metadata: run_metadata: 33 rows where experiment.library_strategy = "ncRNA-Seq", technology = "unknown" and tissue_curation

33 rows where experiment.library_strategy = "ncRNA-Seq", technology = "unknown" and tissue_curation_coarse = "Surface Structure"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	sample.title	sample.alias	sample.attributes	GEOsample.title	GEOsample.dataprocessing	GEOsample.source	GEOsample.treatmentprotocol	GEOsample.extractprotocol	GEOsample.characteristics	GEOsample.accession	experiment.title	experiment.alias	experiment.design_description	experiment.library_construction_protocol	experiment.attributes	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.study_ref	run.filename	run.semantic_name	run.total_bases	run.total_spots	run.alias	run.read_lengths	run.base_counts	run.r1_length	run.r2_length	run.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.nofeature_rate.mate1	seqdetective.sparsity.mate1	seqdetective.pos_strand_rate.mate1	seqdetective.readlen.mate1	seqdetective.judgement.mate1	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
41250	41250	SRR3987432	SRX1989729	SRS1593551	SRP080353	PRJNA335856	High throughput sequencing analysis identify miRNAs in 7dpf F1 zebrafish under ß diketone antibiotics exposure to F0 zebrafish	GSE85004	Transcriptome Analysis	Small RNA high throughput sequencing technology was used to characterize the miRNAs in F1 zebrafish post 90 day ß diketone antibiotic DKA exposure to F0 zebrafish at 6.25 and 12.5 mg/L. The small RNA libraries from 7 dpf F1 zebrafish were constructed. In total 10 117 347 9 818 830 and 12 049 949 raw reads were acquired respectively under the different DKA exposure treatments 0 6.25 mg/L and 12.5mg/L from the three miRNAs libraries by Illumina sequencing. Low quality reads were removed which included five prime' contaminants those missing the three prime' primer or insert tag sequences with a poly A tail and those shorter than 17 nt and longer than 25 nt. As a result 8 141 146 representing 312 735 unique sequences; control 8 687 210 representing 251 508 unique sequences; 6.25 mg/L and 10 569 566 representing 441 938 unique sequences; 12.5 mg/L valid reads in the 17 to 25 nt size range were isolated for further analysis. The sRNAs from the three libraries were similar and the unique sRNA reads were mainly distributed in the 20 24 nt range among which 22 and 23 nt accounted for 41.8% and 20.0% of total unique sRNA reads respectively. The 22 nt sRNAs were the most abundant with the length distribution of counts of sequ seqs and unique miRNAs displaying a normal distribution. Overall design: Sample 1: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 0 mg/L; Sample 2: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 6.25 mg/L; Sample 3: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 12.5 mg/L.	S12 F1	GSM2255739	source name:F1 zebrafish 7 dpf F0 12.5 mg/L DKA exposure\|strain/background:AB\|genotype/variation:WT\|f0 treatment:12.5 mg/L DKA exposure for 90 days\|tissue:F1 whole body\|f1 developmental stage:7 dpf	S12 F1	Briefly the raw reads were subjected to the Illumina pipeline filter Solexa 0.3 and then the dataset was further processed with an in house program ACGT101 miR LC Sciences Houston Texas USA to remove adapter dimers junk low complexity common RNA families rRNA tRNA snRNA snoRNA and repeats. Subsequently unique sequences with length in 1826 nucleotide were mapped to specific species precursors in miRBase 20.0 by BLAST search to identify known miRNAs and novel 3p and 5p derived miRNAs. Length variation at both 3’ and 5’ ends and one mismatch inside of the sequence were allowed in the alignment. The unique sequences mapping to specific species mature miRNAs in hairpin arms were identified as known miRNAs. The unique sequences mapping to the other arm of known specific species precursor hairpin opposite to the annotated mature miRNA containing arm were considered to be novel 5p or 3p derived miRNA candidates. The remaining sequences were mapped to other selected species precursors with the exclusion of specific species in miRBase 20.0 by BLAST search and the mapped pre miRNAs were further BLASTed against the specific species genomes to determine their genomic locations. The above two we defined as known miRNAs. The unmapped sequences were BLASTed against the specific genomes and the hairpin RNA structures containing sequences were predicated from the flank 80 nt sequences using RNAfold software http://rna.tbi.univie.ac.at/cgi bin/RNAfold.cgi. The criteria for secondary structure prediction were: 1 number of nucleotides in one bulge in stem <=12; 2 number of base pairs in the stem region of the predicted hairpin >=16; 3 cutoff of free energy kCal/mol <=15; 4 length of hairpin up and down stems + terminal loop >=50; 5 length of hairpin loop <=20; 6 number of nucleotides in one bulge in mature region <=8; 7 number of biased errors in one bulge in mature region<=4; 8 number of biased bulges in mature region <=2; 9 number of errors in mature region <=7; 10 number of base pairs in the mature region of the …	F1 zebrafish 7 dpf F0 12.5 mg/L DKA exposure	Adult wild type zebrafish AB strain were purchased from a local supplier. Embryos at 6 hpf were exposed to control and two DKA treatments 6.25 and 12.5 mg/L composed of a mix of the six DKA species listed below with equal weight concentrations and equal volumes of each DKA species. post 90 days of DKA exposure F1 zebrafish at 7 dpf for each group control and two DKA exposure treatments were collected. Certified DKA reference standards were sourced from Amresco Solon OH USA and used as received: ofluoxacin CAS No. 82419 36 1 purity of 99% ciprofloxacin 85721 33 1 99% enrofloxacin 93106 60 6 99% doxycycline 24390 14 5 99% chlortetracycline 64 72 2 95% and oxytetracycline 79 57 2 99%.	Total RNA was extracted using Trizol reagent Invitrogen CA USA following the manufacturer’s procedure. The total RNA quantity and purity were analyzed by Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent CA USA with RIN number >7.0. Approximately 1 μg of total RNA was used to prepare small RNA library according to protocol of TruSeq Small RNA Sample Prep Kits Illumina San Diego USA. Then we performed the single end sequencing 36 bp on an Illumina HiSeq 2500 at the LC BIO Hangzhou China following the vendor’s recommended protocol.	strain/background:AB\|genotype/variation:WT\|f0 treatment:12.5 mg/L DKA exposure for 90 days\|tissue:F1 whole body\|f1 developmental stage:7 dpf	GSM2255739	GSM2255739: S12 F1; Danio rerio; ncRNA Seq	GSM2255739	1	Total RNA was extracted using Trizol reagent Invitrogen CA USA following the manufacturer’s procedure. The total RNA quantity and purity were analyzed by Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent CA USA with RIN number >7.0. Approximately 1 μg of total RNA was used to prepare small RNA library according to protocol of TruSeq Small RNA Sample Prep Kits Illumina San Diego USA. Then we performed the single end sequencing 36 bp on an Illumina HiSeq 2500 at the LC BIO Hangzhou China following the vendor’s recommended protocol.	GEO Accession:GSM2255739	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP080353	S12_F1.fq	fastq	602497450.0	12049949.0	GSM2255739 r1	0:50	A:147750395;C:138369661;G:162147841;T:153975593;N:253960	50		147750395	138369661	162147841	153975593	253960	SRX1989729	SRS1593551	SRA446490	GEO	Wenzhou Medical University Chashan Campus Chashan University Town, Wenzhou, Zhejiang Province	1	0.0	0.0	1.0		50	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2016-07-29	Larval	Larval	Trunk	Surface Structure
41251	41251	SRR3987431	SRX1989728	SRS1593550	SRP080353	PRJNA335856	High throughput sequencing analysis identify miRNAs in 7dpf F1 zebrafish under ß diketone antibiotics exposure to F0 zebrafish	GSE85004	Transcriptome Analysis	Small RNA high throughput sequencing technology was used to characterize the miRNAs in F1 zebrafish post 90 day ß diketone antibiotic DKA exposure to F0 zebrafish at 6.25 and 12.5 mg/L. The small RNA libraries from 7 dpf F1 zebrafish were constructed. In total 10 117 347 9 818 830 and 12 049 949 raw reads were acquired respectively under the different DKA exposure treatments 0 6.25 mg/L and 12.5mg/L from the three miRNAs libraries by Illumina sequencing. Low quality reads were removed which included five prime' contaminants those missing the three prime' primer or insert tag sequences with a poly A tail and those shorter than 17 nt and longer than 25 nt. As a result 8 141 146 representing 312 735 unique sequences; control 8 687 210 representing 251 508 unique sequences; 6.25 mg/L and 10 569 566 representing 441 938 unique sequences; 12.5 mg/L valid reads in the 17 to 25 nt size range were isolated for further analysis. The sRNAs from the three libraries were similar and the unique sRNA reads were mainly distributed in the 20 24 nt range among which 22 and 23 nt accounted for 41.8% and 20.0% of total unique sRNA reads respectively. The 22 nt sRNAs were the most abundant with the length distribution of counts of sequ seqs and unique miRNAs displaying a normal distribution. Overall design: Sample 1: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 0 mg/L; Sample 2: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 6.25 mg/L; Sample 3: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 12.5 mg/L.	S6 F1	GSM2255738	source name:F1 zebrafish 7 dpf F0 6.25 mg/L DKA exposure\|strain/background:AB\|genotype/variation:WT\|f0 treatment:6.25 mg/L DKA exposure for 90 days\|tissue:F1 whole body\|f1 developmental stage:7 dpf	S6 F1	Briefly the raw reads were subjected to the Illumina pipeline filter Solexa 0.3 and then the dataset was further processed with an in house program ACGT101 miR LC Sciences Houston Texas USA to remove adapter dimers junk low complexity common RNA families rRNA tRNA snRNA snoRNA and repeats. Subsequently unique sequences with length in 1826 nucleotide were mapped to specific species precursors in miRBase 20.0 by BLAST search to identify known miRNAs and novel 3p and 5p derived miRNAs. Length variation at both 3’ and 5’ ends and one mismatch inside of the sequence were allowed in the alignment. The unique sequences mapping to specific species mature miRNAs in hairpin arms were identified as known miRNAs. The unique sequences mapping to the other arm of known specific species precursor hairpin opposite to the annotated mature miRNA containing arm were considered to be novel 5p or 3p derived miRNA candidates. The remaining sequences were mapped to other selected species precursors with the exclusion of specific species in miRBase 20.0 by BLAST search and the mapped pre miRNAs were further BLASTed against the specific species genomes to determine their genomic locations. The above two we defined as known miRNAs. The unmapped sequences were BLASTed against the specific genomes and the hairpin RNA structures containing sequences were predicated from the flank 80 nt sequences using RNAfold software http://rna.tbi.univie.ac.at/cgi bin/RNAfold.cgi. The criteria for secondary structure prediction were: 1 number of nucleotides in one bulge in stem <=12; 2 number of base pairs in the stem region of the predicted hairpin >=16; 3 cutoff of free energy kCal/mol <=15; 4 length of hairpin up and down stems + terminal loop >=50; 5 length of hairpin loop <=20; 6 number of nucleotides in one bulge in mature region <=8; 7 number of biased errors in one bulge in mature region<=4; 8 number of biased bulges in mature region <=2; 9 number of errors in mature region <=7; 10 number of base pairs in the mature region of the …	F1 zebrafish 7 dpf F0 6.25 mg/L DKA exposure	Adult wild type zebrafish AB strain were purchased from a local supplier. Embryos at 6 hpf were exposed to control and two DKA treatments 6.25 and 12.5 mg/L composed of a mix of the six DKA species listed below with equal weight concentrations and equal volumes of each DKA species. post 90 days of DKA exposure F1 zebrafish at 7 dpf for each group control and two DKA exposure treatments were collected. Certified DKA reference standards were sourced from Amresco Solon OH USA and used as received: ofluoxacin CAS No. 82419 36 1 purity of 99% ciprofloxacin 85721 33 1 99% enrofloxacin 93106 60 6 99% doxycycline 24390 14 5 99% chlortetracycline 64 72 2 95% and oxytetracycline 79 57 2 99%.	Total RNA was extracted using Trizol reagent Invitrogen CA USA following the manufacturer’s procedure. The total RNA quantity and purity were analyzed by Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent CA USA with RIN number >7.0. Approximately 1 μg of total RNA was used to prepare small RNA library according to protocol of TruSeq Small RNA Sample Prep Kits Illumina San Diego USA. Then we performed the single end sequencing 36 bp on an Illumina HiSeq 2500 at the LC BIO Hangzhou China following the vendor’s recommended protocol.	strain/background:AB\|genotype/variation:WT\|f0 treatment:6.25 mg/L DKA exposure for 90 days\|tissue:F1 whole body\|f1 developmental stage:7 dpf	GSM2255738	GSM2255738: S6 F1; Danio rerio; ncRNA Seq	GSM2255738	1	Total RNA was extracted using Trizol reagent Invitrogen CA USA following the manufacturer’s procedure. The total RNA quantity and purity were analyzed by Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent CA USA with RIN number >7.0. Approximately 1 μg of total RNA was used to prepare small RNA library according to protocol of TruSeq Small RNA Sample Prep Kits Illumina San Diego USA. Then we performed the single end sequencing 36 bp on an Illumina HiSeq 2500 at the LC BIO Hangzhou China following the vendor’s recommended protocol.	GEO Accession:GSM2255738	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP080353	S6_F1.fq	fastq	490941500.0	9818830.0	GSM2255738 r1	0:50	A:119942635;C:111532763;G:133144810;T:126303825;N:17467	50		119942635	111532763	133144810	126303825	17467	SRX1989728	SRS1593550	SRA446490	GEO	Wenzhou Medical University Chashan Campus Chashan University Town, Wenzhou, Zhejiang Province	1	1e-05	0.0	1.0		50	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2016-07-29	Larval	Larval	Trunk	Surface Structure
41252	41252	SRR3987430	SRX1989727	SRS1593549	SRP080353	PRJNA335856	High throughput sequencing analysis identify miRNAs in 7dpf F1 zebrafish under ß diketone antibiotics exposure to F0 zebrafish	GSE85004	Transcriptome Analysis	Small RNA high throughput sequencing technology was used to characterize the miRNAs in F1 zebrafish post 90 day ß diketone antibiotic DKA exposure to F0 zebrafish at 6.25 and 12.5 mg/L. The small RNA libraries from 7 dpf F1 zebrafish were constructed. In total 10 117 347 9 818 830 and 12 049 949 raw reads were acquired respectively under the different DKA exposure treatments 0 6.25 mg/L and 12.5mg/L from the three miRNAs libraries by Illumina sequencing. Low quality reads were removed which included five prime' contaminants those missing the three prime' primer or insert tag sequences with a poly A tail and those shorter than 17 nt and longer than 25 nt. As a result 8 141 146 representing 312 735 unique sequences; control 8 687 210 representing 251 508 unique sequences; 6.25 mg/L and 10 569 566 representing 441 938 unique sequences; 12.5 mg/L valid reads in the 17 to 25 nt size range were isolated for further analysis. The sRNAs from the three libraries were similar and the unique sRNA reads were mainly distributed in the 20 24 nt range among which 22 and 23 nt accounted for 41.8% and 20.0% of total unique sRNA reads respectively. The 22 nt sRNAs were the most abundant with the length distribution of counts of sequ seqs and unique miRNAs displaying a normal distribution. Overall design: Sample 1: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 0 mg/L; Sample 2: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 6.25 mg/L; Sample 3: Examination of small RNA in 7 dpf F1 zebrafish post 90 day DKA exposure to F0 zebrafish at 12.5 mg/L.	CON F1	GSM2255737	source name:F1 zebrafish 7 dpf F0 0 mg/L DKA exposure\|strain/background:AB\|genotype/variation:WT\|f0 treatment:0 mg/L DKA exposure for 90 days\|tissue:F1 whole body\|f1 developmental stage:7 dpf	CON F1	Briefly the raw reads were subjected to the Illumina pipeline filter Solexa 0.3 and then the dataset was further processed with an in house program ACGT101 miR LC Sciences Houston Texas USA to remove adapter dimers junk low complexity common RNA families rRNA tRNA snRNA snoRNA and repeats. Subsequently unique sequences with length in 1826 nucleotide were mapped to specific species precursors in miRBase 20.0 by BLAST search to identify known miRNAs and novel 3p and 5p derived miRNAs. Length variation at both 3’ and 5’ ends and one mismatch inside of the sequence were allowed in the alignment. The unique sequences mapping to specific species mature miRNAs in hairpin arms were identified as known miRNAs. The unique sequences mapping to the other arm of known specific species precursor hairpin opposite to the annotated mature miRNA containing arm were considered to be novel 5p or 3p derived miRNA candidates. The remaining sequences were mapped to other selected species precursors with the exclusion of specific species in miRBase 20.0 by BLAST search and the mapped pre miRNAs were further BLASTed against the specific species genomes to determine their genomic locations. The above two we defined as known miRNAs. The unmapped sequences were BLASTed against the specific genomes and the hairpin RNA structures containing sequences were predicated from the flank 80 nt sequences using RNAfold software http://rna.tbi.univie.ac.at/cgi bin/RNAfold.cgi. The criteria for secondary structure prediction were: 1 number of nucleotides in one bulge in stem <=12; 2 number of base pairs in the stem region of the predicted hairpin >=16; 3 cutoff of free energy kCal/mol <=15; 4 length of hairpin up and down stems + terminal loop >=50; 5 length of hairpin loop <=20; 6 number of nucleotides in one bulge in mature region <=8; 7 number of biased errors in one bulge in mature region<=4; 8 number of biased bulges in mature region <=2; 9 number of errors in mature region <=7; 10 number of base pairs in the mature region of the …	F1 zebrafish 7 dpf F0 0 mg/L DKA exposure	Adult wild type zebrafish AB strain were purchased from a local supplier. Embryos at 6 hpf were exposed to control and two DKA treatments 6.25 and 12.5 mg/L composed of a mix of the six DKA species listed below with equal weight concentrations and equal volumes of each DKA species. post 90 days of DKA exposure F1 zebrafish at 7 dpf for each group control and two DKA exposure treatments were collected. Certified DKA reference standards were sourced from Amresco Solon OH USA and used as received: ofluoxacin CAS No. 82419 36 1 purity of 99% ciprofloxacin 85721 33 1 99% enrofloxacin 93106 60 6 99% doxycycline 24390 14 5 99% chlortetracycline 64 72 2 95% and oxytetracycline 79 57 2 99%.	Total RNA was extracted using Trizol reagent Invitrogen CA USA following the manufacturer’s procedure. The total RNA quantity and purity were analyzed by Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent CA USA with RIN number >7.0. Approximately 1 μg of total RNA was used to prepare small RNA library according to protocol of TruSeq Small RNA Sample Prep Kits Illumina San Diego USA. Then we performed the single end sequencing 36 bp on an Illumina HiSeq 2500 at the LC BIO Hangzhou China following the vendor’s recommended protocol.	strain/background:AB\|genotype/variation:WT\|f0 treatment:0 mg/L DKA exposure for 90 days\|tissue:F1 whole body\|f1 developmental stage:7 dpf	GSM2255737	GSM2255737: CON F1; Danio rerio; ncRNA Seq	GSM2255737	1	Total RNA was extracted using Trizol reagent Invitrogen CA USA following the manufacturer’s procedure. The total RNA quantity and purity were analyzed by Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent CA USA with RIN number >7.0. Approximately 1 μg of total RNA was used to prepare small RNA library according to protocol of TruSeq Small RNA Sample Prep Kits Illumina San Diego USA. Then we performed the single end sequencing 36 bp on an Illumina HiSeq 2500 at the LC BIO Hangzhou China following the vendor’s recommended protocol.	GEO Accession:GSM2255737	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP080353	CON_F1.fq	fastq	505867350.0	10117347.0	GSM2255737 r1	0:50	A:123471791;C:114424623;G:138931875;T:129020913;N:18148	50		123471791	114424623	138931875	129020913	18148	SRX1989727	SRS1593549	SRA446490	GEO	Wenzhou Medical University Chashan Campus Chashan University Town, Wenzhou, Zhejiang Province	1	2e-05	0.0	0.99993	0.66666	50	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2016-07-29	Larval	Larval	Trunk	Surface Structure
49015	49015	SRR7613129	SRX4477829	SRS3603028	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 100 ZF skin smallRNAseq	GSM3309731	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	NH FLI 100 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	GSM3309731	GSM3309731: NH FLI 100 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309731	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309731	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1018240050.0	20364801.0	GSM3309731 r1	0:50	A:207814229;C:262063346;G:311334117;T:236957867;N:70491	50		207814229	262063346	311334117	236957867	70491	SRX4477829	SRS3603028	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.1074	0.00618	0.9906	0.54934	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49016	49016	SRR7613128	SRX4477828	SRS3603027	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 111 ZF skin smallRNAseq	GSM3309730	source name:skin\|strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	NH FLI 111 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	GSM3309730	GSM3309730: NH FLI 111 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309730	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309730	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			356381250.0	7127625.0	GSM3309730 r1	0:50	A:70456264;C:88928211;G:109830748;T:87141036;N:24991	50		70456264	88928211	109830748	87141036	24991	SRX4477828	SRS3603027	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.12249	0.00713	0.99299	0.51987	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49017	49017	SRR7613127	SRX4477827	SRS3603046	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 109 ZF skin smallRNAseq	GSM3309729	source name:skin\|strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	NH FLI 109 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	GSM3309729	GSM3309729: NH FLI 109 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309729	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309729	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			591923400.0	11838468.0	GSM3309729 r1	0:50	A:118873766;C:162031990;G:180619895;T:130356928;N:40821	50		118873766	162031990	180619895	130356928	40821	SRX4477827	SRS3603046	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.09696	0.00911	0.99133	0.52082	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49018	49018	SRR7613126	SRX4477826	SRS3603047	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 108 ZF skin smallRNAseq	GSM3309728	source name:skin\|strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	NH FLI 108 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	GSM3309728	GSM3309728: NH FLI 108 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309728	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309728	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			736154900.0	14723098.0	GSM3309728 r1	0:50	A:138956520;C:196877364;G:231633259;T:168650452;N:37305	50		138956520	196877364	231633259	168650452	37305	SRX4477826	SRS3603047	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.01397	0.0029	0.99312	0.79541	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49019	49019	SRR7613125	SRX4477825	SRS3603026	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 107 ZF skin smallRNAseq	GSM3309727	source name:skin\|strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	NH FLI 107 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	GSM3309727	GSM3309727: NH FLI 107 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309727	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309727	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			749544400.0	14990888.0	GSM3309727 r1	0:50	A:141473710;C:216076836;G:236230720;T:155730665;N:32469	50		141473710	216076836	236230720	155730665	32469	SRX4477825	SRS3603026	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.03825	0.00867	0.99439	0.74015	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49020	49020	SRR7613124	SRX4477824	SRS3603024	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 106 ZF skin smallRNAseq	GSM3309726	source name:skin\|strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	NH FLI 106 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgwt1a:GFP\|tissue:skin\|age:3.5 years\|Sex:male	GSM3309726	GSM3309726: NH FLI 106 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309726	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309726	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			611281450.0	12225629.0	GSM3309726 r1	0:50	A:111669012;C:149529261;G:189562873;T:160496848;N:23456	50		111669012	149529261	189562873	160496848	23456	SRX4477824	SRS3603024	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.02484	0.00442	0.9936	0.64597	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49021	49021	SRR7613123	SRX4477823	SRS3603023	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 150 ZF skin smallRNAseq	GSM3309725	source name:skin\|strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	NH FLI 150 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	GSM3309725	GSM3309725: NH FLI 150 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309725	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309725	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			2447513950.0	48950279.0	GSM3309725 r1	0:50	A:468043633;C:693473223;G:731577603;T:554251791;N:167700	50		468043633	693473223	731577603	554251791	167700	SRX4477823	SRS3603023	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.07052	0.01139	0.99263	0.59059	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49022	49022	SRR7613122	SRX4477822	SRS3603025	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 149 ZF skin smallRNAseq	GSM3309724	source name:skin\|strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	NH FLI 149 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	GSM3309724	GSM3309724: NH FLI 149 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309724	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309724	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1871316900.0	37426338.0	GSM3309724 r1	0:50	A:380496272;C:509217150;G:560916561;T:420592548;N:94369	50		380496272	509217150	560916561	420592548	94369	SRX4477822	SRS3603025	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.03136	0.00816	0.99488	0.79162	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49023	49023	SRR7613121	SRX4477821	SRS3603022	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 147 ZF skin smallRNAseq	GSM3309723	source name:skin\|strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	NH FLI 147 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	GSM3309723	GSM3309723: NH FLI 147 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309723	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309723	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			445551200.0	8911024.0	GSM3309723 r1	0:50	A:89205774;C:110497307;G:135908107;T:109919980;N:20032	50		89205774	110497307	135908107	109919980	20032	SRX4477821	SRS3603022	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.01905	0.00266	0.99504	0.62127	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49024	49024	SRR7613120	SRX4477820	SRS3603021	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 146 ZF skin smallRNAseq	GSM3309722	source name:skin\|strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	NH FLI 146 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	GSM3309722	GSM3309722: NH FLI 146 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309722	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309722	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			982200100.0	19644002.0	GSM3309722 r1	0:50	A:192209302;C:247406918;G:306793998;T:235751163;N:38719	50		192209302	247406918	306793998	235751163	38719	SRX4477820	SRS3603021	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.02155	0.00424	0.99368	0.62937	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49025	49025	SRR7613119	SRX4477819	SRS3603020	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 145 ZF skin smallRNAseq	GSM3309721	source name:skin\|strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	NH FLI 145 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgpu.1:GFP\|tissue:skin\|age:3 years\|Sex:male	GSM3309721	GSM3309721: NH FLI 145 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309721	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309721	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1336985700.0	26739714.0	GSM3309721 r1	0:50	A:257049527;C:368876598;G:422514962;T:288505412;N:39201	50		257049527	368876598	422514962	288505412	39201	SRX4477819	SRS3603020	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.04358	0.00841	0.99312	0.76026	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49026	49026	SRR7613118	SRX4477818	SRS3603019	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 137 ZF skin smallRNAseq	GSM3309720	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	NH FLI 137 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	GSM3309720	GSM3309720: NH FLI 137 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309720	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309720	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1039359300.0	20787186.0	GSM3309720 r1	0:50	A:200252400;C:286646217;G:322574775;T:229813195;N:72713	50		200252400	286646217	322574775	229813195	72713	SRX4477818	SRS3603019	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.10832	0.00654	0.99113	0.52929	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49027	49027	SRR7613117	SRX4477817	SRS3603018	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 136 ZF skin smallRNAseq	GSM3309719	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	NH FLI 136 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	GSM3309719	GSM3309719: NH FLI 136 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309719	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309719	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			858942900.0	17178858.0	GSM3309719 r1	0:50	A:168340182;C:217323317;G:266544838;T:206688895;N:45668	50		168340182	217323317	266544838	206688895	45668	SRX4477817	SRS3603018	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.00791	0.00151	0.99439	0.71291	50	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49028	49028	SRR7613116	SRX4477816	SRS3603017	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 135 ZF skin smallRNAseq	GSM3309718	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	NH FLI 135 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	GSM3309718	GSM3309718: NH FLI 135 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309718	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309718	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1468015400.0	29360308.0	GSM3309718 r1	0:50	A:275374756;C:419939586;G:454098567;T:318538086;N:64405	50		275374756	419939586	454098567	318538086	64405	SRX4477816	SRS3603017	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.01694	0.00341	0.99511	0.72261	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49029	49029	SRR7613115	SRX4477815	SRS3603016	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 134 ZF skin smallRNAseq	GSM3309717	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	NH FLI 134 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	GSM3309717	GSM3309717: NH FLI 134 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309717	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309717	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			678693700.0	13573874.0	GSM3309717 r1	0:50	A:137270784;C:164359833;G:207871154;T:169165189;N:26740	50		137270784	164359833	207871154	169165189	26740	SRX4477815	SRS3603016	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.02269	0.00427	0.99295	0.61091	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49030	49030	SRR7613114	SRX4477814	SRS3603015	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 133 ZF skin smallRNAseq	GSM3309716	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	NH FLI 133 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:2 years\|Sex:male	GSM3309716	GSM3309716: NH FLI 133 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309716	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309716	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			847740400.0	16954808.0	GSM3309716 r1	0:50	A:168475291;C:220114466;G:260254419;T:198870005;N:26219	50		168475291	220114466	260254419	198870005	26219	SRX4477814	SRS3603015	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.02431	0.00324	0.99226	0.63318	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49031	49031	SRR7613113	SRX4477813	SRS3603014	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 125 ZF skin smallRNAseq	GSM3309715	source name:skin\|strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	NH FLI 125 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	GSM3309715	GSM3309715: NH FLI 125 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309715	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309715	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1020735000.0	20414700.0	GSM3309715 r1	0:50	A:205383345;C:253177983;G:308564152;T:253535814;N:73706	50		205383345	253177983	308564152	253535814	73706	SRX4477813	SRS3603014	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.10278	0.00523	0.99155	0.53907	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49032	49032	SRR7613112	SRX4477812	SRS3603012	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 122 ZF skin smallRNAseq	GSM3309714	source name:skin\|strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	NH FLI 122 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	GSM3309714	GSM3309714: NH FLI 122 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309714	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309714	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			647896400.0	12957928.0	GSM3309714 r1	0:50	A:130330780;C:160929346;G:200383433;T:156218597;N:34244	50		130330780	160929346	200383433	156218597	34244	SRX4477812	SRS3603012	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.00732	0.0014	0.99401	0.68357	50	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49033	49033	SRR7613111	SRX4477811	SRS3603013	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 121 ZF skin smallRNAseq	GSM3309713	source name:skin\|strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	NH FLI 121 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	GSM3309713	GSM3309713: NH FLI 121 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309713	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309713	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			1387064850.0	27741297.0	GSM3309713 r1	0:50	A:262170854;C:395102028;G:446088168;T:283643764;N:60036	50		262170854	395102028	446088168	283643764	60036	SRX4477811	SRS3603013	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.01646	0.00363	0.9922	0.73895	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49034	49034	SRR7613110	SRX4477810	SRS3603011	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 120 ZF skin smallRNAseq	GSM3309712	source name:skin\|strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	NH FLI 120 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	GSM3309712	GSM3309712: NH FLI 120 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309712	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309712	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			771712600.0	15434252.0	GSM3309712 r1	0:50	A:154765175;C:193689306;G:236383702;T:186844174;N:30243	50		154765175	193689306	236383702	186844174	30243	SRX4477810	SRS3603011	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.02376	0.00465	0.99166	0.64918	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49035	49035	SRR7613109	SRX4477809	SRS3603010	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 119 ZF skin smallRNAseq	GSM3309711	source name:skin\|strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	NH FLI 119 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC Tgflk:mCherry\|tissue:skin\|age:1 year\|Sex:male	GSM3309711	GSM3309711: NH FLI 119 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309711	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309711	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			582866200.0	11657324.0	GSM3309711 r1	0:50	A:113005827;C:152497718;G:181963234;T:135381588;N:17833	50		113005827	152497718	181963234	135381588	17833	SRX4477809	SRS3603010	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.02894	0.00364	0.99208	0.58438	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49036	49036	SRR7613108	SRX4477808	SRS3603008	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 98 ZF skin smallRNAseq	GSM3309710	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	NH FLI 98 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	GSM3309710	GSM3309710: NH FLI 98 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309710	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309710	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			663294800.0	13265896.0	GSM3309710 r1	0:50	A:137734100;C:161855118;G:201382193;T:162288125;N:35264	50		137734100	161855118	201382193	162288125	35264	SRX4477808	SRS3603008	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.00618	0.00111	0.99478	0.65659	50	T	under 1.2% mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49037	49037	SRR7613107	SRX4477807	SRS3603009	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 96 ZF skin smallRNAseq	GSM3309709	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	NH FLI 96 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	GSM3309709	GSM3309709: NH FLI 96 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309709	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309709	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			569130200.0	11382604.0	GSM3309709 r1	0:50	A:116615049;C:147340637;G:176081367;T:129067210;N:25937	50		116615049	147340637	176081367	129067210	25937	SRX4477807	SRS3603009	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.01763	0.00207	0.99389	0.63527	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49038	49038	SRR7613106	SRX4477806	SRS3603007	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 94 ZF skin smallRNAseq	GSM3309708	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	NH FLI 94 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	GSM3309708	GSM3309708: NH FLI 94 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309708	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309708	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			941640450.0	18832809.0	GSM3309708 r1	0:50	A:181731779;C:249059327;G:290464823;T:220348739;N:35782	50		181731779	249059327	290464823	220348739	35782	SRX4477806	SRS3603007	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.03203	0.00641	0.98993	0.72488	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
49039	49039	SRR7613105	SRX4477805	SRS3603006	SRP155559	PRJNA483229	Sequencing of Danio rerio skin for 5 age groups	GSE117820	Transcriptome Analysis	Comparison of temporal small RNA gene expression profiles from Danio rerio skin. The smallRNA seq data comprise 5 age groups at 6 12 24 36 month and 42 month. Jena Centre for Systems Biology of Ageing JenAge www.jenage.de Overall design: 25 samples in 5 groups: 6 month 5 samples 12 month 5 samples 24 month 5 samples 36 month 5 samples 42 month 5 samples.	NH FLI 85 ZF skin smallRNAseq	GSM3309707	source name:skin\|strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	NH FLI 85 ZF skin smallRNAseq	Sequence information was extracted in FastQ format using CASAVA software 1.8.4 data processing step. Reads were trimmed und filtered using trimmomatic 0.36 [parameter: ILLUMINACLIP:smallRNAAdapter:2:6:6 LEADING:15 SLIDINGWINDOW:4:15 MINLEN:20]. Reads were mapped using BWA 0.7.12 r1039 [parameter: n 0 o 0 e 0 l 8 k 0]. Reads per gene were counted using samtools 1.3.1 9 ge5dfb0a. Genome build: mirBase Release 21 D. rerio sequences only Supplementary files format and content: The Excel file includes raw counts sample counts.xls of all mirBase D. rerio sequences for each sample.	skin		Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	strain:AB JxT\xFC\|tissue:skin\|age:6 month\|Sex:male	GSM3309707	GSM3309707: NH FLI 85 ZF skin smallRNAseq; Danio rerio; ncRNA Seq	GSM3309707	1	Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq smallRNA Library Preparation Kit following the manufacturer's instruction.	GEO Accession:GSM3309707	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP155559			974950550.0	19499011.0	GSM3309707 r1	0:50	A:188952378;C:263095911;G:305812761;T:217059876;N:29624	50		188952378	263095911	305812761	217059876	29624	SRX4477805	SRS3603006	SRA745967	GEO	Leibniz Institute for Age Research - Fritz Lipmann Institute	1	0.03216	0.00571	0.99015	0.67028	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	Germany	2018-07-27	Adult	Adult	Skin	Surface Structure
61688	61688	SRR13302966	SRX9731824	SRS7924603	SRP290217	PRJNA673345	Zebrafish as an animal model for the antiviral RNA interference pathway	GSE160475	Transcriptome Analysis	We have evaluated the possible use of zebrafish to study antiviral RNAi with sindbis virus SINV vesicular stomatitis virus VSV and nodamura virus NoV. We find that SINV and NoV viruses induce the production of virus derived small interfering RNAs vsiRNAs the hallmark of antiviral RNAi with a preference of 22 nucleotides in length post infection of larval zebrafish. Meanwhile the suppressor of RNAi VSR protein NoV B2 may affect the accumulation of the NoV virus in zebrafish. Overall design: 5 virus derived small RNA from zebrafish infected with different viruses was detected by small RNA seq.	NoV△B2: Ago2 IP 3 dpi	GSM4988099	source name:zebrafish whole body\|zebrafish background:AB\|infection:NoV△B2\|injection way:microinjection\|tissue:zebrafish whole body	NoV△B2: Ago2 IP 3 dpi	Sequenced reads were trimmed for adaptor sequence then mapped to virus genome using bowtie 1.1.2 with perfect match. Genome build: AF174533.1 AF174534.1;J02363.1;NC 001560.1 Supplementary files format and content: mapping results files generated by bowtie1.1.2	zebrafish whole body		Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	zebrafish background:AB\|infection:NoV△B2\|injection way:microinjection\|tissue:zebrafish whole body	GSM4988099	GSM4988099: NoV△B2: Ago2 IP 3 dpi; Danio rerio; ncRNA Seq	GSM4988099	1	Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	GEO Accession:GSM4988099	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP290217	LY272.fq.gz	fastq	2608504950.0	17390033.0	GSM4988099 r1	0:150 1:0	A:741941121;C:669191911;G:747181676;T:450096994;N:93248	150	0	741941121	669191911	747181676	450096994	93248	SRX9731824	SRS7924603	SRA1151114	GEO	Fudan University	1	0.13133	0.03425	0.96802	0.60095	150	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2020-12-24	Undetermined	Larval	Trunk	Surface Structure
61689	61689	SRR12951276	SRX9404383	SRS7622158	SRP290217	PRJNA673345	Zebrafish as an animal model for the antiviral RNA interference pathway	GSE160475	Transcriptome Analysis	We have evaluated the possible use of zebrafish to study antiviral RNAi with sindbis virus SINV vesicular stomatitis virus VSV and nodamura virus NoV. We find that SINV and NoV viruses induce the production of virus derived small interfering RNAs vsiRNAs the hallmark of antiviral RNAi with a preference of 22 nucleotides in length post infection of larval zebrafish. Meanwhile the suppressor of RNAi VSR protein NoV B2 may affect the accumulation of the NoV virus in zebrafish. Overall design: 5 virus derived small RNA from zebrafish infected with different viruses was detected by small RNA seq.	SINV: zebrafish 3 dpi	GSM4873784	source name:zebrafish whole body\|tissue:whole body\|infection:SINV\|injection way:microinjection\|zebrafish background:AB	SINV: zebrafish 3 dpi	Sequenced reads were trimmed for adaptor sequence then mapped to virus genome using bowtie 1.1.2 with perfect match. Genome build: AF174533.1 AF174534.1;J02363.1;NC 001560.1 Supplementary files format and content: mapping results files generated by bowtie1.1.2	zebrafish whole body		Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	tissue:whole body\|infection:SINV\|injection way:microinjection\|zebrafish background:AB	GSM4873784	GSM4873784: SINV: zebrafish 3 dpi; Danio rerio; ncRNA Seq	GSM4873784	1	Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	GEO Accession:GSM4873784	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2000	SRP290217	4_LY215.fq.gz	fastq	1328044600.0	26560892.0	GSM4873784 r1	0:50 1:0	A:383401484;C:303337306;G:339848340;T:301397824;N:59646	50	0	383401484	303337306	339848340	301397824	59646	SRX9404383	SRS7622158	SRA1151114	GEO	Fudan University	1	0.83242	0.11559	0.93634	0.53516	50	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2020-10-30	Undetermined	Larval	Trunk	Surface Structure
61690	61690	SRR12951275	SRX9404382	SRS7622159	SRP290217	PRJNA673345	Zebrafish as an animal model for the antiviral RNA interference pathway	GSE160475	Transcriptome Analysis	We have evaluated the possible use of zebrafish to study antiviral RNAi with sindbis virus SINV vesicular stomatitis virus VSV and nodamura virus NoV. We find that SINV and NoV viruses induce the production of virus derived small interfering RNAs vsiRNAs the hallmark of antiviral RNAi with a preference of 22 nucleotides in length post infection of larval zebrafish. Meanwhile the suppressor of RNAi VSR protein NoV B2 may affect the accumulation of the NoV virus in zebrafish. Overall design: 5 virus derived small RNA from zebrafish infected with different viruses was detected by small RNA seq.	VSV: zebrafish 24 hpi	GSM4873783	source name:zebrafish whole body\|tissue:whole body\|infection:VSV\|injection way:microinjection\|zebrafish background:AB	VSV: zebrafish 24 hpi	Sequenced reads were trimmed for adaptor sequence then mapped to virus genome using bowtie 1.1.2 with perfect match. Genome build: AF174533.1 AF174534.1;J02363.1;NC 001560.1 Supplementary files format and content: mapping results files generated by bowtie1.1.2	zebrafish whole body		Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	tissue:whole body\|infection:VSV\|injection way:microinjection\|zebrafish background:AB	GSM4873783	GSM4873783: VSV: zebrafish 24 hpi; Danio rerio; ncRNA Seq	GSM4873783	1	Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	GEO Accession:GSM4873783	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP290217	3_LY157.fq.gz	fastq	706147852.0	29418915.0	GSM4873783 r1	0:24.00 1:0	A:151681768;C:131117267;G:189016204;T:234316361;N:16252	24	0	151681768	131117267	189016204	234316361	16252	SRX9404382	SRS7622159	SRA1151114	GEO	Fudan University	1	0.92973	0.12628	0.90664	0.45104	23	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2020-10-30	Undetermined	Larval	Trunk	Surface Structure
61691	61691	SRR12951274	SRX9404381	SRS7622157	SRP290217	PRJNA673345	Zebrafish as an animal model for the antiviral RNA interference pathway	GSE160475	Transcriptome Analysis	We have evaluated the possible use of zebrafish to study antiviral RNAi with sindbis virus SINV vesicular stomatitis virus VSV and nodamura virus NoV. We find that SINV and NoV viruses induce the production of virus derived small interfering RNAs vsiRNAs the hallmark of antiviral RNAi with a preference of 22 nucleotides in length post infection of larval zebrafish. Meanwhile the suppressor of RNAi VSR protein NoV B2 may affect the accumulation of the NoV virus in zebrafish. Overall design: 5 virus derived small RNA from zebrafish infected with different viruses was detected by small RNA seq.	NoV△B2: zebrafish 24 hpi	GSM4873782	source name:zebrafish whole body\|tissue:whole body\|infection:NoV{delta}B2\|injection way:microinjection\|zebrafish background:AB	NoV△B2: zebrafish 24 hpi	Sequenced reads were trimmed for adaptor sequence then mapped to virus genome using bowtie 1.1.2 with perfect match. Genome build: AF174533.1 AF174534.1;J02363.1;NC 001560.1 Supplementary files format and content: mapping results files generated by bowtie1.1.2	zebrafish whole body		Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	tissue:whole body\|infection:NoV{delta}B2\|injection way:microinjection\|zebrafish background:AB	GSM4873782	GSM4873782: NoV△B2: zebrafish 24 hpi; Danio rerio; ncRNA Seq	GSM4873782	1	Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	GEO Accession:GSM4873782	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP290217	2_LY156.fq.gz	fastq	748544818.0	30779865.0	GSM4873782 r1	0:24.32 1:0	A:166631198;C:138321792;G:208615021;T:234953337;N:23470	24	0	166631198	138321792	208615021	234953337	23470	SRX9404381	SRS7622157	SRA1151114	GEO	Fudan University	1	0.94115	0.12368	0.91076	0.48684	23	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2020-10-30	Undetermined	Larval	Trunk	Surface Structure
61692	61692	SRR12951273	SRX9404380	SRS7622156	SRP290217	PRJNA673345	Zebrafish as an animal model for the antiviral RNA interference pathway	GSE160475	Transcriptome Analysis	We have evaluated the possible use of zebrafish to study antiviral RNAi with sindbis virus SINV vesicular stomatitis virus VSV and nodamura virus NoV. We find that SINV and NoV viruses induce the production of virus derived small interfering RNAs vsiRNAs the hallmark of antiviral RNAi with a preference of 22 nucleotides in length post infection of larval zebrafish. Meanwhile the suppressor of RNAi VSR protein NoV B2 may affect the accumulation of the NoV virus in zebrafish. Overall design: 5 virus derived small RNA from zebrafish infected with different viruses was detected by small RNA seq.	NoV: zebrafish 24 hpi	GSM4873781	source name:zebrafish whole body\|tissue:whole body\|infection:NoV\|injection way:microinjection\|zebrafish background:AB	NoV: zebrafish 24 hpi	Sequenced reads were trimmed for adaptor sequence then mapped to virus genome using bowtie 1.1.2 with perfect match. Genome build: AF174533.1 AF174534.1;J02363.1;NC 001560.1 Supplementary files format and content: mapping results files generated by bowtie1.1.2	zebrafish whole body		Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	tissue:whole body\|infection:NoV\|injection way:microinjection\|zebrafish background:AB	GSM4873781	GSM4873781: NoV: zebrafish 24 hpi; Danio rerio; ncRNA Seq	GSM4873781	1	Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.	GEO Accession:GSM4873781	ncRNA-Seq	TRANSCRIPTOMIC	size fractionation	SINGLE	ILLUMINA	Illumina HiSeq 2500	SRP290217	1_LY155.fq.gz	fastq	594676353.0	25019145.0	GSM4873781 r1	0:23.77 1:0	A:129139705;C:108465388;G:162500636;T:194556532;N:14092	23	0	129139705	108465388	162500636	194556532	14092	SRX9404380	SRS7622156	SRA1151114	GEO	Fudan University	1	0.93471	0.10892	0.90814	0.48797	22	B	usable mapping rate	illumina	hiseq_era	unknown	size_fractionation	trueseq	bulk	unknown	unknown	China	2020-10-30	Undetermined	Larval	Trunk	Surface Structure

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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");;