{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"size fractionation\", experiment.library_strategy = \"RNA-Seq\" and tissue_curation = \"Gonad\"", "rows": [[36273, "SRR298566", "SRX079844", "SRS212650", "SRP007331", "PRJNA141525", "Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish.", "GSE29418", "Transcriptome Analysis", "RNA libraries from immunoprecipitates of Tdrd1  Ziwi and Zili  total testis RNA  total RNA from 3 wpf wild type and tdrd1 mutant gonads. Overall design: Both size selected and non size selected libraries were made. Sequencing was performed using Illumina platform.", null, "pubmed:21743441", null, "WTTESTIS", "GSM727523", null, "tissue:adult testis extract|strain:TL", "WTTESTIS", "three prime adapter sequences were trimmed and inserts longer than 18 nt were mapped to the D. rerio genome Zv9.", "adult testis extract", null, "Tissue was homogenized in trizol and total RNA was isolated. RNAs ranging from 18 35 nucleotides were size selected from gel. For cDNA synthesis  the RNA molecules in the immunoprecipitated fraction were first poly A tailed using polyApolymerase followed by ligation of synthetic RNA adapter to the five prime phosphate. First strand cDNA synthesis was then performed using an oligodT linker primer and M MLVRNase H  reverse transcriptase. cDNA was PCR amplified with adapter specific primers and used in Illumina sequencing.", null, "strain:TL", "GSM727523", "GSM727523: WTTESTIS", "GSM727523: WTTESTIS", "GSM727523: WTTESTIS", "1", null, "GEO Accession:GSM727523", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer II", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP007331", null, "read name barcode proc directive:ignore", "WTTESTIS.fastq", "fastq", 732997980.0, 20361055.0, "GSM727523 1", "0:36", null, 36, null, null, null, null, null, null, null, null, "SRX079844", "SRS212650", "SRA039167", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.08155, null, 0.07176, null, 0.97851, null, 0.52359, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2011-05-20", "Adult", "Adult", "Gonad", "Reproductive System"], [36274, "SRR298565", "SRX079843", "SRS212649", "SRP007331", "PRJNA141525", "Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish.", "GSE29418", "Transcriptome Analysis", "RNA libraries from immunoprecipitates of Tdrd1  Ziwi and Zili  total testis RNA  total RNA from 3 wpf wild type and tdrd1 mutant gonads. Overall design: Both size selected and non size selected libraries were made. Sequencing was performed using Illumina platform.", null, "pubmed:21743441", null, "WT3WK", "GSM727522", null, "tissue:3 wpf whole gonads|strain:TL", "WT3WK", "three prime adapter sequences were trimmed and inserts longer than 18 nt were mapped to the D. rerio genome Zv9.", "3 wpf whole gonads", null, "Tissue was homogenized in trizol and total RNA was isolated. RNAs ranging from 18 35 nucleotides were size selected from gel. For cDNA synthesis  the RNA molecules in the immunoprecipitated fraction were first poly A tailed using polyApolymerase followed by ligation of synthetic RNA adapter to the five prime phosphate. First strand cDNA synthesis was then performed using an oligodT linker primer and M MLVRNase H  reverse transcriptase. cDNA was PCR amplified with adapter specific primers and used in Illumina sequencing.", null, "strain:TL", "GSM727522", "GSM727522: WT3WK", "GSM727522: WT3WK", "GSM727522: WT3WK", "1", null, "GEO Accession:GSM727522", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer II", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP007331", null, "read name barcode proc directive:ignore", "WT3WK.fastq", "fastq", 365473116.0, 10152031.0, "GSM727522 1", "0:36", null, 36, null, null, null, null, null, null, null, null, "SRX079843", "SRS212649", "SRA039167", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.09055, null, 0.0603, null, 0.97798, null, 0.44571, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2011-05-20", "Larval", "Larval", "Gonad", "Reproductive System"], [36275, "SRR298564", "SRX079842", "SRS212648", "SRP007331", "PRJNA141525", "Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish.", "GSE29418", "Transcriptome Analysis", "RNA libraries from immunoprecipitates of Tdrd1  Ziwi and Zili  total testis RNA  total RNA from 3 wpf wild type and tdrd1 mutant gonads. Overall design: Both size selected and non size selected libraries were made. Sequencing was performed using Illumina platform.", null, "pubmed:21743441", null, "TDRD1WK3", "GSM727521", null, "tissue:3 wpf tdrd1 mutant gonads|strain:TL", "TDRD1WK3", "three prime adapter sequences were trimmed and inserts longer than 18 nt were mapped to the D. rerio genome Zv9.", "3 wpf tdrd1 mutant gonads", null, "Tissue was homogenized in trizol and total RNA was isolated. RNAs ranging from 18 35 nucleotides were size selected from gel. For cDNA synthesis  the RNA molecules in the immunoprecipitated fraction were first poly A tailed using polyApolymerase followed by ligation of synthetic RNA adapter to the five prime phosphate. First strand cDNA synthesis was then performed using an oligodT linker primer and M MLVRNase H  reverse transcriptase. cDNA was PCR amplified with adapter specific primers and used in Illumina sequencing.", null, "strain:TL", "GSM727521", "GSM727521: TDRD1WK3", "GSM727521: TDRD1WK3", "GSM727521: TDRD1WK3", "1", null, "GEO Accession:GSM727521", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer II", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP007331", null, "read name barcode proc directive:ignore", "TDRD1WK3.fastq", "fastq", 369931536.0, 10275876.0, "GSM727521 1", "0:36", null, 36, null, null, null, null, null, null, null, null, "SRX079842", "SRS212648", "SRA039167", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.08303, null, 0.04674, null, 0.97938, null, 0.35673, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2011-05-20", "Larval", "Larval", "Gonad", "Reproductive System"], [36514, "SRR578923", "SRX190981", "SRS366702", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "SJD male", "GSM1014087", null, "source name:Testes|sex:male|strain:SJD|development stage:Adult|tissue:Testes", "SJD male", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Testes", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. 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RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "TuxSJDF2 Individual 2", "GSM1014085", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "TuxSJDF2 Individual 2", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. 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RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "TuxSJDF2", "GSM1014083", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "TuxSJDF2", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. 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RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "TuxSJDF1 Individual 1", "GSM1014081", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "TuxSJDF1 Individual 1", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014081", "GSM1014081: TuxSJDF1 Individual 1; Danio rerio; RNA Seq", "GSM1014081 1", null, "1", null, "GEO Accession:GSM1014081", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, "TuxSJDF2_Individual_1.fastq", "fastq", 373504320.0, 10375120.0, "GSM1014081 r1", "0:36", "A:96550943;C:89937876;G:87356943;T:99426239;N:232319", 36, null, null, null, 96550943, 89937876, 87356943, 99426239, 232319, "SRX190975", "SRS366696", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.15362, null, 0.12272, null, 0.95943, null, 0.56453, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36521, "SRR578916", "SRX190974", "SRS366695", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. 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RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014080", "GSM1014080: TuxSJDF1; Danio rerio; RNA Seq", "GSM1014080 1", null, "1", null, "GEO Accession:GSM1014080", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, "TuxSJDF1.fastq", "fastq", 1031108904.0, 28641914.0, "GSM1014080 r1", "0:36", "A:270773113;C:213123466;G:267237418;T:279702377;N:272530", 36, null, null, null, 270773113, 213123466, 267237418, 279702377, 272530, "SRX190974", "SRS366695", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.15469, null, 0.12537, null, 0.95457, null, 0.48819, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36522, "SRR578915", "SRX190973", "SRS366694", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "Tu P0 Individual 2", "GSM1014079", null, "source name:Ovary|sex:female|strain:Tu|development stage:Adult|tissue:Ovary", "Tu P0 Individual 2", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Tu|developmental stage:Adult|tissue:Ovary", "GSM1014079", "GSM1014079: Tu P0 Individual 2; Danio rerio; RNA Seq", "GSM1014079 1", null, "1", null, "GEO Accession:GSM1014079", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 464586408.0, 12905178.0, "GSM1014079 r1", "0:36", "A:150621423;C:99131637;G:92380585;T:122374816;N:77947", 36, null, null, null, 150621423, 99131637, 92380585, 122374816, 77947, "SRX190973", "SRS366694", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.0937, null, 0.05289, null, 0.96546, null, 0.60026, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36523, "SRR578914", "SRX190972", "SRS366693", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "Tu P0 Individual 1", "GSM1014078", null, "source name:Ovary|sex:female|strain:Tu|development stage:Adult|tissue:Ovary", "Tu P0 Individual 1", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Tu|developmental stage:Adult|tissue:Ovary", "GSM1014078", "GSM1014078: Tu P0 Individual 1; Danio rerio; RNA Seq", "GSM1014078 1", null, "1", null, "GEO Accession:GSM1014078", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 427172796.0, 11865911.0, "GSM1014078 r1", "0:36", "A:135500495;C:91385480;G:87823245;T:112202150;N:261426", 36, null, null, null, 135500495, 91385480, 87823245, 112202150, 261426, "SRX190972", "SRS366693", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.1368, null, 0.09652, null, 0.95142, null, 0.49555, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36524, "SRR578913", "SRX190971", "SRS366692", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "Tu P0", "GSM1014077", null, "source name:Ovary|sex:female|strain:Tu|development stage:Adult|tissue:Ovary", "Tu P0", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Tu|developmental stage:Adult|tissue:Ovary", "GSM1014077", "GSM1014077: Tu P0; Danio rerio; RNA Seq", "GSM1014077 1", null, "1", null, "GEO Accession:GSM1014077", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 967772772.0, 26882577.0, "GSM1014077 r1", "0:36", "A:227085973;C:218180545;G:249458631;T:273002038;N:45585", 36, null, null, null, 227085973, 218180545, 249458631, 273002038, 45585, "SRX190971", "SRS366692", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.14418, null, 0.1135, null, 0.95818, null, 0.51074, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36525, "SRR578912", "SRX190970", "SRS366691", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "SJDxTuF2 Individual 2", "GSM1014076", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "SJDxTuF2 Individual 2", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014076", "GSM1014076: SJDxTuF2 Individual 2; Danio rerio; RNA Seq", "GSM1014076 1", null, "1", null, "GEO Accession:GSM1014076", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 347475024.0, 9652084.0, "GSM1014076 r1", "0:36", "A:91189258;C:81789488;G:84551251;T:89882775;N:62252", 36, null, null, null, 91189258, 81789488, 84551251, 89882775, 62252, "SRX190970", "SRS366691", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.15872, null, 0.12439, null, 0.95848, null, 0.56717, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36526, "SRR578911", "SRX190969", "SRS366690", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "SJDxTuF2 Individual 1", "GSM1014075", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "SJDxTuF2 Individual 1", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014075", "GSM1014075: SJDxTuF2 Individual 1; Danio rerio; RNA Seq", "GSM1014075 1", null, "1", null, "GEO Accession:GSM1014075", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 400137228.0, 11114923.0, "GSM1014075 r1", "0:36", "A:107143937;C:91495000;G:94706504;T:106722021;N:69766", 36, null, null, null, 107143937, 91495000, 94706504, 106722021, 69766, "SRX190969", "SRS366690", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.15753, null, 0.12463, null, 0.95538, null, 0.5649, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36527, "SRR578910", "SRX190968", "SRS366689", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "SJDxTuF2", "GSM1014074", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "SJDxTuF2", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014074", "GSM1014074: SJDxTuF2; Danio rerio; RNA Seq", "GSM1014074 1", null, "1", null, "GEO Accession:GSM1014074", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, "SJDxTuF2.fastq", "fastq", 958492116.0, 26624781.0, "GSM1014074 r1", "0:36", "A:261275440;C:193944805;G:248348765;T:254793050;N:130056", 36, null, null, null, 261275440, 193944805, 248348765, 254793050, 130056, "SRX190968", "SRS366689", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.20051, null, 0.16387, null, 0.94653, null, 0.53263, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36528, "SRR578909", "SRX190967", "SRS366688", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "SJDxTuF1 Individual 2", "GSM1014073", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "SJDxTuF1 Individual 2", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014073", "GSM1014073: SJDxTuF1 Individual 2; Danio rerio; RNA Seq", "GSM1014073 1", null, "1", null, "GEO Accession:GSM1014073", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 435761532.0, 12104487.0, "GSM1014073 r1", "0:36", "A:120580697;C:105605593;G:91379055;T:117787426;N:408761", 36, null, null, null, 120580697, 105605593, 91379055, 117787426, 408761, "SRX190967", "SRS366688", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.07215, null, 0.05695, null, 0.97557, null, 0.48838, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36529, "SRR578908", "SRX190966", "SRS366687", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. RNA from 5 individual ovaries was pooled .", null, "pubmed:23335638", null, "SJDxTuF1 Individual 1", "GSM1014072", null, "source name:Ovary|sex:female|strain:Hybrid SJD and Tu|development stage:Adult|tissue:Ovary", "SJDxTuF1 Individual 1", "Barcode splitting and adapter trimming performed using custom scripts. Barcode is the first 4 bases of the reads  except for libraries Tu Male  Tu P0  SJD Male  SJD P0  SJDxTuF1  TuxSJDF1  TuxSJDF2 and SJDxTuF2  which do not have a barcode. three prime adapter seqeunce starts with 'TCGTATG'. Reads were mapped to D.rerio genome assembly using megablast software. Genome build: Zv9 Supplementary files format and content: Text file with read counts", "Ovary", null, "Total RNA was isolated using fast protK mediated lysis and Trizol LS protocols. five prime and three prime adaptors were ligated. RNA was not treated with any enzymes before ligation steps.", "Animals were grown under standard conditioni", "gender:female|strain:Hybrid SJD and Tu|developmental stage:Adult|tissue:Ovary", "GSM1014072", "GSM1014072: SJDxTuF1 Individual 1; Danio rerio; RNA Seq", "GSM1014072 1", null, "1", null, "GEO Accession:GSM1014072", "RNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina Genome Analyzer IIx", null, "SRP015982", null, null, null, null, 378296532.0, 10508237.0, "GSM1014072 r1", "0:36", "A:109216358;C:76585213;G:90165899;T:102085771;N:243291", 36, null, null, null, 109216358, 76585213, 90165899, 102085771, 243291, "SRX190966", "SRS366687", "SRA059229", "GEO", "European Research Institute for the Biology of Ageing, University Medical Center Groningen", 1, 0.13684, null, 0.10794, null, 0.96335, null, 0.49651, null, 36, null, "B", null, "usable mapping rate", "illumina", "early_illumina", "unknown", "size_fractionation", "unknown", "bulk", "unknown", "unknown", null, "Netherlands", "2012-10-03", "Adult", "Adult", "Gonad", "Reproductive System"], [36530, "SRR578907", "SRX190965", "SRS366686", "SRP015982", "PRJNA176481", "Small RNA analysis of Tu And SJD zebrafish strain and their progeny", "GSE41299", "Transcriptome Analysis", "Small RNA libraries from total RNA isolated from adult ovaries Overall design: Small RNA libraries were derived from Ovaries of the Founder strain and their offspring and their reciprocal offspring. 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