metadata: run_metadata: 36 rows where experiment.library_selection = "PCR" and experiment.library

36 rows where experiment.library_selection = "PCR" and experiment.library_strategy = "miRNA-Seq"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	sample.title	sample.alias	sample.attributes	experiment.title	experiment.alias	experiment.library_name	experiment.design_description	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.study_ref	run.filename	run.semantic_name	run.total_bases	run.total_spots	run.alias	run.read_lengths	run.base_counts	run.r1_length	run.r2_length	run.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.nofeature_rate.mate1	seqdetective.sparsity.mate1	seqdetective.pos_strand_rate.mate1	seqdetective.readlen.mate1	seqdetective.judgement.mate1	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
28470	28470	SRR26253203	SRX21963295	SRS19039869	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN4 2	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 22\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFND2	Small RNA IFND2	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN4-2.deadaptor.fq.gz	fastq	278362309.0	11056139.0	IFN4 2.deadaptor.fq.gz	0:25.18	A:71944968;C:54562141;G:73333701;T:78511075;N:10424	25		71944968	54562141	73333701	78511075	10424	SRX21963295	SRS19039869	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.93133	0.07401	0.96181	0.74558	31	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28471	28471	SRR26253204	SRX21963294	SRS19039868	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN4 1	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 21\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFND1	Small RNA IFND1	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN4-1.deadaptor.fq.gz	fastq	289362334.0	11048590.0	IFN4 1.deadaptor.fq.gz	0:26.19	A:73933649;C:59386039;G:76847534;T:79184583;N:10529	26		73933649	59386039	76847534	79184583	10529	SRX21963294	SRS19039868	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.91683	0.07099	0.96132	0.64882	25	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28472	28472	SRR26253205	SRX21963293	SRS19039867	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN1 4	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 20\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFNA4	Small RNA IFNA4	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN1-4.deadaptor.fq.gz	fastq	270529395.0	11070360.0	IFN1 4.deadaptor.fq.gz	0:24.44	A:69759888;C:54924667;G:71358091;T:74470720;N:16029	24		69759888	54924667	71358091	74470720	16029	SRX21963293	SRS19039867	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.88469	0.06696	0.96664	0.74853	22	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28473	28473	SRR26253206	SRX21963292	SRS19039866	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN1 3	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 19\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFNA3	Small RNA IFNA3	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN1-3.deadaptor.fq.gz	fastq	353291957.0	11740560.0	IFN1 3.deadaptor.fq.gz	0:30.09	A:89026549;C:76490337;G:94719420;T:93036955;N:18696	30		89026549	76490337	94719420	93036955	18696	SRX21963292	SRS19039866	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.83151	0.07199	0.96471	0.71641	22	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28474	28474	SRR26253207	SRX21963291	SRS19039865	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN1 2	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 18\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFNA2	Small RNA IFNA2	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN1-2.deadaptor.fq.gz	fastq	257949577.0	11213774.0	IFN1 2.deadaptor.fq.gz	0:23.00	A:67371681;C:51128621;G:67605590;T:71826657;N:17028	23		67371681	51128621	67605590	71826657	17028	SRX21963291	SRS19039865	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.91396	0.06536	0.97197	0.76269	23	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28475	28475	SRR26253208	SRX21963290	SRS19039864	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN1 1	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 17\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFNA1	Small RNA IFNA1	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN1-1.deadaptor.fq.gz	fastq	329358383.0	11799176.0	IFN1 1.deadaptor.fq.gz	0:27.91	A:84093681;C:68961271;G:86502739;T:89779605;N:21087	27		84093681	68961271	86502739	89779605	21087	SRX21963290	SRS19039864	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.92116	0.07483	0.96796	0.75179	22	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28476	28476	SRR26253209	SRX21963289	SRS19039863	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA Control 4	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 16\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA C4	Small RNA C4	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	Control-4.deadaptor.fq.gz	fastq	251577736.0	10951659.0	Control 4.deadaptor.fq.gz	0:22.97	A:65382449;C:50041232;G:66038625;T:70106464;N:8966	22		65382449	50041232	66038625	70106464	8966	SRX21963289	SRS19039863	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.89744	0.06821	0.96607	0.63829	22	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28477	28477	SRR26253210	SRX21963288	SRS19039862	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA Control 3	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 15\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA C3	Small RNA C3	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	Control-3.deadaptor.fq.gz	fastq	252164979.0	11004167.0	Control 3.deadaptor.fq.gz	0:22.92	A:65850899;C:48466665;G:66708038;T:71130786;N:8591	22		65850899	48466665	66708038	71130786	8591	SRX21963288	SRS19039862	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.91567	0.06804	0.96278	0.75579	22	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28478	28478	SRR26253211	SRX21963287	SRS19039861	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN4 4	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 24\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFND4	Small RNA IFND4	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN4-4.deadaptor.fq.gz	fastq	291708053.0	11503883.0	IFN4 4.deadaptor.fq.gz	0:25.36	A:74079231;C:61368459;G:76898572;T:79351225;N:10566	25		74079231	61368459	76898572	79351225	10566	SRX21963287	SRS19039861	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.88888	0.0633	0.97305	0.74862	23	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28479	28479	SRR26253212	SRX21963286	SRS19039860	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA IFN4 3	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 23\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA IFND3	Small RNA IFND3	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	IFN4-3.deadaptor.fq.gz	fastq	349995495.0	11885662.0	IFN4 3.deadaptor.fq.gz	0:29.45	A:87443709;C:76373108;G:92741296;T:93425866;N:11516	29		87443709	76373108	92741296	93425866	11516	SRX21963286	SRS19039860	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.92619	0.06843	0.9709	0.74977	73	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28480	28480	SRR26253213	SRX21963285	SRS19039859	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA Control 2	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 14\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA C2	Small RNA C2	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	Control-2.deadaptor.fq.gz	fastq	254163676.0	10744164.0	Control 2.deadaptor.fq.gz	0:23.66	A:66003417;C:49309846;G:67463940;T:71377644;N:8829	23		66003417	49309846	67463940	71377644	8829	SRX21963285	SRS19039859	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.93068	0.06626	0.96441	0.7492	22	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
28481	28481	SRR26253214	SRX21963284	SRS19039858	SRP464138	PRJNA1022587	Danio rerio Raw sequence reads	PRJNA1022587	Whole Genome Sequencing	In teleost type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes conferring cell resistance to viruses. However the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4 ZF4 cells were stimulated with recombinant IFN1 and IFN4 and were performed transcriptome analysis of the small RNA.		Small RNA Control 1	strain:not collected\|age:not collected\|collection date:2023 08 20\|geo loc name:not collected\|sex:not collected\|tissue:not collected\|cell line:ZF4\|replicate:biological replicate 13\|BioSampleModel:Model organism or animal	Small RNAseq of zebrafish	Small RNA C1	Small RNA C1	small RNA seq of zebrafish	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP464138	Control-1.deadaptor.fq.gz	fastq	267090429.0	11027241.0	Control 1.deadaptor.fq.gz	0:24.22	A:70162511;C:50705437;G:69872659;T:76339682;N:10140	24		70162511	50705437	69872659	76339682	10140	SRX21963284	SRS19039858	SRA1724093	Shanghai Ocean University\|College of Fisheries and Life Science	Shanghai Ocean University	1	0.93267	0.07189	0.96735	0.75447	21	B	usable mapping rate	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	China	2023-10-02	Undetermined	Undetermined	Cell Line	Cell Line
59351	59351	SRR11862874	SRX8413250	SRS6725560	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from stressed adult male batchE	library 10 batchE stress	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Stress\|filename:10SMALL GTTTCG L002 R1 001.fastq.gz\|batch:5\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from stressed adult male batchE	10SMALL GTTTCG L002 R1 001.fastq.gz	10SMALL GTTTCG L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	10SMALL_GTTTCG_L002_R1_001.fastq.gz	fastq	610892898.0	9255953.0	10SMALL GTTTCG L002 R1 001.fastq.gz	0:66	A:131858438;C:155399854;G:158242625;T:165382769;N:9212	66		131858438	155399854	158242625	165382769	9212	SRX8413250	SRS6725560	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.07236	0.0163	0.95574	0.71914	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59352	59352	SRR11862875	SRX8413249	SRS6725559	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from control adult male batchE	library 9 batchE control	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Control\|filename:9SMALL GTGGCC L002 R1 001.fastq.gz\|batch:5\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from control adult male batchE	9SMALL GTGGCC L002 R1 001.fastq.gz	9SMALL GTGGCC L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	9SMALL_GTGGCC_L002_R1_001.fastq.gz	fastq	681019152.0	10318472.0	9SMALL GTGGCC L002 R1 001.fastq.gz	0:66	A:145919628;C:180332988;G:185160654;T:169595863;N:10019	66		145919628	180332988	185160654	169595863	10019	SRX8413249	SRS6725559	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.03361	0.00721	0.97585	0.72421	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59353	59353	SRR11862876	SRX8413248	SRS6725558	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from stressed adult male batchD	library 8 batchD stress	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Stress\|filename:8SMALL GTGAAA L002 R1 001.fastq.gz\|batch:4\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from stressed adult male batchD	8SMALL GTGAAA L002 R1 001.fastq.gz	8SMALL GTGAAA L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	8SMALL_GTGAAA_L002_R1_001.fastq.gz	fastq	881814912.0	13360832.0	8SMALL GTGAAA L002 R1 001.fastq.gz	0:66	A:223839245;C:210712788;G:239626812;T:207623100;N:12967	66		223839245	210712788	239626812	207623100	12967	SRX8413248	SRS6725558	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.01456	0.00285	0.98685	0.79954	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59354	59354	SRR11862877	SRX8413247	SRS6725557	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from control adult male batchD	library 7 batchD control	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Control\|filename:7SMALL GTCCGC L002 R1 001.fastq.gz\|batch:4\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from control adult male batchD	7SMALL GTCCGC L002 R1 001.fastq.gz	7SMALL GTCCGC L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	7SMALL_GTCCGC_L002_R1_001.fastq.gz	fastq	871937682.0	13211177.0	7SMALL GTCCGC L002 R1 001.fastq.gz	0:66	A:187309754;C:240910478;G:236157154;T:207547961;N:12335	66		187309754	240910478	236157154	207547961	12335	SRX8413247	SRS6725557	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.00388	0.00062	0.99622	0.86525	66	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59355	59355	SRR11862878	SRX8413246	SRS6725556	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from stressed adult male batchC	library 6 batchC stress	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Stress\|filename:6SMALL GTAGAG L002 R1 001.fastq.gz\|batch:3\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from stressed adult male batchC	6SMALL GTAGAG L002 R1 001.fastq.gz	6SMALL GTAGAG L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	6SMALL_GTAGAG_L002_R1_001.fastq.gz	fastq	588357594.0	8914509.0	6SMALL GTAGAG L002 R1 001.fastq.gz	0:66	A:138378307;C:145942814;G:162208729;T:141818898;N:8846	66		138378307	145942814	162208729	141818898	8846	SRX8413246	SRS6725556	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.02473	0.00511	0.98317	0.76412	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59356	59356	SRR11862879	SRX8413245	SRS6725555	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from control adult male batchC	library 5 batchC control	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Control\|filename:5SMALL CCGTCC L002 R1 001.fastq.gz\|batch:3\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from control adult male batchC	5SMALL CCGTCC L002 R1 001.fastq.gz	5SMALL CCGTCC L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	5SMALL_CCGTCC_L002_R1_001.fastq.gz	fastq	724072008.0	10970788.0	5SMALL CCGTCC L002 R1 001.fastq.gz	0:66	A:153195532;C:210035381;G:176169980;T:184660888;N:10227	66		153195532	210035381	176169980	184660888	10227	SRX8413245	SRS6725555	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.02036	0.00355	0.98265	0.71654	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59357	59357	SRR11862880	SRX8413244	SRS6725554	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from stressed adult male batchB	library 4 batchB stress	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Stress\|filename:4SMALL ATGTCA L002 R1 001.fastq.gz\|batch:2\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from stressed adult male batchB	4SMALL ATGTCA L002 R1 001.fastq.gz	4SMALL ATGTCA L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	4SMALL_ATGTCA_L002_R1_001.fastq.gz	fastq	734716818.0	11132073.0	4SMALL ATGTCA L002 R1 001.fastq.gz	0:66	A:176688644;C:183414624;G:192032878;T:182569784;N:10888	66		176688644	183414624	192032878	182569784	10888	SRX8413244	SRS6725554	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.03816	0.00665	0.97378	0.80915	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59358	59358	SRR11862881	SRX8413243	SRS6725553	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from control adult male batchB	library 3 batchB control	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Control\|filename:3SMALL AGTTCC L002 R1 001.fastq.gz\|batch:2\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from control adult male batchB	3SMALL AGTTCC L002 R1 001.fastq.gz	3SMALL AGTTCC L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	3SMALL_AGTTCC_L002_R1_001.fastq.gz	fastq	639608178.0	9691033.0	3SMALL AGTTCC L002 R1 001.fastq.gz	0:66	A:141927022;C:169937693;G:166391833;T:161342157;N:9473	66		141927022	169937693	166391833	161342157	9473	SRX8413243	SRS6725553	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.00358	0.00027	0.99857	0.92025	66	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59359	59359	SRR11862882	SRX8413242	SRS6725552	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from stressed adult male batchF	library 12 batchF stress	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Stress\|filename:12SMALL GAGTGG L002 R1 001.fastq.gz\|batch:6\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from stressed adult male batchF	12SMALL GAGTGG L002 R1 001.fastq.gz	12SMALL GAGTGG L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	12SMALL_GAGTGG_L002_R1_001.fastq.gz	fastq	856789890.0	12981665.0	12SMALL GAGTGG L002 R1 001.fastq.gz	0:66	A:197687950;C:209840385;G:245135169;T:204114009;N:12377	66		197687950	209840385	245135169	204114009	12377	SRX8413242	SRS6725552	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.13729	0.02049	0.93752	0.71536	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59360	59360	SRR11862883	SRX8413241	SRS6725551	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from control adult male batchF	library 11 batchF control	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Control\|filename:11SMALL CGTACG L002 R1 001.fastq.gz\|batch:6\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from control adult male batchF	11SMALL CGTACG L002 R1 001.fastq.gz	11SMALL CGTACG L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	11SMALL_CGTACG_L002_R1_001.fastq.gz	fastq	891015576.0	13500236.0	11SMALL CGTACG L002 R1 001.fastq.gz	0:66	A:215219357;C:226988408;G:230348786;T:218445888;N:13137	66		215219357	226988408	230348786	218445888	13137	SRX8413241	SRS6725551	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.10021	0.02466	0.95789	0.65844	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59361	59361	SRR11862884	SRX8413240	SRS6725550	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from stressed adult male batchA	library 2 batchA stress	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Stress\|filename:2SMALL AGTCAA L002 R1 001.fastq.gz\|batch:1\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from stressed adult male batchA	2SMALL AGTCAA L002 R1 001.fastq.gz	2SMALL AGTCAA L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	2SMALL_AGTCAA_L002_R1_001.fastq.gz	fastq	790770684.0	11981374.0	2SMALL AGTCAA L002 R1 001.fastq.gz	0:66	A:198694732;C:195900186;G:206731529;T:189432489;N:11748	66		198694732	195900186	206731529	189432489	11748	SRX8413240	SRS6725550	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.06132	0.01001	0.96731	0.807	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
59362	59362	SRR11862885	SRX8413239	SRS6725549	SRP265077	PRJNA635603	Paternal effects in a wild type zebrafish implicate a role of sperm derived small RNAs	PRJNA635603	Other	A growing body of evidence points to the paternal environment pre fertilisation having an important influence on offspring phenotype mediated via noncoding RNA e.g. microRNA transmitted in spermatozoa. Here we investigated whether the zebrafish was subject to heritable influences of paternal stress by exposing males to stressors before mating and assessing the behavioural and endocrine responses of their offspring. We found that post males are exposed to stress their larval offspring show weakened responses to stressors. We subsequently applied small RNA sequencing to ascertain whether stress affected patterns of small RNA abundance in paternal sperm which may in turn have influenced offspring development.	Small RNA seq of zebrafish spermatozoa from control adult male batchA	library 1 batchA control	strain:London Wildtype\|dev stage:Adult\|sex:male\|tissue:not applicable\|cell type:Spermatozoa\|geo loc name:United Kingdom: Sheffield\|treatment:Control\|filename:1SMALL CTTGTA L002 R1 001.fastq.gz\|batch:1\|BioSampleModel:Model organism or animal	Small RNA seq of zebrafish spermatozoa from control adult male batchA	1SMALL CTTGTA L002 R1 001.fastq.gz	1SMALL CTTGTA L002 R1 001.fastq.gz	Adult male London Wildtype LWT zebrafish aged 6 month 10 month were housed individually in tanks on a recirculatory system with water heated to 26C and kept on a 12:12h light / dark cycle. Animals were fed brine shrimp or flake food twice daily. Adult males were subjected to a chronic stress constituting 20 minutes of alarm substance exposure periodic net chasing or bright light exposure for 12 14 days. Control males were handled in an identical fashion but not subjected to the stressors. Four to five individuals in both control and stress groups comprised one experimental batch. A total of six experimental batches were carried out.Spermatozoa were collected from euthanized adult males by disruption of dissected testes in ice cold Hanks balanced salt solution HBSS to derive a testicular cell suspension which was then centrifuged 800 xg for 40 min on top of a 40/80 Percoll gradient to separate spermatozoa from larger cells. The sperm precipitate washed in ice cold HBSS pelleted 1000 xg for 10 mins re suspended in Tri reagent and stored at 80C until RNA extraction. Total RNA was extracted following the Tri reagent protocol with the addition of an overnight precipitation step with glycogen in 2 propanol at 20C. Each sperm RNA sample comprised a pool of multiple individuals within the experimental batches such that each of six batches contributed one replicate pair control and stress for a total of 12 biological samples.Small RNA sequencing libraries were prepared using the SomaGenics Santa Cruz Real Seq Biofluids kit following the manufacturers instructions using a minimum of 2.5 ng of input total RNA. Twenty PCR cycles were performed to amplify the reverse transcription product. The quality of the prepared libraries was examined using the Agilent Hi sensitivity DNA chip prior to the individual libraries being pooled to a concentration of 4nM for Illumina sequencing. Sequencing was carried out on an Illumina HiSeq 2500 using SBS v3 chemistry and single end 65 base reads.### PLEASE NOTE ###The supplied FASTQ…	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP265077	1SMALL_CTTGTA_L002_R1_001.fastq.gz	fastq	796394940.0	12066590.0	1SMALL CTTGTA L002 R1 001.fastq.gz	0:66	A:180861950;C:199407609;G:204723388;T:211390521;N:11472	66		180861950	199407609	204723388	211390521	11472	SRX8413239	SRS6725549	SRA1080712	University of Tartu\|Department of Pathophysiology	University of Tartu	1	0.01922	0.00235	0.99024	0.87449	66	B	usable mapping rate	illumina	hiseq_era	unknown	random_priming	unknown	bulk	unknown	unknown	Estonia	2020-05-28	Adult	Adult	Multi-tissue	Multi-system
64249	64249	SRR14373546	SRX10725858	SRS8815710	SRP318063	PRJNA726592	GH overexpression on gonadal microRNAome profile in zebrafish males	PRJNA726592	Other	Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.	gh transgenic 6	GH3	strain:F0104\|age:15 month\|dev stage:adult\|sex:male\|tissue:gonadal\|biological replicate:6\|BioSampleModel:Model organism or animal	miRNA Seq of Danio rerio: adult male gonad	GH3	GH3	NEBNext Small RNA Library Prep Set	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina MiSeq	SRP318063	PoolUFPEL-GH6.fastq	fastq	20104659.0	394209.0	PoolUFPEL GH6.fastq	0:51 1:0	A:4462767;C:4536250;G:6471518;T:4633666;N:458	51	0	4462767	4536250	6471518	4633666	458	SRX10725858	SRS8815710	SRA1226279	Universidade Federal de Pelotas\|CDTec	Universidade Federal de Pelotas	1	0.80185	0.21091	0.91547	0.57044	51	B	usable mapping rate	illumina	miseq	unknown	random_priming	nebnext	bulk	unknown	unknown	Brazil	2021-04-30	Adult	Adult	Gonad	Reproductive System
64250	64250	SRR14373547	SRX10725857	SRS8815709	SRP318063	PRJNA726592	GH overexpression on gonadal microRNAome profile in zebrafish males	PRJNA726592	Other	Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.	gh transgenic 4	GH2	strain:F0104\|age:15 month\|dev stage:adult\|sex:male\|tissue:gonadal\|biological replicate:5\|BioSampleModel:Model organism or animal	miRNA Seq of Danio rerio: adult male gonad	GH2	GH2	NEBNext Small RNA Library Prep Set	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina MiSeq	SRP318063	PoolUFPEL-GH4.fastq	fastq	136130934.0	2669234.0	PoolUFPEL GH4.fastq	0:51 1:0	A:31505752;C:32606264;G:41632000;T:30383900;N:3018	51	0	31505752	32606264	41632000	30383900	3018	SRX10725857	SRS8815709	SRA1226279	Universidade Federal de Pelotas\|CDTec	Universidade Federal de Pelotas	1	0.78619	0.26843	0.87834	0.48728	51	B	usable mapping rate	illumina	miseq	unknown	random_priming	nebnext	bulk	unknown	unknown	Brazil	2021-04-30	Adult	Adult	Gonad	Reproductive System
64251	64251	SRR14373548	SRX10725856	SRS8815708	SRP318063	PRJNA726592	GH overexpression on gonadal microRNAome profile in zebrafish males	PRJNA726592	Other	Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.	gh transgenic 3	GH1	strain:F0104\|age:15 month\|dev stage:adult\|sex:male\|tissue:gonadal\|biological replicate:4\|BioSampleModel:Model organism or animal	miRNA Seq of Danio rerio: adult male gonad	GH1	GH1	NEBNext Small RNA Library Prep Set	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina MiSeq	SRP318063	PoolUFPEL-GH3.fastq	fastq	364152699.0	7140249.0	PoolUFPEL GH3.fastq	0:51 1:0	A:79211373;C:83789471;G:117772711;T:83370974;N:8170	51	0	79211373	83789471	117772711	83370974	8170	SRX10725856	SRS8815708	SRA1226279	Universidade Federal de Pelotas\|CDTec	Universidade Federal de Pelotas	1	0.80843	0.18707	0.92066	0.59133	51	B	usable mapping rate	illumina	miseq	unknown	random_priming	nebnext	bulk	unknown	unknown	Brazil	2021-04-30	Adult	Adult	Gonad	Reproductive System
64252	64252	SRR14373549	SRX10725855	SRS8815707	SRP318063	PRJNA726592	GH overexpression on gonadal microRNAome profile in zebrafish males	PRJNA726592	Other	Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.	Non transgenic 5	NT3	strain:F0104\|age:15 month\|dev stage:adult\|sex:male\|tissue:gonadal\|biological replicate:3\|BioSampleModel:Model organism or animal	miRNA Seq of Danio rerio: adult male gonad	NT3	NT3	NEBNext Small RNA Library Prep Set	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina MiSeq	SRP318063	PoolUFPEL-NT5.fastq	fastq	234366114.0	4595414.0	PoolUFPEL NT5.fastq	0:51 1:0	A:58011123;C:51898677;G:69581397;T:54869614;N:5303	51	0	58011123	51898677	69581397	54869614	5303	SRX10725855	SRS8815707	SRA1226279	Universidade Federal de Pelotas\|CDTec	Universidade Federal de Pelotas	1	0.83352	0.35958	0.85928	0.50004	51	B	usable mapping rate	illumina	miseq	unknown	random_priming	nebnext	bulk	unknown	unknown	Brazil	2021-04-30	Adult	Adult	Gonad	Reproductive System
64253	64253	SRR14373550	SRX10725854	SRS8815706	SRP318063	PRJNA726592	GH overexpression on gonadal microRNAome profile in zebrafish males	PRJNA726592	Other	Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.	Non transgenic 3	NT2	strain:F0104\|age:15 month\|dev stage:adult\|sex:male\|tissue:gonadal\|biological replicate:2\|BioSampleModel:Model organism or animal	miRNA Seq of Danio rerio: adult male gonad	NT2	NT2	NEBNext Small RNA Library Prep Set	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina MiSeq	SRP318063	PoolUFPEL-NT3.fastq	fastq	147963750.0	2901250.0	PoolUFPEL NT3.fastq	0:51 1:0	A:37528568;C:33498521;G:41979920;T:34953411;N:3330	51	0	37528568	33498521	41979920	34953411	3330	SRX10725854	SRS8815706	SRA1226279	Universidade Federal de Pelotas\|CDTec	Universidade Federal de Pelotas	1	0.75277	0.34872	0.86596	0.53154	51	B	usable mapping rate	illumina	miseq	unknown	random_priming	nebnext	bulk	unknown	unknown	Brazil	2021-04-30	Adult	Adult	Gonad	Reproductive System
64254	64254	SRR14373551	SRX10725853	SRS8815705	SRP318063	PRJNA726592	GH overexpression on gonadal microRNAome profile in zebrafish males	PRJNA726592	Other	Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.	Non transgenic 1	NT1	strain:F0104\|age:15 month\|dev stage:adult\|sex:male\|tissue:gonadal\|biological replicate:1\|BioSampleModel:Model organism or animal	miRNA Seq of Danio rerio: adult male gonad	NT1	NT1	NEBNext Small RNA Library Prep Set	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	Illumina MiSeq	SRP318063	PoolUFPEL-NT1.fastq	fastq	218363538.0	4281638.0	PoolUFPEL NT1.fastq	0:51 1:0	A:53115431;C:47639482;G:65248144;T:52355651;N:4830	51	0	53115431	47639482	65248144	52355651	4830	SRX10725853	SRS8815705	SRA1226279	Universidade Federal de Pelotas\|CDTec	Universidade Federal de Pelotas	1	0.83996	0.3606	0.87728	0.50828	51	B	usable mapping rate	illumina	miseq	unknown	random_priming	nebnext	bulk	unknown	unknown	Brazil	2021-04-30	Adult	Adult	Gonad	Reproductive System
76734	76734	SRR25361306	SRX21100653	SRS18369835	SRP450509	PRJNA996758	Transcriptome analysis of Zebrafish testis	PRJNA996758	Other	In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.		Zebrafish 3N 3	strain:not collected\|age:3 mpf\|collection date:not collected\|geo loc name:not applicable\|sex:male\|tissue:testis\|replicate:biological replicate 6\|BioSampleModel:Model organism or animal	miRNA Seq of triploid zebrafish: mature testis 3	S06	S06	small RNA Sample Pre Kit	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	HiSeq X Ten	SRP450509	Zebrafish-3N-3.fq	fastq	377566667.0	15350070.0	Zebrafish 3N 3.fq	0:24.60	A:96137966;C:76631652;G:87723617;T:117047567;N:25865	24		96137966	76631652	87723617	117047567	25865	SRX21100653	SRS18369835	SRA1676237	Hunan Normal University\|College of Life Sciences	Hunan Normal University	1	0.73654	0.40118	0.8564	0.55134	20	B	usable mapping rate	illumina	hiseq_era	full_length	random_priming	unknown	bulk	unknown	unknown	China	2023-07-20	Adult	Adult	Gonad	Reproductive System
76735	76735	SRR25361307	SRX21100652	SRS18369834	SRP450509	PRJNA996758	Transcriptome analysis of Zebrafish testis	PRJNA996758	Other	In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.		Zebrafish 3N 2	strain:not collected\|age:3 mpf\|collection date:not collected\|geo loc name:not applicable\|sex:male\|tissue:testis\|replicate:biological replicate 5\|BioSampleModel:Model organism or animal	miRNA Seq of triploid zebrafish: mature testis 2	S05	S05	small RNA Sample Pre Kit	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	HiSeq X Ten	SRP450509	Zebrafish-3N-2.fq	fastq	380484856.0	15447197.0	Zebrafish 3N 2.fq	0:24.63	A:97242128;C:77738745;G:86938175;T:118539773;N:26035	24		97242128	77738745	86938175	118539773	26035	SRX21100652	SRS18369834	SRA1676237	Hunan Normal University\|College of Life Sciences	Hunan Normal University	1	0.75732	0.36733	0.86003	0.56474	30	B	usable mapping rate	illumina	hiseq_era	full_length	random_priming	unknown	bulk	unknown	unknown	China	2023-07-20	Adult	Adult	Gonad	Reproductive System
76736	76736	SRR25361308	SRX21100651	SRS18369833	SRP450509	PRJNA996758	Transcriptome analysis of Zebrafish testis	PRJNA996758	Other	In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.		Zebrafish 3N 1	strain:not collected\|age:3 mpf\|collection date:not collected\|geo loc name:not applicable\|sex:male\|tissue:testis\|replicate:biological replicate 4\|BioSampleModel:Model organism or animal	miRNA Seq of triploid zebrafish: mature testis 1	S04	S04	small RNA Sample Pre Kit	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	HiSeq X Ten	SRP450509	Zebrafish-3N-1.fq	fastq	268097774.0	10780393.0	Zebrafish 3N 1.fq	0:24.87	A:68574209;C:53994512;G:62001426;T:83509528;N:18099	24		68574209	53994512	62001426	83509528	18099	SRX21100651	SRS18369833	SRA1676237	Hunan Normal University\|College of Life Sciences	Hunan Normal University	1	0.76185	0.39184	0.86038	0.55005	27	B	usable mapping rate	illumina	hiseq_era	full_length	random_priming	unknown	bulk	unknown	unknown	China	2023-07-20	Adult	Adult	Gonad	Reproductive System
76737	76737	SRR25361309	SRX21100650	SRS18369832	SRP450509	PRJNA996758	Transcriptome analysis of Zebrafish testis	PRJNA996758	Other	In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.		Zebrafish 2N 3	strain:not collected\|age:3 mpf\|collection date:not collected\|geo loc name:not applicable\|sex:male\|tissue:testis\|replicate:biological replicate 3\|BioSampleModel:Model organism or animal	miRNA Seq of diploid zebrafish: mature testis 3	S03	S03	small RNA Sample Pre Kit	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	HiSeq X Ten	SRP450509	Zebrafish-2N-3.fq	fastq	534146242.0	21237464.0	Zebrafish 2N 3.fq	0:25.15	A:134813196;C:109988603;G:122363487;T:166967106;N:13850	25		134813196	109988603	122363487	166967106	13850	SRX21100650	SRS18369832	SRA1676237	Hunan Normal University\|College of Life Sciences	Hunan Normal University	1	0.78557	0.41489	0.84682	0.52155	26	B	usable mapping rate	illumina	hiseq_era	full_length	random_priming	unknown	bulk	unknown	unknown	China	2023-07-20	Adult	Adult	Gonad	Reproductive System
76738	76738	SRR25361310	SRX21100649	SRS18369831	SRP450509	PRJNA996758	Transcriptome analysis of Zebrafish testis	PRJNA996758	Other	In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.		Zebrafish 2N 2	strain:not collected\|age:3 mpf\|collection date:not collected\|geo loc name:not applicable\|sex:male\|tissue:testis\|replicate:biological replicate 2\|BioSampleModel:Model organism or animal	miRNA Seq of diploid zebrafish: mature testis 2	S02	S02	small RNA Sample Pre Kit	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	HiSeq X Ten	SRP450509	Zebrafish-2N-2.fq	fastq	356097642.0	14145771.0	Zebrafish 2N 2.fq	0:25.17	A:90441485;C:73979402;G:81604410;T:110063163;N:9182	25		90441485	73979402	81604410	110063163	9182	SRX21100649	SRS18369831	SRA1676237	Hunan Normal University\|College of Life Sciences	Hunan Normal University	1	0.75286	0.42266	0.8561	0.55388	25	B	usable mapping rate	illumina	hiseq_era	full_length	random_priming	unknown	bulk	unknown	unknown	China	2023-07-20	Adult	Adult	Gonad	Reproductive System
76739	76739	SRR25361311	SRX21100648	SRS18369830	SRP450509	PRJNA996758	Transcriptome analysis of Zebrafish testis	PRJNA996758	Other	In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.		Zebrafish 2N 1	strain:not collected\|age:3 mpf\|collection date:not collected\|geo loc name:not applicable\|sex:male\|tissue:testis\|replicate:biological replicate 1\|BioSampleModel:Model organism or animal	miRNA Seq of diploid zebrafish: mature testis 1	S01	S01	small RNA Sample Pre Kit	miRNA-Seq	TRANSCRIPTOMIC	PCR	SINGLE	ILLUMINA	HiSeq X Ten	SRP450509	Zebrafish-2N-1.fq	fastq	304073792.0	11993451.0	Zebrafish 2N 1.fq	0:25.35	A:78785751;C:62508430;G:69338558;T:93420600;N:20453	25		78785751	62508430	69338558	93420600	20453	SRX21100648	SRS18369830	SRA1676237	Hunan Normal University\|College of Life Sciences	Hunan Normal University	1	0.77026	0.38872	0.86032	0.58206	23	B	usable mapping rate	illumina	hiseq_era	full_length	random_priming	unknown	bulk	unknown	unknown	China	2023-07-20	Adult	Adult	Gonad	Reproductive System

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;