metadata: run_metadata: 25 rows where experiment.library_selection = "RT-PCR" and experiment.library

25 rows where experiment.library_selection = "RT-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.attributes	run.filename	run.semantic_name	run.total_bases	run.total_spots	run.alias	run.read_lengths	run.base_counts	run.r1_length	run.r2_length	run.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.nofeature_rate.mate1	seqdetective.sparsity.mate1	seqdetective.pos_strand_rate.mate1	seqdetective.readlen.mate1	seqdetective.judgement.mate1	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
60007	60007	SRR12109607	SRX8633610	SRS6920345	SRP269241	PRJNA641989	Zebrafish intestinal SmallRNA	PRJNA641989	Other	A model of streptococcus agalactiae infected zebrafish was established to determine intestinal small RNA of zebrafish.To explore the molecular mechanism of antibacterial immunity of zebrafish.		Drt3	strain:Streptococcus agalactiae\|age:adult\|sex:male\|tissue:gut\|BioSampleModel:Model organism or animal	miRNA Seq of zebrafish intestine	F	F	BGISEQ	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	BGISEQ	BGISEQ-500	SRP269241	loader:fastq load.py	Drt3.fq.gz	fastq	953116651.0	39450392.0	Drt3.fq.gz	0:24.16	A:165275545;C:266933722;G:285524079;T:235383107;N:198	24		165275545	266933722	285524079	235383107	198	SRX8633610	SRS6920345	SRA1092425	Kunming University of Science and Technology\|faculty of life science and technology	Kunming University of Science and Technology	1	0.86243	0.21541	0.80294	0.67181	29	B	usable mapping rate	bgi	bgi	unknown	small_rna	unknown	bulk	unknown	unknown	China	2020-07-10	Adult	Adult	Gut	Digestive System
60008	60008	SRR12109608	SRX8633609	SRS6920344	SRP269241	PRJNA641989	Zebrafish intestinal SmallRNA	PRJNA641989	Other	A model of streptococcus agalactiae infected zebrafish was established to determine intestinal small RNA of zebrafish.To explore the molecular mechanism of antibacterial immunity of zebrafish.		Drt2	strain:Streptococcus agalactiae\|age:adult\|sex:male\|tissue:gut\|BioSampleModel:Model organism or animal	miRNA Seq of zebrafish intestine	E	E	BGISEQ	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	BGISEQ	BGISEQ-500	SRP269241	loader:fastq load.py	Drt2.fq.gz	fastq	629335361.0	26037543.0	Drt2.fq.gz	0:24.17	A:111827613;C:172564695;G:192159133;T:152783892;N:28	24		111827613	172564695	192159133	152783892	28	SRX8633609	SRS6920344	SRA1092425	Kunming University of Science and Technology\|faculty of life science and technology	Kunming University of Science and Technology	1	0.86328	0.21943	0.7992	0.64786	26	B	usable mapping rate	bgi	bgi	unknown	small_rna	unknown	bulk	unknown	unknown	China	2020-07-10	Adult	Adult	Gut	Digestive System
60009	60009	SRR12109609	SRX8633608	SRS6920343	SRP269241	PRJNA641989	Zebrafish intestinal SmallRNA	PRJNA641989	Other	A model of streptococcus agalactiae infected zebrafish was established to determine intestinal small RNA of zebrafish.To explore the molecular mechanism of antibacterial immunity of zebrafish.		Drt1	strain:Streptococcus agalactiae\|age:adult\|sex:male\|tissue:gut\|BioSampleModel:Model organism or animal	miRNA Seq of zebrafish intestine	D	D	BGISEQ	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	BGISEQ	BGISEQ-500	SRP269241	loader:fastq load.py	Drt1.fq.gz	fastq	898185854.0	37273958.0	Drt1.fq.gz	0:24.10	A:155257170;C:247725871;G:276963807;T:218238980;N:26	24		155257170	247725871	276963807	218238980	26	SRX8633608	SRS6920343	SRA1092425	Kunming University of Science and Technology\|faculty of life science and technology	Kunming University of Science and Technology	1	0.86686	0.21764	0.79508	0.6694	24	B	usable mapping rate	bgi	bgi	unknown	small_rna	unknown	bulk	unknown	unknown	China	2020-07-10	Adult	Adult	Gut	Digestive System
60010	60010	SRR12109610	SRX8633607	SRS6920342	SRP269241	PRJNA641989	Zebrafish intestinal SmallRNA	PRJNA641989	Other	A model of streptococcus agalactiae infected zebrafish was established to determine intestinal small RNA of zebrafish.To explore the molecular mechanism of antibacterial immunity of zebrafish.		Drc3	strain:Streptococcus agalactiae\|age:adult\|sex:male\|tissue:gut\|BioSampleModel:Model organism or animal	miRNA Seq of zebrafish intestine	C	C	BGISEQ	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	BGISEQ	BGISEQ-500	SRP269241	loader:fastq load.py	Drc3.fq.gz	fastq	912782161.0	35931507.0	Drc3.fq.gz	0:25.40	A:153448479;C:252628189;G:280829895;T:225874586;N:1012	25		153448479	252628189	280829895	225874586	1012	SRX8633607	SRS6920342	SRA1092425	Kunming University of Science and Technology\|faculty of life science and technology	Kunming University of Science and Technology	1	0.89797	0.21308	0.80823	0.62611	23	B	usable mapping rate	bgi	bgi	unknown	small_rna	unknown	bulk	unknown	unknown	China	2020-07-10	Adult	Adult	Gut	Digestive System
60011	60011	SRR12109611	SRX8633606	SRS6920341	SRP269241	PRJNA641989	Zebrafish intestinal SmallRNA	PRJNA641989	Other	A model of streptococcus agalactiae infected zebrafish was established to determine intestinal small RNA of zebrafish.To explore the molecular mechanism of antibacterial immunity of zebrafish.		Drc2	strain:Streptococcus agalactiae\|age:adult\|sex:male\|tissue:gut\|BioSampleModel:Model organism or animal	miRNA Seq of zebrafish intestine	B	B	BGISEQ	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	BGISEQ	BGISEQ-500	SRP269241	loader:fastq load.py	Drc2.fq.gz	fastq	784553020.0	31429473.0	Drc2.fq.gz	0:24.96	A:128271350;C:223302609;G:241310233;T:191668193;N:635	24		128271350	223302609	241310233	191668193	635	SRX8633606	SRS6920341	SRA1092425	Kunming University of Science and Technology\|faculty of life science and technology	Kunming University of Science and Technology	1	0.9087	0.20487	0.80805	0.67324	30	B	usable mapping rate	bgi	bgi	unknown	small_rna	unknown	bulk	unknown	unknown	China	2020-07-10	Adult	Adult	Gut	Digestive System
60012	60012	SRR12109612	SRX8633605	SRS6920340	SRP269241	PRJNA641989	Zebrafish intestinal SmallRNA	PRJNA641989	Other	A model of streptococcus agalactiae infected zebrafish was established to determine intestinal small RNA of zebrafish.To explore the molecular mechanism of antibacterial immunity of zebrafish.		Drc1	strain:Streptococcus agalactiae\|age:adult\|sex:male\|tissue:gut\|BioSampleModel:Model organism or animal	miRNA Seq of zebrafish intestine	A	A	BGISEQ	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	BGISEQ	BGISEQ-500	SRP269241	loader:fastq load.py	Drc1.fq.gz	fastq	814894343.0	32234530.0	Drc1.fq.gz	0:25.28	A:133616147;C:230834630;G:253965304;T:196477437;N:825	25		133616147	230834630	253965304	196477437	825	SRX8633605	SRS6920340	SRA1092425	Kunming University of Science and Technology\|faculty of life science and technology	Kunming University of Science and Technology	1	0.89344	0.21273	0.80738	0.66815	28	B	usable mapping rate	bgi	bgi	unknown	small_rna	unknown	bulk	unknown	unknown	China	2020-07-10	Adult	Adult	Gut	Digestive System
65669	65669	SRR15498138	SRX11797853	SRS9797787	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary High Temperature	ZF 36 G12F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OHT 2\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated ovary	36 G12	36 G12	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G12_22313_ATGAGC.fastq ZF_36_G12_24794_ATGAGC.fastq	fastq fastq	385298900.0	7705978.0	ZF 36 G12 22313 ATGAGC.fastq	0:50 1:0	A:115879319;C:84755497;G:100335882;T:84312716;N:15486	50	0	115879319	84755497	100335882	84312716	15486	SRX11797853	SRS9797787	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.76472	0.49644	0.83287	0.51149	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65670	65670	SRR15498139	SRX11797852	SRS9797788	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary High Temperature	ZF 36 G9F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OHT 1\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated ovary	36 G9	36 G9	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G9_22313_ACTGAT.fastq ZF_36_G9_24794_ACTGAT.fastq	fastq fastq	448040450.0	8960809.0	ZF 36 G9 22313 ACTGAT.fastq	0:50 1:0	A:134152732;C:98754272;G:116124383;T:98987716;N:21347	50	0	134152732	98754272	116124383	98987716	21347	SRX11797852	SRS9797788	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.73407	0.52835	0.83092	0.53201	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65671	65671	SRR15498140	SRX11797851	SRS9797786	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis Low Temperature	ZF 28 G11M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate TLT 2\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated testis	28 G11	28 G11	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G11_22312_CACCGG.fastq	fastq	397315650.0	7946313.0	ZF 28 G11 22312 CACCGG.fastq	0:50 1:0	A:117553892;C:87676340;G:103796431;T:88242064;N:46923	50	0	117553892	87676340	103796431	88242064	46923	SRX11797851	SRS9797786	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.7153	0.45777	0.85131	0.51595	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65672	65672	SRR15498141	SRX11797850	SRS9797785	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis Low Temperature	ZF 28 G18M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate TLT 1\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated testis	28 G18	28 G18	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G18_22312_CAACTA.fastq	fastq	299844950.0	5996899.0	ZF 28 G18 22312 CAACTA.fastq	0:50 1:0	A:88371816;C:66221559;G:79693659;T:65522293;N:35623	50	0	88371816	66221559	79693659	65522293	35623	SRX11797850	SRS9797785	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.70252	0.44336	0.85782	0.53663	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65673	65673	SRR15498142	SRX11797849	SRS9797784	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary Low Temperature	ZF 28 G19F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OLT 4\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated ovary	28 G19	28 G19	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G19_22312_GTTTCG.fastq ZF_28_G19_24794_GTTTCG.fastq	fastq fastq	453746250.0	9074925.0	ZF 28 G19 22312 GTTTCG.fastq	0:50 1:0	A:133375616;C:101583110;G:121165582;T:97585655;N:36287	50	0	133375616	101583110	121165582	97585655	36287	SRX11797849	SRS9797784	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.72934	0.45973	0.81659	0.55084	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65674	65674	SRR15498143	SRX11797848	SRS9797782	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary Low Temperature	ZF 28 G17F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OLT 3\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated ovary	28 G17	28 G17	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G17_22312_GTGGCC.fastq ZF_28_G17_24794_GTGGCC.fastq	fastq fastq	400680350.0	8013607.0	ZF 28 G17 22312 GTGGCC.fastq	0:50 1:0	A:116055791;C:92144972;G:109622335;T:82823767;N:33485	50	0	116055791	92144972	109622335	82823767	33485	SRX11797848	SRS9797782	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.67985	0.39457	0.82678	0.60177	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65675	65675	SRR15498144	SRX11797847	SRS9797783	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary Low Temperature	ZF 28 G8F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OLT 2\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated ovary	28 G8	28 G8	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G8_22312_GTAGAG.fastq ZF_28_G8_24794_GTAGAG.fastq	fastq fastq	436150900.0	8723018.0	ZF 28 G8 22312 GTAGAG.fastq	0:50 1:0	A:129619390;C:96543331;G:116417612;T:93533768;N:36799	50	0	129619390	96543331	116417612	93533768	36799	SRX11797847	SRS9797783	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.74469	0.47759	0.82637	0.51178	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65676	65676	SRR15498145	SRX11797846	SRS9797780	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary Low Temperature	ZF 28 G5F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OLT 1\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated ovary	28 G5	28 G5	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G5_22312_CCGTCC.fastq ZF_28_G5_24794_CCGTCC.fastq	fastq fastq	452563650.0	9051273.0	ZF 28 G5 22312 CCGTCC.fastq	0:50 1:0	A:134503401;C:100875999;G:120893992;T:96252318;N:37940	50	0	134503401	100875999	120893992	96252318	37940	SRX11797846	SRS9797780	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.78672	0.47976	0.82207	0.50024	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65677	65677	SRR15498146	SRX11797845	SRS9797781	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis Low Temperature	ZF 28 G9M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate TLT 4\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated testis	28 G9	28 G9	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G9_22312_CGTACG.fastq ZF_28_G9_24794_CGTACG.fastq	fastq fastq	449330450.0	8986609.0	ZF 28 G9 22312 CGTACG.fastq	0:50 1:0	A:134080706;C:98827246;G:115871708;T:100512830;N:37960	50	0	134080706	98827246	115871708	100512830	37960	SRX11797845	SRS9797781	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.7104	0.46962	0.85752	0.51154	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65678	65678	SRR15498147	SRX11797844	SRS9797779	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis Low Temperature	ZF 28 G10M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate TLT 3\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated testis	28 G10	28 G10	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G10_22312_GGTAGC.fastq	fastq	326954650.0	6539093.0	ZF 28 G10 22312 GGTAGC.fastq	0:50 1:0	A:96514676;C:71851965;G:86535966;T:72013004;N:39039	50	0	96514676	71851965	86535966	72013004	39039	SRX11797844	SRS9797779	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.69651	0.42268	0.84829	0.52434	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65679	65679	SRR15498148	SRX11797843	SRS9797777	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis Low Temperature	ZF 28 G20M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate TLT 6\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated testis	28 G20	28 G20	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G20_22969_TCGAAG.fastq	fastq	589981600.0	11799632.0	ZF 28 G20 22969 TCGAAG.fastq	0:50 1:0	A:174095296;C:129803577;G:155350315;T:130716263;N:16149	50	0	174095296	129803577	155350315	130716263	16149	SRX11797843	SRS9797777	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.73394	0.46125	0.85482	0.51049	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65680	65680	SRR15498149	SRX11797842	SRS9797778	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis Low Temperature	ZF 28 G2M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate TLT 5\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult untreated testis	28 G2	28 G2	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_28_G2_22969_CATTTT.fastq	fastq	725495800.0	14509916.0	ZF 28 G2 22969 CATTTT.fastq	0:50 1:0	A:215282734;C:159179418;G:191027998;T:159985829;N:19821	50	0	215282734	159179418	191027998	159985829	19821	SRX11797842	SRS9797778	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.74341	0.46282	0.86365	0.52722	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65681	65681	SRR15498150	SRX11797841	SRS9797776	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis High Temperature	ZF 36 G10M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate THT 4\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated testis	36 G10	36 G10	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G10_22313_ATTCCT.fastq	fastq	301310100.0	6026202.0	ZF 36 G10 22313 ATTCCT.fastq	0:50 1:0	A:89802405;C:66792192;G:77376709;T:67302456;N:36338	50	0	89802405	66792192	77376709	67302456	36338	SRX11797841	SRS9797776	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.69865	0.45741	0.86354	0.51584	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65682	65682	SRR15498151	SRX11797840	SRS9797775	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis High Temperature	ZF 36 G15M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate THT 3\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated testis	36 G15	36 G15	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G15_22313_TCATTC.fastq	fastq	1465003700.0	29300074.0	ZF 36 G15 22313 TCATTC.fastq	0:50 1:0	A:431488151;C:331693370;G:386155519;T:315491607;N:175053	50	0	431488151	331693370	386155519	315491607	175053	SRX11797840	SRS9797775	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.72513	0.40489	0.86229	0.50704	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65683	65683	SRR15498152	SRX11797839	SRS9797774	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis High Temperature	ZF 36 G14M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate THT 2\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated testis	36 G14	36 G14	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G14_22313_CACGAT.fastq ZF_36_G14_24794_CACGAT.fastq	fastq fastq	454229750.0	9084595.0	ZF 36 G14 22313 CACGAT.fastq	0:50 1:0	A:133880771;C:103643537;G:119108795;T:97573024;N:23623	50	0	133880771	103643537	119108795	97573024	23623	SRX11797839	SRS9797774	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.67716	0.38799	0.81949	0.53484	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65684	65684	SRR15498153	SRX11797838	SRS9797773	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis High Temperature	ZF 36 G11M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate THT 1\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated testis	36 G11	36 G11	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G11_22313_CAAAAG.fastq	fastq	309077000.0	6181540.0	ZF 36 G11 22313 CAAAAG.fastq	0:50 1:0	A:92340462;C:68123395;G:79403422;T:69172711;N:37010	50	0	92340462	68123395	79403422	69172711	37010	SRX11797838	SRS9797773	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.68141	0.45311	0.86519	0.52771	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65685	65685	SRR15498154	SRX11797837	SRS9797772	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Testis High Temperature	ZF 36 G13M	strain:AB\|age:90 dpf\|sex:male\|tissue:Testis\|replicate:Biological replicate THT 5\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated testis	36 G13	36 G13	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish testis using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G13_22969_TCGGCA.fastq	fastq	525673800.0	10513476.0	ZF 36 G13 22969 TCGGCA.fastq	0:50 1:0	A:154723201;C:115780155;G:137702409;T:117453866;N:14169	50	0	154723201	115780155	137702409	117453866	14169	SRX11797837	SRS9797772	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.74813	0.46889	0.85299	0.51699	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65686	65686	SRR15498155	SRX11797836	SRS9797771	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary High Temperature	ZF 36 G8F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OHT 4\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated ovary	36 G8	36 G8	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G8_22313_GTGAAA.fastq ZF_36_G8_24794_GTGAAA.fastq	fastq fastq	354863200.0	7097264.0	ZF 36 G8 22313 GTGAAA.fastq	0:50 1:0	A:106167879;C:78499963;G:93422866;T:76761338;N:11154	50	0	106167879	78499963	93422866	76761338	11154	SRX11797836	SRS9797771	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.74342	0.50048	0.82919	0.51092	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	Adult	Adult	Gonad	Reproductive System
65687	65687	SRR15498156	SRX11797835	SRS9797770	SRP332839	PRJNA755482	miRNA sequencing from zebrafish testes and ovaries exposed to normal and high temperatures	PRJNA755482	Other	We exposed zebrafish to elevated temperatures during early development a treatment that is known to result in male skewed sex ratios in order to understand the role of the epigenetic regulation mediated by miRNAs in the gonads.	Ovary High Temperature	ZF 36 G6F	strain:AB\|age:90 dpf\|sex:female\|tissue:Ovary\|replicate:Biological replicate OHT 3\|BioSampleModel:Model organism or animal	miRNA seq of Danio rerio: adult treated ovary	36 G6	36 G6	NEBNext Small RNA Library Prep Set for Illumina was used on total RNA isolated from zebrafish ovary using Qiagen RNeasy mini kit. Library was constructed using sequencing Lane 1x50 v4 HiSeq single end mode with a read length of 50 bp	miRNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP332839		ZF_36_G6_22313_GTCCGC.fastq ZF_36_G6_24794_GTCCGC.fastq	fastq fastq	369579500.0	7391590.0	ZF 36 G6 22313 GTCCGC.fastq	0:50 1:0	A:110926203;C:80638311;G:95343987;T:82657357;N:13642	50	0	110926203	80638311	95343987	82657357	13642	SRX11797835	SRS9797770	SRA1279325	Institute of Marine Sciences\|Repro-Immune Team	Institute of Marine Sciences	1	0.74041	0.54329	0.82923	0.52999	50	B	usable mapping rate	illumina	hiseq_era	unknown	small_rna	nebnext	bulk	unknown	unknown	United States	2021-08-17	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");;