{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_layout = \"SINGLE\", experiment.library_selection = \"PolyA\" and tissue_curation_coarse = \"Liver and Biliary System\"", "rows": [[31986, "SRR28894021", "SRX24452441", "SRS21206092", "SRP505663", "PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "elovl2 4", null, "strain:elovl2 4|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "elovl2 4", "8", "8", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "elovl2-4", "fastq", 4367010000.0, 29113400.0, "elovl2 4.gz", "0:150", 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"PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "elovl2 2", null, "strain:elovl2 2|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "elovl2 2", "6", "6", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "elovl2-2", "fastq", 3261375750.0, 21742505.0, "elovl2 2.gz", "0:150", "A:878478836;C:747963062;G:743760185;T:891083235;N:90432", 150, null, null, null, 878478836, 747963062, 743760185, 891083235, 90432, "SRX24452439", "SRS21206090", "SRA1858809", "Chinese Academy of Sciences (CAS)|The Institute of Hydrobiology", "Chinese Academy of Sciences (CAS)", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-05-04", "Undetermined", "Undetermined", "Liver", "Liver and Biliary System"], [31989, "SRR28894024", "SRX24452438", "SRS21206089", "SRP505663", "PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "elovl2 1", null, "strain:elovl2 1|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "elovl2 1", "5", "5", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "elovl2-1", "fastq", 3629422950.0, 24196153.0, "elovl2 1.gz", "0:150", "A:974034477;C:836070594;G:831068189;T:988151010;N:98680", 150, null, null, null, 974034477, 836070594, 831068189, 988151010, 98680, "SRX24452438", "SRS21206089", "SRA1858809", "Chinese Academy of Sciences (CAS)|The Institute of Hydrobiology", "Chinese Academy of Sciences (CAS)", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-05-04", "Undetermined", "Undetermined", "Liver", "Liver and Biliary System"], [31990, "SRR28894025", "SRX24452437", "SRS21206088", "SRP505663", "PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "WT 4", null, "strain:WT 4|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 4", "4", "4", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "WT-4", "fastq", 4037472900.0, 26916486.0, "WT 4.gz", "0:150", "A:1083383010;C:932278459;G:925831402;T:1095868616;N:111413", 150, null, null, null, 1083383010, 932278459, 925831402, 1095868616, 111413, "SRX24452437", "SRS21206088", "SRA1858809", "Chinese Academy of Sciences (CAS)|The Institute of Hydrobiology", "Chinese Academy of Sciences (CAS)", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-05-04", "Undetermined", "Undetermined", "Liver", "Liver and Biliary System"], [31991, "SRR28894026", "SRX24452436", "SRS21206087", "SRP505663", "PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "WT 3", null, "strain:WT 3|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 3", "3", "3", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "WT-3", "fastq", 3651994200.0, 24346628.0, "WT 3.gz", "0:150", "A:978819903;C:844506880;G:836704943;T:991863415;N:99059", 150, null, null, null, 978819903, 844506880, 836704943, 991863415, 99059, "SRX24452436", "SRS21206087", "SRA1858809", "Chinese Academy of Sciences (CAS)|The Institute of Hydrobiology", "Chinese Academy of Sciences (CAS)", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-05-04", "Undetermined", "Undetermined", "Liver", "Liver and Biliary System"], [31992, "SRR28894027", "SRX24452435", "SRS21206086", "SRP505663", "PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "WT 2", null, "strain:WT 2|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 2", "2", "2", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "WT-2", "fastq", 3845338950.0, 25635593.0, "WT 2.gz", "0:150", "A:1033991995;C:885977441;G:878907105;T:1046356459;N:105950", 150, null, null, null, 1033991995, 885977441, 878907105, 1046356459, 105950, "SRX24452435", "SRS21206086", "SRA1858809", "Chinese Academy of Sciences (CAS)|The Institute of Hydrobiology", "Chinese Academy of Sciences (CAS)", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-05-04", "Undetermined", "Undetermined", "Liver", "Liver and Biliary System"], [31993, "SRR28894028", "SRX24452434", "SRS21206085", "SRP505663", "PRJNA1107798", "liver", "PRJNA1107798", "Other", "wt and elovl2 mutant liver", null, null, null, null, "WT 1", null, "strain:WT 1|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:not collected|geo loc name:not collected|sex:male|tissue:liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 1", "1", "1", "liver", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq X", null, "SRP505663", null, null, "WT-1", "fastq", 3756883050.0, 25045887.0, "WT 1.gz", "0:150", "A:1005244721;C:868304979;G:865360007;T:1017811504;N:161839", 150, null, null, null, 1005244721, 868304979, 865360007, 1017811504, 161839, "SRX24452434", "SRS21206085", "SRA1858809", "Chinese Academy of Sciences (CAS)|The Institute of Hydrobiology", "Chinese Academy of Sciences (CAS)", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-05-04", "Undetermined", "Undetermined", "Liver", "Liver and Biliary System"], [40709, "SRR3420429", "SRX1660365", "SRS1360335", "SRP072296", "PRJNA316313", "Codon optimality and mRNA decay in zebrafish and Xenopus", "PRJNA316313", "Other", "Cellular transitions require dramatic changes in gene expression that are supported by regulated mRNA decay and new transcription. The maternal to zygotic transition is a conserved developmental progression during which thousands of maternal mRNAs are cleared by posttranscriptional mechanisms. Although some maternal mRNAs are targeted for degradation by microRNAs  this pathway does not fully explain mRNA clearance. Because the ribosome constitutes the main ribonucleoprotein complex decoding the mRNA  we investigated how codon identity and translation affect mRNA stability during development and homeostasis. Using an in vivo selection strategy  we show that the codon triplet contains translation dependent regulatory information that influences transcript decay. We find that codon composition shapes maternal mRNA clearance during the maternal to zygotic transition in zebrafish  Xenopus  mouse and Drosophila  and gene expression during homeostasis across human tissues. Codon composition affects both polyadenylation status and translation efficiency. Thus  the ribosome interprets two codes within the mRNA  the genetic code which specifies the amino acid sequence  and a conserved \u201ccodon optimality code\u201d that shapes mRNA stability and translation efficiency across vertebrates.", null, null, null, null, "AG01295 liver", null, "strain:TUAB|age:adult|sex:pooled male and female|tissue:Liver|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "AG01295 liver", "AG01295 liver", "1", "1", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2500", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>75</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>", "SRP072296", null, null, "AG01295_SEQ0273_R1.fastq.gz", "fastq", 887443260.0, 11676885.0, "AG01295 run 1", "0:76", "A:230924609;C:202487813;G:205378868;T:248612177;N:39793", 76, null, null, null, 230924609, 202487813, 205378868, 248612177, 39793, "SRX1660365", "SRS1360335", "SRA395141", "Yale University|Giraldez Lab", "Yale University", 1, 0.95421, null, 0.04352, null, 0.84062, null, 0.23556, null, 76, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "United States", "2016-06-17", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43824, "SRR6152619", "SRX3264623", "SRS2576849", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers control 1", "rna ctl 1", null, "strain:AB strain|isolate:Male fish tank 1|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers control 1", "rna ctl 1", "rna ctl 1", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1477820550.0, 29556411.0, "RZY 323.fastq", "0:50", "A:341022361;C:372071364;G:361979807;T:401982416;N:764602", 50, null, null, null, 341022361, 372071364, 361979807, 401982416, 764602, "SRX3264623", "SRS2576849", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.88633, null, 0.09624, null, 0.85886, null, 0.58198, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43825, "SRR6152620", "SRX3264622", "SRS2576848", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers control 2", "rna ctl 2", null, "strain:AB strain|isolate:Male fish tank 2|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers control 2", "rna ctl 2", "rna ctl 2", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1267834350.0, 25356687.0, "RZY 324.fastq", "0:50", "A:294105777;C:312048823;G:312619877;T:348380931;N:678942", 50, null, null, null, 294105777, 312048823, 312619877, 348380931, 678942, "SRX3264622", "SRS2576848", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.90606, null, 0.10033, null, 0.83309, null, 0.58402, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43826, "SRR6152623", "SRX3264619", "SRS2576845", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers low 1C 1", "rna low 1C 1", null, "strain:AB strain|isolate:Male fish tank 7|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers low 1C 1", "rna low 1C 1", "rna low 1C 1", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1477820550.0, 29556411.0, "RZY 319.fastq", "0:50", "A:341022361;C:372071364;G:361979807;T:401982416;N:764602", 50, null, null, null, 341022361, 372071364, 361979807, 401982416, 764602, "SRX3264619", "SRS2576845", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.88641, null, 0.09616, null, 0.85882, null, 0.58903, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43827, "SRR6152624", "SRX3264618", "SRS2576843", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers low 1C 2", "rna low 1C 2", null, "strain:AB strain|isolate:Male fish tank 8|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers low 1C 2", "rna low 1C 2", "rna low 1C 2", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1250104800.0, 25002096.0, "RZY 320.fastq", "0:50", "A:298225313;C:301950518;G:305099451;T:344161142;N:668376", 50, null, null, null, 298225313, 301950518, 305099451, 344161142, 668376, "SRX3264618", "SRS2576843", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.88702, null, 0.09849, null, 0.82548, null, 0.57466, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43828, "SRR6152625", "SRX3264617", "SRS2576844", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers control 3", "rna ctl 3", null, "strain:AB strain|isolate:Male fish tank 3|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers control 3", "rna ctl 3", "rna ctl 3", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1375388050.0, 27507761.0, "RZY 325.fastq", "0:50", "A:331719333;C:330944665;G:333352358;T:378627997;N:743697", 50, null, null, null, 331719333, 330944665, 333352358, 378627997, 743697, "SRX3264617", "SRS2576844", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.89565, null, 0.12552, null, 0.83189, null, 0.57988, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43829, "SRR6152626", "SRX3264616", "SRS2576842", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. 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Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers control 4", "rna ctl 4", "rna ctl 4", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1433558100.0, 28671162.0, "RZY 326.fastq", "0:50", "A:340242659;C:350821208;G:346146280;T:395614030;N:733923", 50, null, null, null, 340242659, 350821208, 346146280, 395614030, 733923, "SRX3264616", "SRS2576842", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.90327, null, 0.11496, null, 0.82335, null, 0.57528, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43830, "SRR6152627", "SRX3264615", "SRS2576841", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers low 1C 3", "rna low 1C 3", null, "strain:AB strain|isolate:Male fish tank 9|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers low 1C 3", "rna low 1C 3", "rna low 1C 3", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1453888750.0, 29077775.0, "RZY 321.fastq", "0:50", "A:335835385;C:357658223;G:359480232;T:400135740;N:779170", 50, null, null, null, 335835385, 357658223, 359480232, 400135740, 779170, "SRX3264615", "SRS2576841", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.89454, null, 0.08578, null, 0.84009, null, 0.584, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"], [43831, "SRR6152628", "SRX3264614", "SRS2576840", "SRP119651", "PRJNA413770", "Cross generational effects of a marginal 1 C metabolite deficiency", "PRJNA413770", "Other", "The effect of a deficiency in one carbon 1 C metabolites in the adult generation on DNA methylation and gene expression in adult offspring livers was investigated through the use of high throughput RNA sequencing and reduced representation bisulfite sequencing.Individuals in the F0 generation were either fed a normal diet  or one marginally deficient in 1 C metabolites folate  vitamins B12 and B6  methionine and choline from larval stages and mated within each diet group. The resulting offspring were fed the control diet throughout their lives and Livers of adult offspring were harvested post 113 dpf and RNA and DNA extracted for RNA sequencing and RRBS.", null, null, null, "F1 livers low 1C 4", "rna low 1C 4", null, "strain:AB strain|isolate:Male fish tank 10|age:113 dpf|dev stage:adult|sex:male|tissue:liver|biomaterial provider:NIFES Kaja Helvik Skjaerven|birth location:NIFES|breeding method:Ref: Skjaerven  K. H. et al. Sci Rep 6  34535  doi:10.1038/srep34535 2016|collected by:Kaja Helvik Skjaerven and Anne Catrin Adam|collection date:2013 11 12|health state:Good|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "F1 livers low 1C 4", "rna low 1C 4", "rna low 1C 4", "Directional sequencing of mRNA fragments", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PolyA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP119651", null, null, null, null, 1336779650.0, 26735593.0, "RZY 322.fastq", "0:50", "A:310390083;C:329159312;G:327197131;T:369319794;N:713330", 50, null, null, null, 310390083, 329159312, 327197131, 369319794, 713330, "SRX3264614", "SRS2576840", "SRA617983", "Nord University|FBA", "Nord University", 1, 0.91491, null, 0.10744, null, 0.81773, null, 0.57357, null, 50, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2017-10-10", "Adult", "Adult", "Liver", "Liver and Biliary System"]], "truncated": false, "filtered_table_rows_count": 17, "expanded_columns": [], "expandable_columns": [], "columns": ["rowid", "run.accession", "experiment.accession", "sample.accession", "study.accession", "bioproject", "study.title", "study.alias", "study.type", "study.abstract", "study.attributes", "study.PMIDs", "sample.description", "sample.title", "sample.alias", "sample.centername", "sample.attributes", "GEOsample.title", "GEOsample.dataprocessing", "GEOsample.source", "GEOsample.treatmentprotocol", "GEOsample.extractprotocol", "GEOsample.growthprotocol", "GEOsample.characteristics", "GEOsample.accession", "experiment.title", "experiment.alias", "experiment.library_name", "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", 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