metadata: run_metadata: 62 rows where experiment.library_selection = "RT-PCR" and tissue_curation

62 rows where experiment.library_selection = "RT-PCR" and tissue_curation_coarse = "Liver and Biliary System"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	sample.description	sample.title	sample.alias	sample.attributes	experiment.title	experiment.alias	experiment.library_name	experiment.design_description	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.spot_descriptor	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.mapping_rate.mate2	seqdetective.nofeature_rate.mate1	seqdetective.nofeature_rate.mate2	seqdetective.sparsity.mate1	seqdetective.sparsity.mate2	seqdetective.pos_strand_rate.mate1	seqdetective.pos_strand_rate.mate2	seqdetective.readlen.mate1	seqdetective.readlen.mate2	seqdetective.judgement.mate1	seqdetective.judgement.mate2	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
34409	34409	SRR31747815	SRX27109876	SRS23567839	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			AFB2	strain:not collected\|isolate:liver AFB2\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 2\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172628	LRA172628	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	AFB2_R1.fastq.gz AFB2_R2.fastq.gz	fastq fastq	7190069454.0	23808177.0	AFB2 R1.fastq.gz	0:151 1:151	A:2078244342;C:1510893083;G:1547178609;T:2053626767;N:126653	151	151	2078244342	1510893083	1547178609	2053626767	126653	SRX27109876	SRS23567839	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34410	34410	SRR31747816	SRX27109875	SRS23567837	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			AFB1	strain:not collected\|isolate:liver AFB1\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 1\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172627	LRA172627	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	AFB1_R1.fastq.gz AFB1_R2.fastq.gz	fastq fastq	7463779000.0	24714500.0	AFB1 R1.fastq.gz	0:151 1:151	A:2176506326;C:1554667596;G:1582400568;T:2150036004;N:168506	151	151	2176506326	1554667596	1582400568	2150036004	168506	SRX27109875	SRS23567837	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34411	34411	SRR31747817	SRX27109874	SRS23567838	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			EPO4	strain:not collected\|isolate:liver EPO4\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 4\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172635	LRA172635	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	EPO4_R1.fastq.gz EPO4_R2.fastq.gz	fastq fastq	8273309328.0	27395064.0	EPO4 R1.fastq.gz	0:151 1:151	A:2390853071;C:1742121394;G:1771230346;T:2368915323;N:189194	151	151	2390853071	1742121394	1771230346	2368915323	189194	SRX27109874	SRS23567838	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34412	34412	SRR31747818	SRX27109873	SRS23567836	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			EPO3	strain:not collected\|isolate:liver EPO3\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 3\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172634	LRA172634	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	EPO3_R1.fastq.gz EPO3_R2.fastq.gz	fastq fastq	7097420082.0	23501391.0	EPO3 R1.fastq.gz	0:151 1:151	A:2092952383;C:1451623472;G:1477150205;T:2075535584;N:158438	151	151	2092952383	1451623472	1477150205	2075535584	158438	SRX27109873	SRS23567836	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34413	34413	SRR31747819	SRX27109872	SRS23567834	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			EPO2	strain:not collected\|isolate:liver EPO2\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 2\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172633	LRA172633	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	EPO2_R1.fastq.gz EPO2_R2.fastq.gz	fastq fastq	7332924514.0	24281207.0	EPO2 R1.fastq.gz	0:151 1:151	A:2162671338;C:1496551996;G:1515648771;T:2157891639;N:160770	151	151	2162671338	1496551996	1515648771	2157891639	160770	SRX27109872	SRS23567834	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34414	34414	SRR31747820	SRX27109871	SRS23567835	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			EPO1	strain:not collected\|isolate:liver EPO1\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 1\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172632	LRA172632	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	EPO1_R1.fastq.gz EPO1_R2.fastq.gz	fastq fastq	8287626544.0	27442472.0	EPO1 R1.fastq.gz	0:151 1:151	A:2435156330;C:1694808350;G:1717315788;T:2440143946;N:202130	151	151	2435156330	1694808350	1717315788	2440143946	202130	SRX27109871	SRS23567835	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34415	34415	SRR31747821	SRX27109870	SRS23567833	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			CK5	strain:not collected\|isolate:liver CK4\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 4\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172626	LRA172626	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	CK5_R1.fastq.gz CK5_R2.fastq.gz	fastq fastq	7157140280.0	23699140.0	CK5 R1.fastq.gz	0:151 1:151	A:2092635667;C:1492801085;G:1512780390;T:2058759456;N:163682	151	151	2092635667	1492801085	1512780390	2058759456	163682	SRX27109870	SRS23567833	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34416	34416	SRR31747822	SRX27109869	SRS23567832	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			CK4	strain:not collected\|isolate:liver CK3\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 3\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172625	LRA172625	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	CK4_R1.fastq.gz CK4_R2.fastq.gz	fastq fastq	5903236582.0	19547141.0	CK4 R1.fastq.gz	0:151 1:151	A:1649245280;C:1297061493;G:1327173777;T:1629624071;N:131961	151	151	1649245280	1297061493	1327173777	1629624071	131961	SRX27109869	SRS23567832	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34417	34417	SRR31747823	SRX27109868	SRS23567831	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			COM5	strain:not collected\|isolate:liver COM4\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 4\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172641	LRA172641	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	COM5_R1.fastq.gz COM5_R2.fastq.gz	fastq fastq	7598066924.0	25159162.0	COM5 R1.fastq.gz	0:151 1:151	A:2223131767;C:1578956803;G:1603115446;T:2192694602;N:168306	151	151	2223131767	1578956803	1603115446	2192694602	168306	SRX27109868	SRS23567831	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34418	34418	SRR31747824	SRX27109867	SRS23567830	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			COM4	strain:not collected\|isolate:liver COM3\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 3\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172640	LRA172640	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	COM4_R1.fastq.gz COM4_R2.fastq.gz	fastq fastq	7633749130.0	25277315.0	COM4 R1.fastq.gz	0:151 1:151	A:2223410712;C:1603699864;G:1630586500;T:2175879626;N:172428	151	151	2223410712	1603699864	1630586500	2175879626	172428	SRX27109867	SRS23567830	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34419	34419	SRR31747825	SRX27109866	SRS23567829	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			COM3	strain:not collected\|isolate:liver COM2\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 2\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172639	LRA172639	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	COM3_R1.fastq.gz COM3_R2.fastq.gz	fastq fastq	7474959946.0	24751523.0	COM3 R1.fastq.gz	0:151 1:151	A:2145268206;C:1597121014;G:1632808908;T:2099584265;N:177553	151	151	2145268206	1597121014	1632808908	2099584265	177553	SRX27109866	SRS23567829	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34420	34420	SRR31747826	SRX27109865	SRS23567827	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			COM2	strain:not collected\|isolate:liver COM1\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 1\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172638	LRA172638	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	COM2_R1.fastq.gz COM2_R2.fastq.gz	fastq fastq	8791460090.0	29110795.0	COM2 R1.fastq.gz	0:151 1:151	A:2541630685;C:1869577126;G:1894336180;T:2485706665;N:209434	151	151	2541630685	1869577126	1894336180	2485706665	209434	SRX27109865	SRS23567827	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34421	34421	SRR31747827	SRX27109864	SRS23567828	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			AFB4	strain:not collected\|isolate:liver AFB4\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 4\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172630	LRA172630	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	AFB4_R1.fastq.gz AFB4_R2.fastq.gz	fastq fastq	7267902102.0	24065901.0	AFB4 R1.fastq.gz	0:151 1:151	A:2123758982;C:1506909715;G:1535054542;T:2102016033;N:162830	151	151	2123758982	1506909715	1535054542	2102016033	162830	SRX27109864	SRS23567828	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34422	34422	SRR31747828	SRX27109863	SRS23567826	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			AFB3	strain:not collected\|isolate:liver AFB3\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 3\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172629	LRA172629	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	AFB3_R1.fastq.gz AFB3_R2.fastq.gz	fastq fastq	6300108070.0	20861285.0	AFB3 R1.fastq.gz	0:151 1:151	A:1796927680;C:1350016175;G:1379242261;T:1773425050;N:496904	151	151	1796927680	1350016175	1379242261	1773425050	496904	SRX27109863	SRS23567826	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34423	34423	SRR31747829	SRX27109862	SRS23567825	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			CK2	strain:not collected\|isolate:liver CK2\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 2\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172623	LRA172623	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	CK2_R1.fastq.gz CK2_R2.fastq.gz	fastq fastq	6706705770.0	22207635.0	CK2 R1.fastq.gz	0:151 1:151	A:1918005955;C:1429871875;G:1469836872;T:1888840563;N:150505	151	151	1918005955	1429871875	1469836872	1888840563	150505	SRX27109862	SRS23567825	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
34424	34424	SRR31747830	SRX27109861	SRS23567824	SRP552011	PRJNA1199330	Transcriptomic analysis of zebrafish liver	PRJNA1199330	Other	The liver of adult female zebrafish was analyzed.Subsequently RNA seq results were used to explore the key mechanisms of liver damage caused by single and combined exposure to EPO and AFB1.			CK1	strain:not collected\|isolate:liver CK1\|breed:bred in tanks\|cultivar:not collected\|ecotype:wild type AB\|age:7 mpf\|dev stage:Adult zebrafish\|collection date:2023 12 03\|geo loc name:China: Zhejiang\|sex:female\|tissue:liver\|replicate:biological replicate 1\|BioSampleModel:Model organism or animal	transcriptomic sequencing	LRA172622	LRA172622	The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP552011	CK1_R1.fastq.gz CK1_R2.fastq.gz	fastq fastq	6319435768.0	20925284.0	CK1 R1.fastq.gz	0:151 1:151	A:1793805737;C:1361852588;G:1396171190;T:1767105304;N:500949	151	151	1793805737	1361852588	1396171190	1767105304	500949	SRX27109861	SRS23567824	SRA2036115	shandong university\|School of Public Health	shandong university												B	B	biological fallback assumption	illumina	novaseq_era	unknown	poly_a	unknown	bulk	unknown	unknown	China	2024-12-17	Adult	Adult	Liver	Liver and Biliary System
38289	38289	SRR1731761	SRX828260	SRS807370	SRP051449	PRJNA266270	Danio rerio Transcriptome or Gene expression	PRJNA266270	Other	To identify molecular signals that initiate liver regeneration post 1/3 PH			sham operated liver transcriptome post 1/3 PH	breed:AB line\|cultivar:AB line\|strain:AB line\|age:10 month\|sex:female\|tissue:liver\|BioSampleModel:Model organism or animal	sham operated liver transcriptome post 1/3 PH	sham operated	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>72</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP051449	sham-operated_R1.fastq.gz sham-operated_R2.fastq.gz	fastq fastq	2339904960.0	16249340.0	sham operated	0:72 1:72	A:639730953;C:549099184;G:603489762;T:545135156;N:2449905	72	72	639730953	549099184	603489762	545135156	2449905	SRX828260	SRS807370	SRA223828	Institute of Hydrobiology, Chinese Academy of Scie\|The Key Laboratory of Aquatic Biodiversity and Con	Chinese Academy of Sciences	2	0.9353	0.91074	0.02617	0.0253	0.86334	0.86387	0.35902	0.36066	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2016-02-05	Adult	Adult	Liver	Liver and Biliary System
38368	38368	SRR1794626	SRX869998	SRS840790	SRP053395	PRJNA275005	Danio rerio Transcriptome or Gene expression	PRJNA275005	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/3 PH	24h liver		24h	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 24h\|BioSampleModel:Model organism or animal	dataset of 24h	seq3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053395	24h_run1_R2.fastq.gz 24h_run1_R1.fastq.gz	fastq fastq	2289928608.0	15902282.0	24h run1	0:72 1:72	A:626915024;C:536371415;G:589478213;T:534770153;N:2393803	72	72	626915024	536371415	589478213	534770153	2393803	SRX869998	SRS840790	SRA237004	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92769	0.90986	0.02558	0.02455	0.8493	0.84829	0.43228	0.43547	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-04-27	Adult	Adult	Liver	Liver and Biliary System
38369	38369	SRR1794625	SRX869996	SRS840789	SRP053395	PRJNA275005	Danio rerio Transcriptome or Gene expression	PRJNA275005	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/3 PH	6h liver		6h	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 6h\|BioSampleModel:Model organism or animal	dataset of 6h	seq2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053395			2014108128.0	13986862.0	6h run1	0:72 1:72	A:542840697;C:473739345;G:521450086;T:473979205;N:2098795	72	72	542840697	473739345	521450086	473979205	2098795	SRX869996	SRS840789	SRA237004	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92694	0.90124	0.02907	0.0277	0.85178	0.85044	0.41862	0.40751	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38370	38370	SRR1794624	SRX869994	SRS840787	SRP053395	PRJNA275005	Danio rerio Transcriptome or Gene expression	PRJNA275005	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/3 PH	sham liver		sham	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 0h\|BioSampleModel:Model organism or animal	dataset of sham	seq1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053395	sham_run1_R2.fastq.gz sham_run1_R1.fastq.gz	fastq fastq	2339904960.0	16249340.0	sham run1	0:72 1:72	A:639730953;C:549099184;G:603489762;T:545135156;N:2449905	72	72	639730953	549099184	603489762	545135156	2449905	SRX869994	SRS840787	SRA237004	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.9353	0.91073	0.02617	0.02532	0.8635	0.86375	0.35879	0.36066	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-09-01	Adult	Adult	Liver	Liver and Biliary System
38371	38371	SRR1797772	SRX872343	SRS842660	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	168h liver		168h3	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 168h3\|BioSampleModel:Model organism or animal	dataset of 168h3	168h3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	168h3_R2.fastq.gz 168h3_R1.fastq.gz	fastq fastq	1829810880.0	12707020.0	168h3 run1	0:72 1:72	A:507414236;C:419304531;G:483140650;T:415843108;N:4108355	72	72	507414236	419304531	483140650	415843108	4108355	SRX872343	SRS842660	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93139	0.91693	0.02938	0.02891	0.85786	0.85896	0.39495	0.39212	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-12	Adult	Adult	Liver	Liver and Biliary System
38372	38372	SRR1797771	SRX872342	SRS842658	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	168h liver		168h2	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 168h2\|BioSampleModel:Model organism or animal	dataset of 168h2	168h2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	168h2_R2.fastq.gz 168h2_R1.fastq.gz	fastq fastq	1372976928.0	9534562.0	168h2 run1	0:72 1:72	A:387077556;C:311282950;G:355929958;T:317312161;N:1374303	72	72	387077556	311282950	355929958	317312161	1374303	SRX872342	SRS842658	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92667	0.9069	0.03341	0.03285	0.85498	0.85492	0.4097	0.41426	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
38373	38373	SRR1797770	SRX872341	SRS842657	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	168h liver		168h1	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 168h1\|BioSampleModel:Model organism or animal	dataset of 168h1	168h1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641			2340104400.0	16250725.0	168h1 run1	0:72 1:72	A:667910990;C:526343343;G:603352668;T:540093539;N:2403860	72	72	667910990	526343343	603352668	540093539	2403860	SRX872341	SRS842657	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92746	0.90675	0.03592	0.03513	0.85476	0.85439	0.42337	0.42165	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-12	Adult	Adult	Liver	Liver and Biliary System
38374	38374	SRR1797769	SRX872340	SRS842656	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	120h liver		120h3	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 120h3\|BioSampleModel:Model organism or animal	dataset of 120h3	120h3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	120h3_R2.fastq.gz 120h3_R1.fastq.gz	fastq fastq	2124608256.0	14754224.0	120h3 run1	0:72 1:72	A:589644602;C:493725581;G:545952985;T:492854671;N:2430417	72	72	589644602	493725581	545952985	492854671	2430417	SRX872340	SRS842656	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.91869	0.89606	0.03516	0.03395	0.81251	0.81355	0.48462	0.48678	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-12	Adult	Adult	Liver	Liver and Biliary System
38375	38375	SRR1797766	SRX872339	SRS842654	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	120h liver		120h2	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 120h2\|BioSampleModel:Model organism or animal	dataset of 120h2	120h2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	120h2_R2.fastq.gz 120h2_R1.fastq.gz	fastq fastq	3623274144.0	25161626.0	120h2 run1	0:72 1:72	A:989104008;C:844487837;G:939298291;T:842275169;N:8108839	72	72	989104008	844487837	939298291	842275169	8108839	SRX872339	SRS842654	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92813	0.91285	0.03423	0.03358	0.8229	0.82465	0.47773	0.46762	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-12	Adult	Adult	Liver	Liver and Biliary System
38376	38376	SRR1797767	SRX872338	SRS842655	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	120h liver		120h1	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 120h1\|BioSampleModel:Model organism or animal	dataset of 120h1	120h1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	120h1_R1.fastq.gz 120h1_R2.fastq.gz	fastq fastq	2166956496.0	15048309.0	120h1 run1	0:72 1:72	A:598794680;C:504653997;G:556024260;T:505305435;N:2178124	72	72	598794680	504653997	556024260	505305435	2178124	SRX872338	SRS842655	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92625	0.89458	0.03686	0.03577	0.83313	0.83319	0.3839	0.38104	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
38377	38377	SRR1797747	SRX872337	SRS842650	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	72h liver		72h3	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 72h3\|BioSampleModel:Model organism or animal	dataset of 72h3	72h3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	72h3_R2.fastq.gz 72h3_R1.fastq.gz	fastq fastq	2933514432.0	20371628.0	72h3 run1	0:72 1:72	A:797742153;C:682061705;G:766687384;T:683472770;N:3550420	72	72	797742153	682061705	766687384	683472770	3550420	SRX872337	SRS842650	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92802	0.91291	0.04028	0.03941	0.80823	0.8058	0.38547	0.38408	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38378	38378	SRR1797748	SRX872335	SRS842652	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	72h liver		72h2	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 72h2\|BioSampleModel:Model organism or animal	dataset of 72h2	72h2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	72h2_R1.fastq.gz 72h2_R2.fastq.gz	fastq fastq	2557417104.0	17759841.0	72h2 run1	0:72 1:72	A:696915838;C:596106147;G:665835965;T:595973685;N:2585469	72	72	696915838	596106147	665835965	595973685	2585469	SRX872335	SRS842652	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93065	0.91586	0.03416	0.03379	0.8141	0.81499	0.42586	0.43195	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
38379	38379	SRR1797757	SRX872334	SRS842653	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	72h liver		72h1	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 72h1\|BioSampleModel:Model organism or animal	dataset of 72h1	72h1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	72h1_R2.fastq.gz 72h1_R1.fastq.gz	fastq fastq	1736716752.0	12060533.0	72h1 run1	0:72 1:72	A:475022900;C:405075078;G:460472558;T:394162576;N:1983640	72	72	475022900	405075078	460472558	394162576	1983640	SRX872334	SRS842653	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92183	0.90613	0.0358	0.03522	0.8115	0.81101	0.42319	0.42579	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38380	38380	SRR1797745	SRX872333	SRS842648	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	24h liver		24h3	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 24h3\|BioSampleModel:Model organism or animal	dataset of 24h3	24h3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641			1569651120.0	10900355.0	24h3 run1	0:72 1:72	A:423126744;C:367185056;G:396200408;T:381254240;N:1884672	72	72	423126744	367185056	396200408	381254240	1884672	SRX872333	SRS842648	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93264	0.91619	0.03833	0.03737	0.81688	0.81572	0.43721	0.43409	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38381	38381	SRR1797746	SRX872331	SRS842649	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	24h liver		24h2	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 24h2\|BioSampleModel:Model organism or animal	dataset of 24h2	24h2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	24h2_R2.fastq.gz 24h2_R1.fastq.gz	fastq fastq	1422217008.0	9876507.0	24h2 run1	0:72 1:72	A:390236570;C:330456473;G:374590722;T:323786549;N:3146694	72	72	390236570	330456473	374590722	323786549	3146694	SRX872331	SRS842649	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.92821	0.91652	0.03889	0.03857	0.80967	0.81081	0.46985	0.47021	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38382	38382	SRR1797739	SRX872330	SRS842642	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	24h liver		24h1	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 24h1\|BioSampleModel:Model organism or animal	dataset of 24h1	24h1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	24h1_R2.fastq.gz 24h1_R1.fastq.gz	fastq fastq	2626902432.0	18242378.0	24h1 run1	0:72 1:72	A:714587119;C:615398392;G:680070460;T:614156384;N:2690077	72	72	714587119	615398392	680070460	614156384	2690077	SRX872330	SRS842642	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.9304	0.91251	0.03891	0.03782	0.81544	0.81497	0.44392	0.44136	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
38383	38383	SRR1797742	SRX872329	SRS842643	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	6h liver		6h3	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 6h3\|BioSampleModel:Model organism or animal	dataset of 6h3	6h3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	6h3_R2.fastq.gz 6h3_R1.fastq.gz	fastq fastq	1938177648.0	13459567.0	6h3 run1	0:72 1:72	A:523126356;C:454912954;G:495840791;T:462357650;N:1939897	72	72	523126356	454912954	495840791	462357650	1939897	SRX872329	SRS842643	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93257	0.90684	0.03621	0.03457	0.83869	0.83863	0.33982	0.34227	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38384	38384	SRR1797743	SRX872328	SRS842644	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	6h liver		6h2	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 6h2\|BioSampleModel:Model organism or animal	dataset of 6h2	6h2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	6h2_R2.fastq.gz 6h2_R1.fastq.gz	fastq fastq	2319432192.0	16107168.0	6h2 run1	0:72 1:72	A:625884355;C:540703450;G:592119356;T:557909621;N:2815410	72	72	625884355	540703450	592119356	557909621	2815410	SRX872328	SRS842644	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93408	0.91082	0.0354	0.03434	0.83796	0.83749	0.31743	0.30223	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38385	38385	SRR1797744	SRX872326	SRS842646	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	6h liver		6h1	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 6h1\|BioSampleModel:Model organism or animal	dataset of 6h1	6h1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	6h1_R1.fastq.gz 6h1_R2.fastq.gz	fastq fastq	1185504192.0	8232668.0	6h1 run1	0:72 1:72	A:323711674;C:275906178;G:301056404;T:283638538;N:1191398	72	72	323711674	275906178	301056404	283638538	1191398	SRX872326	SRS842646	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.935	0.90283	0.03624	0.03492	0.85957	0.86011	0.3455	0.33748	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
38386	38386	SRR1797731	SRX872325	SRS842639	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	sham liver		sham3	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 0h3\|BioSampleModel:Model organism or animal	dataset of sham3	sham3	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	sham3_R1.fastq.gz sham3_R2.fastq.gz	fastq fastq	1303090560.0	9049240.0	sham3	0:72 1:72	A:359825691;C:304363785;G:341568854;T:296025320;N:1306910	72	72	359825691	304363785	341568854	296025320	1306910	SRX872325	SRS842639	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93381	0.90458	0.02771	0.02603	0.87411	0.87361	0.29605	0.29329	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
38387	38387	SRR1797734	SRX872324	SRS842640	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	sham liver		sham2	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 0h2\|BioSampleModel:Model organism or animal	dataset of sham2	sham2	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	sham2_R2.fastq.gz sham2_R1.fastq.gz	fastq fastq	1191890880.0	8277020.0	sham2	0:72 1:72	A:326599941;C:278538295;G:311022201;T:274492630;N:1237813	72	72	326599941	278538295	311022201	274492630	1237813	SRX872324	SRS842640	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93879	0.91451	0.02936	0.02817	0.88333	0.88357	0.27449	0.27692	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-02-11	Adult	Adult	Liver	Liver and Biliary System
38388	38388	SRR1797733	SRX872323	SRS842641	SRP053641	PRJNA275178	Danio rerio Transcriptome or Gene expression	PRJNA275178	Other	To investigate the transcriptional regulation in zebrafish liver during the process of regeneration post 1/9 PH	sham liver		sham1	strain:AB line\|age:10 month\|dev stage:adult\|sex:female\|tissue:liver\|isolation source:regenerating livers collected at 0h1\|BioSampleModel:Model organism or animal	dataset of sham1	sham1	1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina Genome Analyzer IIx	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>144</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>73</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP053641	sham1_R1.fastq.gz sham1_R2.fastq.gz	fastq fastq	1459401408.0	10134732.0	sham1	0:72 1:72	A:400303022;C:340413227;G:380056042;T:336967745;N:1661372	72	72	400303022	340413227	380056042	336967745	1661372	SRX872323	SRS842641	SRA237656	Institute of Hydrobiology, Chinese Academy of Scie\|Environmental genomics group	Institute of Hydrobiology, Chinese Academy of Sciences	2	0.93216	0.90538	0.03151	0.03038	0.88781	0.88787	0.28115	0.27603	72	72	B	B	biological fallback assumption	illumina	early_illumina	unknown	other	unknown	bulk	unknown	unknown	China	2015-12-01	Adult	Adult	Liver	Liver and Biliary System
41593	41593	SRR392106	SRX111567	SRS282484	SRP009841	PRJNA3560	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNAseq	Transcriptome Analysis	The zebrafish Danio rerio is a prominent vertebrate development model has been extensively utilized as the pathogen host interaction to be studied in recent yrs. However the mechanisms involved in the immune response of the zebrafish to vaccine are not fully understood. For clarify the high immune relative protection in zebrafish following the immunization of the putative Edwardsiella tarda E. tarda live attenuate vaccine we performed a comparative gene expression analysis of mocked and immunized zebrafish using the RNA seq technology and DEGseq to identify differential expressed genes chiefly for gaining deep insight into the liver immunogenetics post WEDplas vaccinated zebrafish.	RNA sequencinag of mRNAs from zebrafish liver following live attenuate vaccine immunized 2 days.	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNA sequence		ZF RNA sequence	ZF RNA sequence	wt1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP009841	c1-2_1.fq c1-2_2.fq	fastq fastq	855494000.0	4502600.0	Control Sampe 1	0:100 1:90	A:217839807;C:202017646;G:207454208;T:227797566;N:384773	100	90	217839807	202017646	207454208	227797566	384773	SRX111567	SRS282484	SRA048658	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	2	0.87575	0.93454	0.06936	0.08546	0.82513	0.82306	0.49603	0.49334	100	90	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	China	2012-08-01	Undetermined	Undetermined	Liver	Liver and Biliary System
41594	41594	SRR392108	SRX111567	SRS282484	SRP009841	PRJNA3560	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNAseq	Transcriptome Analysis	The zebrafish Danio rerio is a prominent vertebrate development model has been extensively utilized as the pathogen host interaction to be studied in recent yrs. However the mechanisms involved in the immune response of the zebrafish to vaccine are not fully understood. For clarify the high immune relative protection in zebrafish following the immunization of the putative Edwardsiella tarda E. tarda live attenuate vaccine we performed a comparative gene expression analysis of mocked and immunized zebrafish using the RNA seq technology and DEGseq to identify differential expressed genes chiefly for gaining deep insight into the liver immunogenetics post WEDplas vaccinated zebrafish.	RNA sequencinag of mRNAs from zebrafish liver following live attenuate vaccine immunized 2 days.	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNA sequence		ZF RNA sequence	ZF RNA sequence	wt1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP009841	c2-2_1.fq c2-2_2.fq	fastq fastq	1238874100.0	6520390.0	Control Sampe 2	0:100 1:90	A:316162781;C:292160612;G:299402161;T:330578118;N:570428	100	90	316162781	292160612	299402161	330578118	570428	SRX111567	SRS282484	SRA048658	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	2	0.89891	0.94864	0.03863	0.04738	0.8673	0.86531	0.28488	0.27076	100	90	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	China	2012-08-01	Undetermined	Undetermined	Liver	Liver and Biliary System
41595	41595	SRR392109	SRX111567	SRS282484	SRP009841	PRJNA3560	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNAseq	Transcriptome Analysis	The zebrafish Danio rerio is a prominent vertebrate development model has been extensively utilized as the pathogen host interaction to be studied in recent yrs. However the mechanisms involved in the immune response of the zebrafish to vaccine are not fully understood. For clarify the high immune relative protection in zebrafish following the immunization of the putative Edwardsiella tarda E. tarda live attenuate vaccine we performed a comparative gene expression analysis of mocked and immunized zebrafish using the RNA seq technology and DEGseq to identify differential expressed genes chiefly for gaining deep insight into the liver immunogenetics post WEDplas vaccinated zebrafish.	RNA sequencinag of mRNAs from zebrafish liver following live attenuate vaccine immunized 2 days.	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNA sequence		ZF RNA sequence	ZF RNA sequence	wt1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP009841	c3-2_2.fq c3-2_1.fq	fastq fastq	2412101476.0	12830327.0	Control Sampe 3	0:100 1:88	A:611075174;C:569003408;G:589175071;T:641747898;N:1099925	100	88	611075174	569003408	589175071	641747898	1099925	SRX111567	SRS282484	SRA048658	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	2	0.87563	0.94341	0.03506	0.0441	0.83063	0.82795	0.41995	0.41226	100	88	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	China	2012-08-01	Undetermined	Undetermined	Liver	Liver and Biliary System
41596	41596	SRR392110	SRX111567	SRS282484	SRP009841	PRJNA3560	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNAseq	Transcriptome Analysis	The zebrafish Danio rerio is a prominent vertebrate development model has been extensively utilized as the pathogen host interaction to be studied in recent yrs. However the mechanisms involved in the immune response of the zebrafish to vaccine are not fully understood. For clarify the high immune relative protection in zebrafish following the immunization of the putative Edwardsiella tarda E. tarda live attenuate vaccine we performed a comparative gene expression analysis of mocked and immunized zebrafish using the RNA seq technology and DEGseq to identify differential expressed genes chiefly for gaining deep insight into the liver immunogenetics post WEDplas vaccinated zebrafish.	RNA sequencinag of mRNAs from zebrafish liver following live attenuate vaccine immunized 2 days.	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNA sequence		ZF RNA sequence	ZF RNA sequence	wt1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP009841	v1_2.fq v1_1.fq	fastq fastq	1549099640.0	8153156.0	Case sampe 1	0:100 1:90	A:412607118;C:353282622;G:359371048;T:423373718;N:465134	100	90	412607118	353282622	359371048	423373718	465134	SRX111567	SRS282484	SRA048658	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	2	0.92368	0.9462	0.0604	0.06838	0.81249	0.81578	0.47008	0.4761	100	90	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	China	2012-08-01	Undetermined	Undetermined	Liver	Liver and Biliary System
41597	41597	SRR392111	SRX111567	SRS282484	SRP009841	PRJNA3560	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNAseq	Transcriptome Analysis	The zebrafish Danio rerio is a prominent vertebrate development model has been extensively utilized as the pathogen host interaction to be studied in recent yrs. However the mechanisms involved in the immune response of the zebrafish to vaccine are not fully understood. For clarify the high immune relative protection in zebrafish following the immunization of the putative Edwardsiella tarda E. tarda live attenuate vaccine we performed a comparative gene expression analysis of mocked and immunized zebrafish using the RNA seq technology and DEGseq to identify differential expressed genes chiefly for gaining deep insight into the liver immunogenetics post WEDplas vaccinated zebrafish.	RNA sequencinag of mRNAs from zebrafish liver following live attenuate vaccine immunized 2 days.	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNA sequence		ZF RNA sequence	ZF RNA sequence	wt1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP009841	v2_1.fq v2_2.fq	fastq fastq	1465445712.0	7794924.0	Case sampe 2	0:100 1:88	A:387149663;C:337675800;G:340143929;T:400109622;N:366698	100	88	387149663	337675800	340143929	400109622	366698	SRX111567	SRS282484	SRA048658	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	2	0.92047	0.94711	0.05494	0.06325	0.81255	0.8143	0.48839	0.47383	100	88	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	China	2012-08-01	Undetermined	Undetermined	Liver	Liver and Biliary System
41598	41598	SRR402758	SRX111567	SRS282484	SRP009841	PRJNA3560	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNAseq	Transcriptome Analysis	The zebrafish Danio rerio is a prominent vertebrate development model has been extensively utilized as the pathogen host interaction to be studied in recent yrs. However the mechanisms involved in the immune response of the zebrafish to vaccine are not fully understood. For clarify the high immune relative protection in zebrafish following the immunization of the putative Edwardsiella tarda E. tarda live attenuate vaccine we performed a comparative gene expression analysis of mocked and immunized zebrafish using the RNA seq technology and DEGseq to identify differential expressed genes chiefly for gaining deep insight into the liver immunogenetics post WEDplas vaccinated zebrafish.	RNA sequencinag of mRNAs from zebrafish liver following live attenuate vaccine immunized 2 days.	RNA seq based liver transcriptome analysis revealed an activated MHC I pathway and an inhibited MHC II pathway at the early stage of vaccine immunization in zebrafish	ZF RNA sequence		ZF RNA sequence	ZF RNA sequence	wt1	1	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000	<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>	SRP009841	v3_2.fq v3_1.fq	fastq fastq	1025249164.0	5453453.0	Case sampe 3	0:100 1:88	A:261599009;C:242254683;G:249423008;T:271717829;N:254635	100	88	261599009	242254683	249423008	271717829	254635	SRX111567	SRS282484	SRA048658	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	East China University Of Science And Technology\|State Key Laboratory of Pathogen and Biosecurity	2	0.93668	0.95934	0.02982	0.03449	0.81347	0.8196	0.47392	0.47176	100	88	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	China	2012-08-01	Undetermined	Undetermined	Liver	Liver and Biliary System
42181	42181	SRR5482153	SRX2765568	SRS2149771	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Large harvested line biological replicate 1 F2 offspring originating from wild caught population	LS1 F2	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2008\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a large harvested selection line F2 individuals	LS1 F2	LS1 F2	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	LS1-F2-10_FCC4CMHACXX_L1_WHZEBagiNCADRAAPEI-205_1.fq.gz LS1-F2-1_FCC4BKHACXX_L7_WHZEBagiNCAARAAPEI-201_1.fq.gz LS1-F2-5_FCC4BKHACXX_L7_WHZEBagiNCABRAAPEI-202_1.fq.gz LS1-F2-8_FCC4BKHACXX_L7_WHZEBagiNCACRAAPEI-203_1.fq.gz	fastq fastq fastq fastq	12496905120.0	255038880.0	LS1 F2 10 FCC4CMHACXX L1 WHZEBagiNCADRAAPEI 205 1.fq.gz	0:49	A:3275093505;C:2981786839;G:2904373605;T:3334855308;N:795863	49		3275093505	2981786839	2904373605	3334855308	795863	SRX2765568	SRS2149771	SRA557107	University of Turku\|Biology	University of Turku	1	0.88577		0.04599		0.76469		0.48703		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42182	42182	SRR5482152	SRX2765567	SRS2149770	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Large harvested line biological replicate 2 F2 offspring originating from wild caught population	LS2 F2	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2008\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a large harvested selection line F2 individuals	LS2 F2	LS2 F2	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	LS2-F2-10_FCC4CMHACXX_L4_WHZEBagiNCALRAAPEI-213_1.fq.gz LS2-F2-11_FCC4CMHACXX_L4_WHZEBagiNCAMRAAPEI-214_1.fq.gz LS2-F2-14_FCC4C2AACXX_L1_WHZEBagiNCANRAAPEI-215_1.fq.gz LS2-F2-9_FCC4CMHACXX_L4_WHZEBagiNCAKRAAPEI-212_1.fq.gz	fastq fastq fastq fastq	11108547205.0	226705045.0	LS2 F2 9 FCC4CMHACXX L4 WHZEBagiNCAKRAAPEI 212 1.fq.gz	0:49	A:2930693084;C:2628276474;G:2564131315;T:2984423047;N:1023285	49		2930693084	2628276474	2564131315	2984423047	1023285	SRX2765567	SRS2149770	SRA557107	University of Turku\|Biology	University of Turku	1	0.90013		0.04677		0.81251		0.44762		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42183	42183	SRR5482151	SRX2765565	SRS2149769	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Random harvested line biological replicate 1 F2 offspring originating from wild caught population	RS1 F2	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2008\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a random harvested selection line F2 individuals	RS1 F2	RS1 F2	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	RS1-F2-14_FCC4C2AACXX_L2_WHZEBagiNCAURAAPEI-223_1.fq.gz RS1-F2-16_FCC4C2AACXX_L2_WHZEBagiNCAVRAAPEI-225_1.fq.gz RS1-F2-17_FCC4C2AACXX_L3_WHZEBagiNCAWRAAPEI-227_1.fq.gz RS1-F2-19_FCC4C2AACXX_L3_WHZEBagiNCAXRAAPEI-201_1.fq.gz	fastq fastq fastq fastq	12074501894.0	246418406.0	RS1 F2 16 FCC4C2AACXX L2 WHZEBagiNCAVRAAPEI 225 1.fq.gz	0:49	A:3199737416;C:2851335695;G:2767557430;T:3254746975;N:1124378	49		3199737416	2851335695	2767557430	3254746975	1124378	SRX2765565	SRS2149769	SRA557107	University of Turku\|Biology	University of Turku	1	0.87838		0.05071		0.81663		0.55417		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42184	42184	SRR5482150	SRX2765564	SRS2149768	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Random harvested line biological replicate 2 F2 offspring originating from wild caught population	RS2 F2	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2008\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a random harvested selection line F2 individuals	RS2 F2	RS2 F2	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	RS2-F2-3_FCC4CMHACXX_L2_WHZEBagiNCBFRAAPEI-210_1.fq.gz RS2-F2-6-2_FCC4CMHACXX_L2_WHZEBagiNCBGRAAPEI-211_1.fq.gz RS2-F2-8_FCC4CMHACXX_L2_WHZEBagiNCBHRABPEI-212_1.fq.gz RS2-F2-9_FCC4CMHACXX_L3_WHZEBagiNCBIRABPEI-213_1.fq.gz	fastq fastq fastq fastq	11923597525.0	243338725.0	RS2 F2 9 FCC4CMHACXX L3 WHZEBagiNCBIRABPEI 213 1.fq.gz	0:49	A:3132507165;C:2819390547;G:2776793842;T:3193588286;N:1317685	49		3132507165	2819390547	2776793842	3193588286	1317685	SRX2765564	SRS2149768	SRA557107	University of Turku\|Biology	University of Turku	1	0.90986		0.05269		0.814		0.36827		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42185	42185	SRR5482149	SRX2765563	SRS2149767	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Large harvested line biological replicate 1 F5 offspring originating from wild caught population	LS1 F5	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2010\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a large harvested selection line F5 individuals	LS1 F5	LS1 F5	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	LS1-15_FCC4C3HACXX_L1_WHZEBagiNBANRAAPEI-215_1.fq.gz LS1-2_FCC4BJ2ACXX_L5_WHZEBagiNBABRAAPEI-202_1.fq.gz LS1-6_FCC4BJ2ACXX_L6_WHZEBagiNBAFRAAPEI-207_1.fq.gz LS1-8_FCC4BJ2ACXX_L8_WHZEBagiNBAJRAAPEI-211_1.fq.gz	fastq fastq fastq fastq	12776192331.0	260738619.0	LS1 2 FCC4BJ2ACXX L5 WHZEBagiNBABRAAPEI 202 1.fq.gz	0:49	A:3371838433;C:3025006624;G:2934135898;T:3444117388;N:1093988	49		3371838433	3025006624	2934135898	3444117388	1093988	SRX2765563	SRS2149767	SRA557107	University of Turku\|Biology	University of Turku	1	0.88482		0.04932		0.813		0.51224		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42186	42186	SRR5482148	SRX2765562	SRS2149766	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Large harvested line biological replicate 2 F5 offspring originating from wild caught population	LS2 F5	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2010\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a large harvested selection line F5 individuals	LS2 F5	LS2 F5	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	LS2-10_FCC4BJ2ACXX_L8_WHZEBagiNBAKRAAPEI-212_1.fq.gz LS2-11_FCC4C3HACXX_L1_WHZEBagiNBAORAAPEI-216_1.fq.gz LS2-1_FCC4BJ2ACXX_L5_WHZEBagiNBACRAAPEI-203_1.fq.gz LS2-7_FCC4BVYACXX_L1_WHZEBagiNBAGRAAPEI-208_1.fq.gz	fastq fastq fastq fastq	11941143935.0	243696815.0	LS2 10 FCC4BJ2ACXX L8 WHZEBagiNBAKRAAPEI 212 1.fq.gz	0:49	A:3165540142;C:2817777586;G:2733117846;T:3223679054;N:1029307	49		3165540142	2817777586	2733117846	3223679054	1029307	SRX2765562	SRS2149766	SRA557107	University of Turku\|Biology	University of Turku	1	0.87119		0.04752		0.80251		0.55444		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42187	42187	SRR5482147	SRX2765561	SRS2149765	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Random harvested line biological replicate 1 F5 offspring originating from wild caught population	RS1 F5	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2010\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a random harvested selection line F5 individuals	RS1 F5	RS1 F5	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	RS1-10_FCC4BJ2ACXX_L8_WHZEBagiNBALRAAPEI-213_1.fq.gz RS1-2_FCC4Y2GACXX_L4_WHZEBagiNCBPRABPEI-221_1.fq.gz RS1-3_FCC4BJ2ACXX_L6_WHZEBagiNBADRAAPEI-205_1.fq.gz RS1-6_FCC4BV7ACXX_L1_WHZEBagiNBAHRAAPEI-209_1.fq.gz	fastq fastq fastq fastq	12149652753.0	247952097.0	RS1 6 FCC4BV7ACXX L1 WHZEBagiNBAHRAAPEI 209 1.fq.gz	0:49	A:3177681868;C:2907323525;G:2822484622;T:3241144133;N:1018605	49		3177681868	2907323525	2822484622	3241144133	1018605	SRX2765561	SRS2149765	SRA557107	University of Turku\|Biology	University of Turku	1	0.90495		0.04625		0.80028		0.56443		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42188	42188	SRR5482146	SRX2765560	SRS2149764	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Random harvested line biological replicate 2 F5 offspring originating from wild caught population	RS2 F5	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2010\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a random harvested selection line F5 individuals	RS2 F5	RS2 F5	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	RS2-10_FCC4BVYACXX_L1_WHZEBagiNBAIRAAPEI-210_1.fq.gz RS2-13_FCC4C3HACXX_L1_WHZEBagiNBAMRAAPEI-214_1.fq.gz RS2-2_FCC4BJ2ACXX_L5_WHZEBagiNBAARAAPEI-201_1.fq.gz RS2-3_FCC4C19ACXX_L5_WHZEBagiNBAERAAPEI-206_1.fq.gz	fastq fastq fastq fastq	11262796951.0	229852999.0	RS2 13 FCC4C3HACXX L1 WHZEBagiNBAMRAAPEI 214 1.fq.gz	0:49	A:2931626627;C:2710523895;G:2627211912;T:2992545637;N:888880	49		2931626627	2710523895	2627211912	2992545637	888880	SRX2765560	SRS2149764	SRA557107	University of Turku\|Biology	University of Turku	1	0.88588		0.04266		0.8112		0.52927		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42189	42189	SRR5482145	SRX2765559	SRS2149763	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Large harvested line biological replicate 1 F11 offspring originating from wild caught population	LS1 F11	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2014\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a large harvested selection line F11 individuals	LS1 F11	LS1 F11	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	LS1-F11B-11_FCC4CMHACXX_L1_WHZEBagiNCAERAAPEI-206_1.fq.gz LS1-F11B-13_FCC4CMHACXX_L1_WHZEBagiNCAFRAAPEI-207_1.fq.gz LS1-F11B-16_FCC4C19ACXX_L1_WHZEBagiNCAGRBAPEI-208_1.fq.gz LS1-F11B-17_FCC4BKHACXX_L8_WHZEBagiNCAHRAAPEI-209_1.fq.gz	fastq fastq fastq fastq	11326213584.0	231147216.0	LS1 F11B 16 FCC4C19ACXX L1 WHZEBagiNCAGRBAPEI 208 1.fq.gz	0:49	A:2982223592;C:2693407623;G:2622876703;T:3026833843;N:871823	49		2982223592	2693407623	2622876703	3026833843	871823	SRX2765559	SRS2149763	SRA557107	University of Turku\|Biology	University of Turku	1	0.90202		0.04273		0.78273		0.51238		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42190	42190	SRR5482144	SRX2765558	SRS2149762	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Large harvested line biological replicate 2 F11 offspring originating from wild caught population	LS2 F11	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2014\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a large harvested selection line F11 individuals	LS2 F11	LS2 F11	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	LS2-F11B-1_FCC4C2AACXX_L1_WHZEBagiNCAORAAPEI-216_1.fq.gz LS2-F11B-2_FCC4C2AACXX_L1_WHZEBagiNCAPRAAPEI-218_1.fq.gz LS2-F11B-5_FCC4CMHACXX_L5_WHZEBagiNCAQRAAPEI-219_1.fq.gz LS2-F11B-7_FCC4CMHACXX_L5_WHZEBagiNCARRAAPEI-220_1.fq.gz	fastq fastq fastq fastq	12030571875.0	245521875.0	LS2 F11B 7 FCC4CMHACXX L5 WHZEBagiNCARRAAPEI 220 1.fq.gz	0:49	A:3149792862;C:2871072895;G:2795019949;T:3213514581;N:1171588	49		3149792862	2871072895	2795019949	3213514581	1171588	SRX2765558	SRS2149762	SRA557107	University of Turku\|Biology	University of Turku	1	0.91893		0.036		0.77429		0.38962		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42191	42191	SRR5482143	SRX2765557	SRS2149760	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Random harvested line biological replicate 1 F11 offspring originating from wild caught population	RS1 F11	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2014\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a random harvested selection line F11 individuals	RS1 F11	RS1 F11	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	RS1-F11B-21_FCC4C2AACXX_L3_WHZEBagiNCAYRAAPEI-202_1.fq.gz RS1-F11B-23_FCC4C2AACXX_L4_WHZEBagiNCAZRAAPEI-203_1.fq.gz RS1-F11B-27_FCC4C2AACXX_L4_WHZEBagiNCBARAAPEI-205_1.fq.gz RS1-F11B-29_FCC4C2AACXX_L4_WHZEBagiNCBBRAAPEI-206_1.fq.gz	fastq fastq fastq fastq	11947679555.0	243830195.0	RS1 F11B 21 FCC4C2AACXX L3 WHZEBagiNCAYRAAPEI 202 1.fq.gz	0:49	A:3159477117;C:2827401119;G:2753495798;T:3206143470;N:1162051	49		3159477117	2827401119	2753495798	3206143470	1162051	SRX2765557	SRS2149760	SRA557107	University of Turku\|Biology	University of Turku	1	0.87877		0.04488		0.77445		0.50852		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
42192	42192	SRR5482142	SRX2765556	SRS2149761	SRP105243	PRJNA383986	Danio rerio Raw sequence reads	PRJNA383986	Other	The goal of the experiment was to simulate the effect of size selective harvesting and captive rearing on gene expression in a controlled environment using zebrafish as a model species.		Danio rerio: Random harvested line biological replicate 2 F11 offspring originating from wild caught population	RS2 F11	breed:missing\|dev stage:juvenile\|sex:female\|tissue:liver\|death date:2014\|BioSampleModel:Model organism or animal	RNAseq of Danio rerio: juvenile female liver RNA of 4 biological replicates from a random harvested selection line F11 individuals	RS2 F11	RS2 F11	Total RNA from liver tissue of juvenile zebrafish was extracted according to the Trizol method with TRI reagent Sigma. The liver tissue was homogenized with a TissueLyser II homogenizer Qiagen. DNase treatment was performed to remove any genomic DNA from the samples. RNA was eluted in RNase free water and RNA concentrations and the integrity of RNA samples were determined using an Agilent 2100 Bioanalyzer. Total RNA was processed by using Low Input Library Preparation Kit to prepare the RNA Seq library.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	SINGLE	ILLUMINA	Illumina HiSeq 2000		SRP105243	RS2-F11B-34_FCC4CMHACXX_L3_WHZEBagiNCBJRABPEI-214_1.fq.gz RS2-F11B-36_FCC4CMHACXX_L3_WHZEBagiNCBKRABPEI-215_1.fq.gz RS2-F11B-38_FCC4BY1ACXX_L1_WHZEBagiNCBLRABPEI-216_1.fq.gz RS2-F11B-40_FCC4BY1ACXX_L1_WHZEBagiNCBMRABPEI-218_1.fq.gz	fastq fastq fastq fastq	10619740698.0	216729402.0	RS2 F11B 38 FCC4BY1ACXX L1 WHZEBagiNCBLRABPEI 216 1.fq.gz	0:49	A:2799661065;C:2501316593;G:2465115836;T:2852970598;N:676606	49		2799661065	2501316593	2465115836	2852970598	676606	SRX2765556	SRS2149761	SRA557107	University of Turku\|Biology	University of Turku	1	0.8851		0.04865		0.80407		0.54962		49		B		usable mapping rate	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Finland	2017-12-04	Juvenile	Juvenile	Liver	Liver and Biliary System
64374	64374	SRR14573849	SRX10917055	SRS9007192	SRP320241	PRJNA730648	Zebrafish liver transcriptome post DPHP exposure	PRJNA730648	Other	RNA seq data of adult zebrafish post exposure to DPHP	Three replications were sampled.	RNA Seq data of female zebrafish liver high dose	RNA Seq data of female zebrafish liver high dose	strain:AB strain\|isolate:multi individual\|breed:Hatchery\|age:Adult\|sex:female\|tissue:Liver\|treatment:100 µg/L DPHP\|BioSampleModel:Model organism or animal	RNA Seq data of female zebrafish liver high dose	RNA Seq data of female zebrafish liver high dose	RNA Seq data of female zebrafish liver high dose	Livers from three randomly selected zebrafish in 0 10 and 100 g/L exposure groups were used for transcriptomics analysis. The cDNA library was constructed with TruseqTM RNA sample prep Kit Illumina and then next generation sequencing was performed on an Illumina HiSeq platform. Three replicates per treatment.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP320241	Y200623_YX20200602501_FL_H1_S26_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_H1_S26_L003_R2_001.fastq.gz Y200623_YX20200602501_FL_H2_S27_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_H2_S27_L003_R2_001.fastq.gz Y200623_YX20200602501_FL_H3_S28_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_H3_S28_L003_R2_001.fastq.gz	fastq fastq fastq fastq fastq fastq	22586261141.0	75026757.0	Y200623 YX20200602501 FL H1 S26 L003 R1 001.fastq.gz	0:150.52 1:150.52	A:5966831170;C:5235189646;G:5440132133;T:5943667623;N:440569	150	150	5966831170	5235189646	5440132133	5943667623	440569	SRX10917055	SRS9007192	SRA1233498	University of Saskatchewan\|Toxicology center	University of Saskatchewan	2	0.95465	0.95265	0.02935	0.02906	0.82162	0.82582	0.21584	0.22167	150	151	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Canada	2021-05-18	Adult	Adult	Liver	Liver and Biliary System
64375	64375	SRR14573850	SRX10917054	SRS9007191	SRP320241	PRJNA730648	Zebrafish liver transcriptome post DPHP exposure	PRJNA730648	Other	RNA seq data of adult zebrafish post exposure to DPHP	Three replications were sampled.	RNA Seq data of female zebrafish liver middle dose	RNA Seq data of female zebrafish liver middle dose	strain:AB strain\|isolate:multi individual\|breed:Hatchery\|age:Adult\|sex:female\|tissue:Liver\|treatment:10 µg/L DPHP\|BioSampleModel:Model organism or animal	RNA Seq data of female zebrafish liver middle dose	RNA Seq data of female zebrafish liver middle dose	RNA Seq data of female zebrafish liver middle dose	Livers from three randomly selected zebrafish in 0 10 and 100 g/L exposure groups were used for transcriptomics analysis. The cDNA library was constructed with TruseqTM RNA sample prep Kit Illumina and then next generation sequencing was performed on an Illumina HiSeq platform. Three replicates per treatment.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP320241	Y200623_YX20200602501_FL_M1_S23_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_M1_S23_L003_R2_001.fastq.gz Y200623_YX20200602501_FL_M2_S24_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_M2_S24_L003_R2_001.fastq.gz Y200623_YX20200602501_FL_M3_S25_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_M3_S25_L003_R2_001.fastq.gz	fastq fastq fastq fastq fastq fastq	20865076029.0	69309201.0	Y200623 YX20200602501 FL M1 S23 L003 R1 001.fastq.gz	0:150.52 1:150.53	A:5514422779;C:4810621235;G:5041906998;T:5497718997;N:406020	150	150	5514422779	4810621235	5041906998	5497718997	406020	SRX10917054	SRS9007191	SRA1233498	University of Saskatchewan\|Toxicology center	University of Saskatchewan	2	0.95192	0.94893	0.02787	0.02734	0.82838	0.83321	0.17526	0.17514	150	151	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Canada	2021-05-18	Adult	Adult	Liver	Liver and Biliary System
64376	64376	SRR14573851	SRX10917053	SRS9007189	SRP320241	PRJNA730648	Zebrafish liver transcriptome post DPHP exposure	PRJNA730648	Other	RNA seq data of adult zebrafish post exposure to DPHP	Three replications were sampled.	RNA Seq data of female zebrafish liver Control	RNA Seq data of female zebrafish liver Control	strain:AB strain\|isolate:multi individual\|breed:Hatchery\|age:Adult\|sex:female\|tissue:Liver\|treatment:Control\|BioSampleModel:Model organism or animal	RNA Seq data of female zebrafish liver Control	RNA Seq data of female zebrafish liver Control	RNA Seq data of female zebrafish liver Control	Livers from three randomly selected zebrafish in 0 10 and 100 g/L exposure groups were used for transcriptomics analysis. The cDNA library was constructed with TruseqTM RNA sample prep Kit Illumina and then next generation sequencing was performed on an Illumina HiSeq platform. Three replicates per treatment.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP320241	Y200623_YX20200602501_FL_C1_S20_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_C1_S20_L003_R2_001.fastq.gz Y200623_YX20200602501_FL_C2_S21_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_C2_S21_L003_R2_001.fastq.gz Y200623_YX20200602501_FL_C3_S22_L003_R1_001.fastq.gz Y200623_YX20200602501_FL_C3_S22_L003_R2_001.fastq.gz	fastq fastq fastq fastq fastq fastq	21711359511.0	72120736.0	Y200623 YX20200602501 FL C1 S20 L003 R1 001.fastq.gz	0:150.52 1:150.52	A:5722156391;C:5030746535;G:5243968114;T:5714065791;N:422680	150	150	5722156391	5030746535	5243968114	5714065791	422680	SRX10917053	SRS9007189	SRA1233498	University of Saskatchewan\|Toxicology center	University of Saskatchewan	2	0.95345	0.95236	0.02654	0.02588	0.84859	0.85107	0.21041	0.21327	149	151	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Canada	2021-05-18	Adult	Adult	Liver	Liver and Biliary System
64377	64377	SRR14573852	SRX10917052	SRS9007190	SRP320241	PRJNA730648	Zebrafish liver transcriptome post DPHP exposure	PRJNA730648	Other	RNA seq data of adult zebrafish post exposure to DPHP	Three replications were sampled.	RNA Seq data of male zebrafish liver high dose	RNA Seq data of male zebrafish liver high dose	strain:AB strain\|isolate:multi individual\|breed:Hatchery\|age:Adult\|sex:male\|tissue:Liver\|treatment:100 µg/L DPHP\|BioSampleModel:Model organism or animal	RNA Seq data of male zebrafish liver high dose	RNA Seq data of male zebrafish liver high dose	RNA Seq data of male zebrafish liver high dose	Livers from three randomly selected zebrafish in 0 10 and 100 g/L exposure groups were used for transcriptomics analysis. The cDNA library was constructed with TruseqTM RNA sample prep Kit Illumina and then next generation sequencing was performed on an Illumina HiSeq platform. Three replicates per treatment.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP320241	Y200623_YX20200602501_ML_H1_S17_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_H1_S17_L003_R2_001.fastq.gz Y200623_YX20200602501_ML_H2_S18_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_H2_S18_L003_R2_001.fastq.gz Y200623_YX20200602501_ML_H3_S19_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_H3_S19_L003_R2_001.fastq.gz	fastq fastq fastq fastq fastq fastq	23374319525.0	77636248.0	Y200623 YX20200602501 ML H1 S17 L003 R1 001.fastq.gz	0:150.53 1:150.54	A:6183698501;C:5390428654;G:5652431531;T:6147306148;N:454691	150	150	6183698501	5390428654	5652431531	6147306148	454691	SRX10917052	SRS9007190	SRA1233498	University of Saskatchewan\|Toxicology center	University of Saskatchewan	2	0.9446	0.93144	0.05999	0.05886	0.78638	0.78823	0.54835	0.54306	151	151	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Canada	2021-05-18	Adult	Adult	Liver	Liver and Biliary System
64378	64378	SRR14573853	SRX10917051	SRS9007187	SRP320241	PRJNA730648	Zebrafish liver transcriptome post DPHP exposure	PRJNA730648	Other	RNA seq data of adult zebrafish post exposure to DPHP	Three replications were sampled.	RNA Seq data of male zebrafish liver middle dose	RNA Seq data of male zebrafish liver middle dose	strain:AB strain\|isolate:multi individual\|breed:Hatchery\|age:Adult\|sex:male\|tissue:Liver\|treatment:10 µg/L DPHP\|BioSampleModel:Model organism or animal	RNA Seq data of male zebrafish liver middle dose	RNA Seq data of male zebrafish liver middle dose	RNA Seq data of male zebrafish liver middle dose	Livers from three randomly selected zebrafish in 0 10 and 100 g/L exposure groups were used for transcriptomics analysis. The cDNA library was constructed with TruseqTM RNA sample prep Kit Illumina and then next generation sequencing was performed on an Illumina HiSeq platform. Three replicates per treatment.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP320241	Y200623_YX20200602501_ML_M1_S14_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_M1_S14_L003_R2_001.fastq.gz Y200623_YX20200602501_ML_M2_S15_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_M2_S15_L003_R2_001.fastq.gz Y200623_YX20200602501_ML_M3_S16_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_M3_S16_L003_R2_001.fastq.gz	fastq fastq fastq fastq fastq fastq	21827227168.0	72498761.0	Y200623 YX20200602501 ML M1 S14 L003 R1 001.fastq.gz	0:150.53 1:150.54	A:5794195561;C:5031939032;G:5230990660;T:5769676672;N:425243	150	150	5794195561	5031939032	5230990660	5769676672	425243	SRX10917051	SRS9007187	SRA1233498	University of Saskatchewan\|Toxicology center	University of Saskatchewan	2	0.94346	0.9327	0.05867	0.05676	0.7822	0.78719	0.52746	0.51339	150	150	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Canada	2021-05-18	Adult	Adult	Liver	Liver and Biliary System
64379	64379	SRR14573854	SRX10917050	SRS9007188	SRP320241	PRJNA730648	Zebrafish liver transcriptome post DPHP exposure	PRJNA730648	Other	RNA seq data of adult zebrafish post exposure to DPHP	Three replications were sampled.	RNA Seq data of male zebrafish liver Control	RNA Seq data of male zebrafish liver Control	strain:AB strain\|isolate:multi individual\|breed:Hatchery\|age:Adult\|sex:male\|tissue:Liver\|treatment:Control\|BioSampleModel:Model organism or animal	RNA Seq data of male zebrafish liver Control	RNA Seq data of male zebrafish liver Control	RNA Seq data of male zebrafish liver Control	Livers from three randomly selected zebrafish in 0 10 and 100 g/L exposure groups were used for transcriptomics analysis. The cDNA library was constructed with TruseqTM RNA sample prep Kit Illumina and then next generation sequencing was performed on an Illumina HiSeq platform. Three replicates per treatment.	RNA-Seq	TRANSCRIPTOMIC	RT-PCR	PAIRED	ILLUMINA	Illumina HiSeq 2000		SRP320241	Y200623_YX20200602501_ML_C1_S11_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_C1_S11_L003_R2_001.fastq.gz Y200623_YX20200602501_ML_C2_S12_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_C2_S12_L003_R2_001.fastq.gz Y200623_YX20200602501_ML_C3_S13_L003_R1_001.fastq.gz Y200623_YX20200602501_ML_C3_S13_L003_R2_001.fastq.gz	fastq fastq fastq fastq fastq fastq	23245717288.0	77202420.0	Y200623 YX20200602501 ML C1 S11 L003 R1 001.fastq.gz	0:150.54 1:150.56	A:6312249187;C:5214214833;G:5486390844;T:6232408830;N:453594	150	150	6312249187	5214214833	5486390844	6232408830	453594	SRX10917050	SRS9007188	SRA1233498	University of Saskatchewan\|Toxicology center	University of Saskatchewan	2	0.93673	0.9246	0.06889	0.06779	0.80594	0.80977	0.5172	0.51844	151	151	B	B	biological fallback assumption	illumina	hiseq_era	unknown	other	unknown	bulk	unknown	unknown	Canada	2021-05-18	Adult	Adult	Liver	Liver and Biliary 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");;