	0.74464	0.07384	0.07335	0.72671	0.72977	0.46742	0.47358	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64166	64166	SRR14308455	SRX10663881	SRS8758301	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					B2		strain:AB5\|age:24hpf5\|dev stage:24hpf5\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB5	L5	L5	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			B2.raw_1.fastq.gz B2.raw_2.fastq.gz	fastq fastq	6605542500.0	22018475.0	B2.raw 1.fastq.gz	0:150 1:150	A:1776549620;C:1511937358;G:1570716255;T:1746097273;N:241994	150	150	1776549620	1511937358	1570716255	1746097273	241994	SRX10663881	SRS8758301	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94479	0.94309	0.09199	0.09117	0.7024	0.70445	0.46871	0.46925	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64167	64167	SRR14308456	SRX10663880	SRS8758300	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					B1		strain:AB4\|age:24hpf4\|dev stage:24hpf4\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB4	L4	L4	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			B1.raw_1.fastq.gz B1.raw_2.fastq.gz	fastq fastq	5853655500.0	19512185.0	B1.raw 1.fastq.gz	0:150 1:150	A:1571488140;C:1342134462;G:1393752149;T:1546065949;N:214800	150	150	1571488140	1342134462	1393752149	1546065949	214800	SRX10663880	SRS8758300	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94318	0.94153	0.08642	0.08621	0.7024	0.70508	0.46359	0.46397	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64168	64168	SRR14308457	SRX10663879	SRS8758299	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					DD3		strain:AB24\|age:24hpf21\|dev stage:24hpf21\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB24	L24	L24	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			DD3.raw_1.fastq.gz DD3.raw_2.fastq.gz	fastq fastq	7608806100.0	25362687.0	DD3.raw 1.fastq.gz	0:150 1:150	A:2042994601;C:1734375022;G:1812166219;T:2018988826;N:281432	150	150	2042994601	1734375022	1812166219	2018988826	281432	SRX10663879	SRS8758299	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94225	0.94109	0.10828	0.10717	0.67436	0.6776	0.47781	0.48362	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64169	64169	SRR14308458	SRX10663878	SRS8758298	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					DD2		strain:AB23\|age:24hpf21\|dev stage:24hpf21\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB23	L23	L23	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			DD2.raw_1.fastq.gz DD2.raw_2.fastq.gz	fastq fastq	8917386000.0	29724620.0	DD2.raw 1.fastq.gz	0:150 1:150	A:2348537193;C:2056372655;G:2265284593;T:2246861797;N:329762	150	150	2348537193	2056372655	2265284593	2246861797	329762	SRX10663878	SRS8758298	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94502	0.94397	0.09162	0.09061	0.67444	0.67718	0.47862	0.47594	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64170	64170	SRR14308459	SRX10663877	SRS8758297	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					DD1		strain:AB22\|age:24hpf21\|dev stage:24hpf21\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB22	L22	L22	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			DD1.raw_1.fastq.gz DD1.raw_2.fastq.gz	fastq fastq	9206423700.0	30688079.0	DD1.raw 1.fastq.gz	0:150 1:150	A:2472225392;C:2105587795;G:2227426250;T:2400846522;N:337741	150	150	2472225392	2105587795	2227426250	2400846522	337741	SRX10663877	SRS8758297	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94554	0.94388	0.09791	0.09713	0.67176	0.67608	0.47029	0.46751	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-26	Pharyngula	Embryo	Whole Organism	All anatomical structures
64171	64171	SRR14308460	SRX10663876	SRS8758296	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					CC3		strain:AB21\|age:24hpf21\|dev stage:24hpf21\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB21	L21	L21	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			CC3.raw_1.fastq.gz CC3.raw_2.fastq.gz	fastq fastq	7960518600.0	26535062.0	CC3.raw 1.fastq.gz	0:150 1:150	A:2140265475;C:1813420444;G:1929113445;T:2077420579;N:298657	150	150	2140265475	1813420444	1929113445	2077420579	298657	SRX10663876	SRS8758296	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94251	0.94195	0.10311	0.10286	0.66703	0.66916	0.47505	0.4745	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64172	64172	SRR14308461	SRX10663875	SRS8758295	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					A3		strain:AB3\|age:24hpf3\|dev stage:24hpf3\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB3	L3	L3	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			A3.raw_1.fastq.gz A3.raw_2.fastq.gz	fastq fastq	6501644400.0	21672148.0	A3.raw 1.fastq.gz	0:150 1:150	A:1749736007;C:1484391807;G:1544667394;T:1722602072;N:247120	150	150	1749736007	1484391807	1544667394	1722602072	247120	SRX10663875	SRS8758295	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.93166	0.92874	0.09361	0.09274	0.69033	0.69382	0.4671	0.47232	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64173	64173	SRR14308462	SRX10663874	SRS8758294	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					CC2		strain:AB20\|age:24hpf20\|dev stage:24hpf20\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB20	L20	L20	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			CC2.raw_1.fastq.gz CC2.raw_2.fastq.gz	fastq fastq	6983705700.0	23279019.0	CC2.raw 1.fastq.gz	0:150 1:150	A:1893999424;C:1578088530;G:1645506692;T:1865862107;N:248947	150	150	1893999424	1578088530	1645506692	1865862107	248947	SRX10663874	SRS8758294	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94027	0.93898	0.11339	0.11255	0.66687	0.67044	0.47404	0.47154	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64174	64174	SRR14308463	SRX10663873	SRS8758293	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					CC1		strain:AB19\|age:24hpf19\|dev stage:24hpf19\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB19	L19	L19	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			CC1.raw_1.fastq.gz CC1.raw_2.fastq.gz	fastq fastq	6085625100.0	20285417.0	CC1.raw 1.fastq.gz	0:150 1:150	A:1649108440;C:1377973381;G:1437131820;T:1621215684;N:195775	150	150	1649108440	1377973381	1437131820	1621215684	195775	SRX10663873	SRS8758293	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.93918	0.93804	0.11318	0.11256	0.66754	0.67006	0.4771	0.47662	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64175	64175	SRR14308464	SRX10663872	SRS8758292	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					BB3		strain:AB18\|age:24hpf18\|dev stage:24hpf18\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB18	L18	L18	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			BB3.raw_1.fastq.gz BB3.raw_2.fastq.gz	fastq fastq	7062474600.0	23541582.0	BB3.raw 1.fastq.gz	0:150 1:150	A:1921863301;C:1592284161;G:1655846305;T:1892221736;N:259097	150	150	1921863301	1592284161	1655846305	1892221736	259097	SRX10663872	SRS8758292	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.93889	0.93837	0.11056	0.10986	0.66614	0.66933	0.47318	0.47131	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64176	64176	SRR14308465	SRX10663871	SRS8758291	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					BB2		strain:AB17\|age:24hpf17\|dev stage:24hpf17\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB17	L17	L17	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			BB2.raw_1.fastq.gz BB2.raw_2.fastq.gz	fastq fastq	8811666300.0	29372221.0	BB2.raw 1.fastq.gz	0:150 1:150	A:2397552932;C:1984902811;G:2068491247;T:2360394673;N:324637	150	150	2397552932	1984902811	2068491247	2360394673	324637	SRX10663871	SRS8758291	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94173	0.9408	0.11119	0.11014	0.66862	0.67361	0.47037	0.47102	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64177	64177	SRR14308466	SRX10663870	SRS8758290	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					BB1		strain:AB16\|age:24hpf16\|dev stage:24hpf16\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB16	L16	L16	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			BB1.raw_1.fastq.gz BB1.raw_2.fastq.gz	fastq fastq	7443202800.0	24810676.0	BB1.raw 1.fastq.gz	0:150 1:150	A:2006371139;C:1694257851;G:1793398929;T:1948895527;N:279354	150	150	2006371139	1694257851	1793398929	1948895527	279354	SRX10663870	SRS8758290	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94595	0.94447	0.09854	0.09761	0.66947	0.67308	0.47022	0.46692	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64178	64178	SRR14308467	SRX10663869	SRS8758289	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					AA3		strain:AB15\|age:24hpf15\|dev stage:24hpf15\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB15	L15	L15	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			AA3.raw_2.fastq.gz AA3.raw_1.fastq.gz	fastq fastq	9615009600.0	32050032.0	AA3.raw 1.fastq.gz	0:150 1:150	A:2582591269;C:2196606474;G:2311586967;T:2523869435;N:355455	150	150	2582591269	2196606474	2311586967	2523869435	355455	SRX10663869	SRS8758289	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94626	0.94544	0.10279	0.10177	0.6607	0.66409	0.47416	0.46877	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-26	Pharyngula	Embryo	Whole Organism	All anatomical structures
64179	64179	SRR14308468	SRX10663868	SRS8758288	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					AA2		strain:AB14\|age:24hpf14\|dev stage:24hpf14\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB14	L14	L14	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			AA2.raw_1.fastq.gz AA2.raw_2.fastq.gz	fastq fastq	9362109300.0	31207031.0	AA2.raw 1.fastq.gz	0:150 1:150	A:2520201597;C:2134760126;G:2243935064;T:2462866543;N:345970	150	150	2520201597	2134760126	2243935064	2462866543	345970	SRX10663868	SRS8758288	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94556	0.94456	0.10681	0.10604	0.66235	0.6647	0.4763	0.47399	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-26	Pharyngula	Embryo	Whole Organism	All anatomical structures
64180	64180	SRR14308469	SRX10663867	SRS8758287	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					AA1		strain:AB13\|age:24hpf13\|dev stage:24hpf13\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB13	L13	L13	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			AA1.raw_1.fastq.gz AA1.raw_2.fastq.gz	fastq fastq	7908833100.0	26362777.0	AA1.raw 1.fastq.gz	0:150 1:150	A:2160066191;C:1780834262;G:1851117381;T:2116551054;N:264212	150	150	2160066191	1780834262	1851117381	2116551054	264212	SRX10663867	SRS8758287	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.9396	0.93706	0.12075	0.11997	0.6619	0.66429	0.46569	0.46809	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64181	64181	SRR14308470	SRX10663866	SRS8758286	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					D3		strain:AB12\|age:24hpf12\|dev stage:24hpf12\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB12	L12	L12	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			D3.raw_1.fastq.gz D3.raw_2.fastq.gz	fastq fastq	6923319900.0	23077733.0	D3.raw 1.fastq.gz	0:150 1:150	A:1863150654;C:1581723494;G:1644468748;T:1833723008;N:253996	150	150	1863150654	1581723494	1644468748	1833723008	253996	SRX10663866	SRS8758286	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.94206	0.94012	0.09084	0.08963	0.69158	0.69587	0.46957	0.46928	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64182	64182	SRR14308471	SRX10663865	SRS8758285	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					D2		strain:AB11\|age:24hpf11\|dev stage:24hpf11\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB11	L11	L11	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			D2.raw_1.fastq.gz D2.raw_2.fastq.gz	fastq fastq	5966531700.0	19888439.0	D2.raw 1.fastq.gz	0:150 1:150	A:1618527031;C:1354948721;G:1407570126;T:1585294636;N:191186	150	150	1618527031	1354948721	1407570126	1585294636	191186	SRX10663865	SRS8758285	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.93817	0.93656	0.09919	0.09832	0.69633	0.69873	0.46752	0.46677	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64183	64183	SRR14308472	SRX10663864	SRS8758284	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					A2		strain:AB2\|age:24hpf2\|dev stage:24hpf2\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB2	L2	L2	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			A2.raw_1.fastq.gz A2.raw_2.fastq.gz	fastq fastq	6898409700.0	22994699.0	A2.raw 1.fastq.gz	0:150 1:150	A:1853201809;C:1578196914;G:1644192208;T:1822563946;N:254823	150	150	1853201809	1578196914	1644192208	1822563946	254823	SRX10663864	SRS8758284	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.92689	0.92559	0.09274	0.092	0.69449	0.698	0.47398	0.47458	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
64184	64184	SRR14308473	SRX10663863	SRS8758283	SRP315996	PRJNA724011	BDE 47 zebrafish 24hpf 4dpf	PRJNA724011	Other					A1		strain:AB1\|age:24hpf1\|dev stage:24hpf1\|sex:pooled male and female\|tissue:wholefish\|BioSampleModel:Model organism or animal	AB1	L1	L1	paried end seq			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	PAIRED	ILLUMINA	Illumina MiSeq		SRP315996			A1.raw_1.fastq.gz A1.raw_2.fastq.gz	fastq fastq	6969096000.0	23230320.0	A1.raw 1.fastq.gz	0:150 1:150	A:1873420822;C:1595222195;G:1663575945;T:1836625430;N:251608	150	150	1873420822	1595222195	1663575945	1836625430	251608	SRX10663863	SRS8758283	SRA1222808	Shantou University\|Medical Colleg	Shantou University	2	0.92862	0.92691	0.09367	0.09313	0.69203	0.69603	0.47678	0.47455	150	150	B	B	biological fallback assumption	illumina	miseq	unknown	random_priming	unknown	bulk	unknown	unknown	China	2021-04-27	Pharyngula	Embryo	Whole Organism	All anatomical structures
71549	71549	SRR21700247	SRX17697774	SRS15228561	SRP399479	PRJNA884084	RNA Seq data of gmfg morphants and their control siblings	PRJNA884084	Other	To more specifically explore the underlying mechanism by which gmfg regulates HSPC initiation we performed RNA sequencing RNA Seq with the dissected trunk and tail from 26 hpf gmfg morphants and their control siblings.			biological replicate 3	gmfg atgMO 3		strain:not applicable\|isolate:not applicable\|dev stage:26 hpf\|sex:not applicable\|tissue:the dissected trunk and tail\|collection date:2021 02 26\|geo loc name:China:Shenzhen Guangdong\|sample type:mo3\|BioSampleModel:Model organism or animal	RNA seq of Danio rerio	MO3 20210214	MO3 20210214	RNA seq of Danio rerio in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP399479			MO_3_1.fq.gz	fastq	1194263900.0	23885278.0	MO 3 1.fq.gz	0:50 1:0	A:315714579;C:274130504;G:282488713;T:321930104;N:0	50	0	315714579	274130504	282488713	321930104	0	SRX17697774	SRS15228561	SRA1506658	the First Affiliated Hospital, School of Medicine, Zhejiang University\|BoneMarrow Transplantation Center	the First Affiliated Hospital, School of Medicine, Zhejiang University	1	0.9415		0.07261		0.70701		0.47029		50		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2022-09-25	Pharyngula	Embryo	Multi-tissue	Multi-system
71550	71550	SRR21700248	SRX17697773	SRS15228560	SRP399479	PRJNA884084	RNA Seq data of gmfg morphants and their control siblings	PRJNA884084	Other	To more specifically explore the underlying mechanism by which gmfg regulates HSPC initiation we performed RNA sequencing RNA Seq with the dissected trunk and tail from 26 hpf gmfg morphants and their control siblings.			biological replicate 2	gmfg atgMO 2		strain:not applicable\|isolate:not applicable\|dev stage:26 hpf\|sex:not applicable\|tissue:the dissected trunk and tail\|collection date:2021 02 26\|geo loc name:China:Shenzhen Guangdong\|sample type:mo2\|BioSampleModel:Model organism or animal	RNA seq of Danio rerio	MO2 20210213	MO2 20210213	RNA seq of Danio rerio in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP399479			MO_2_1.fq.gz	fastq	1193697300.0	23873946.0	MO 2 1.fq.gz	0:50 1:0	A:316188077;C:272941933;G:282559962;T:322007328;N:0	50	0	316188077	272941933	282559962	322007328	0	SRX17697773	SRS15228560	SRA1506658	the First Affiliated Hospital, School of Medicine, Zhejiang University\|BoneMarrow Transplantation Center	the First Affiliated Hospital, School of Medicine, Zhejiang University	1	0.94144		0.07426		0.70715		0.47856		50		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2022-09-25	Pharyngula	Embryo	Multi-tissue	Multi-system
71551	71551	SRR21700249	SRX17697772	SRS15228559	SRP399479	PRJNA884084	RNA Seq data of gmfg morphants and their control siblings	PRJNA884084	Other	To more specifically explore the underlying mechanism by which gmfg regulates HSPC initiation we performed RNA sequencing RNA Seq with the dissected trunk and tail from 26 hpf gmfg morphants and their control siblings.			biological replicate 1	gmfg atgMO 1		strain:not applicable\|isolate:not applicable\|dev stage:26 hpf\|sex:not applicable\|tissue:the dissected trunk and tail\|collection date:2021 02 26\|geo loc name:China:Shenzhen Guangdong\|sample type:mo1\|BioSampleModel:Model organism or animal	RNA seq of Danio rerio	MO1 20210212	MO1 20210212	RNA seq of Danio rerio in different conditions			RNA-Seq	TRANSCRIPTOMIC	RANDOM PCR	SINGLE	BGISEQ	BGISEQ-500		SRP399479			MO_1_1.fq.gz	fastq	1194311300.0	23886226.0	MO 1 1.fq.gz	0:50 1:0	A:317344841;C:272348188;G:281111904;T:323506367;N:0	50	0	317344841	272348188	281111904	323506367	0	SRX17697772	SRS15228559	SRA1506658	the First Affiliated Hospital, School of Medicine, Zhejiang University\|BoneMarrow Transplantation Center	the First Affiliated Hospital, School of Medicine, Zhejiang University	1	0.94366		0.07701		0.70274		0.47929		50		B		usable mapping rate	bgi	bgi	unknown	random_priming	unknown	bulk	unknown	unknown	China	2022-09-25	Pharyngula	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");;