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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B16", "GSM4666895", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B16", "GSM4666895", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B16", "GSM4666895", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666895", "GSM4666895: adult whole brain B16; Danio rerio; Bisulfite Seq", "GSM4666895", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666895", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P6-2_S20_L003_R1_001.fastq.gz P6-2_S20_L003_R2_001.fastq.gz", "fastq fastq", 740955391.0, 2456791.0, "GSM4666895 r3", "0:150.86 1:150.73", "A:275837928;C:95675216;G:123037692;T:246311396;N:93159", 150, 150, null, null, 275837928, 95675216, 123037692, 246311396, 93159, "SRX8707749", "SRS6984336", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00014, 0.0003, 0.00013, 0.00029, 1.0, 1.0, null, null, 151, 150, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60268, "SRR12194974", "SRX8707749", "SRS6984336", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B16", "GSM4666895", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666895", "GSM4666895: adult whole brain B16; Danio rerio; Bisulfite Seq", "GSM4666895", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666895", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P6-2_S20_L004_R1_001.fastq.gz P6-2_S20_L004_R2_001.fastq.gz", "fastq fastq", 776243814.0, 2573716.0, "GSM4666895 r4", "0:150.86 1:150.74", "A:286702347;C:99810593;G:135079256;T:254574374;N:77244", 150, 150, null, null, 286702347, 99810593, 135079256, 254574374, 77244, "SRX8707749", "SRS6984336", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00029, 0.00021, 0.00026, 0.0002, 0.99997, 1.0, 0.0, null, 151, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60269, "SRR12194967", "SRX8707748", "SRS6984335", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B13", "GSM4666894", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B13", "GSM4666894", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B13", "GSM4666894", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B13", "GSM4666894", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B12", "GSM4666893", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B12", "GSM4666893", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666893", "GSM4666893: adult whole brain B12; Danio rerio; Bisulfite Seq", "GSM4666893", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666893", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P5-4_S16_L002_R2_001.fastq.gz P5-4_S16_L002_R1_001.fastq.gz", "fastq fastq", 728622859.0, 2415726.0, "GSM4666893 r2", "0:150.89 1:150.73", "A:265918573;C:94480694;G:135330434;T:232783961;N:109197", 150, 150, null, null, 265918573, 94480694, 135330434, 232783961, 109197, "SRX8707747", "SRS6984334", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00017, 0.00022, 0.00014, 0.00021, 0.99995, 1.0, 0.0, null, 151, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60275, "SRR12194965", "SRX8707747", "SRS6984334", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B12", "GSM4666893", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666893", "GSM4666893: adult whole brain B12; Danio rerio; Bisulfite Seq", "GSM4666893", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666893", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P5-4_S16_L003_R1_001.fastq.gz P5-4_S16_L003_R2_001.fastq.gz", "fastq fastq", 676046027.0, 2241356.0, "GSM4666893 r3", "0:150.89 1:150.74", "A:249345303;C:88016423;G:119300461;T:219299203;N:84637", 150, 150, null, null, 249345303, 88016423, 119300461, 219299203, 84637, "SRX8707747", "SRS6984334", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00022, 0.00024, 0.00021, 0.00023, 1.0, 1.0, null, null, 151, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60276, "SRR12194966", "SRX8707747", "SRS6984334", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B12", "GSM4666893", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B11", "GSM4666892", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B11", "GSM4666892", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B11", "GSM4666892", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B11", "GSM4666892", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B10", "GSM4666891", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666891", "GSM4666891: adult whole brain B10; Danio rerio; Bisulfite Seq", "GSM4666891", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666891", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P5-2_S14_L001_R1_001.fastq.gz P5-2_S14_L001_R2_001.fastq.gz", "fastq fastq", 612289518.0, 2030276.0, "GSM4666891 r1", "0:150.86 1:150.72", "A:225461166;C:80840857;G:104624118;T:201255710;N:107667", 150, 150, null, null, 225461166, 80840857, 104624118, 201255710, 107667, "SRX8707745", "SRS6984332", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00017, 0.00021, 0.00014, 0.00019, 0.99995, 0.99997, 0.5, 1.0, 151, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60282, "SRR12194956", "SRX8707745", "SRS6984332", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B10", "GSM4666891", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666891", "GSM4666891: adult whole brain B10; Danio rerio; Bisulfite Seq", "GSM4666891", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666891", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P5-2_S14_L002_R1_001.fastq.gz P5-2_S14_L002_R2_001.fastq.gz", "fastq fastq", 634607694.0, 2104258.0, "GSM4666891 r2", "0:150.86 1:150.73", "A:231299105;C:83482957;G:114131270;T:205602870;N:91492", 150, 150, null, null, 231299105, 83482957, 114131270, 205602870, 91492, "SRX8707745", "SRS6984332", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00028, 0.00014, 0.00027, 0.00013, 1.0, 1.0, null, null, 150, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60283, "SRR12194957", "SRX8707745", "SRS6984332", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B10", "GSM4666891", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B10", "GSM4666891", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B9", "GSM4666890", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B9", "GSM4666890", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B9", "GSM4666890", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666890", "GSM4666890: adult whole brain B9; Danio rerio; Bisulfite Seq", "GSM4666890", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666890", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P5-1_S13_L003_R1_001.fastq.gz P5-1_S13_L003_R2_001.fastq.gz", "fastq fastq", 839686349.0, 2783900.0, "GSM4666890 r3", "0:150.89 1:150.73", "A:303601399;C:108395743;G:153892840;T:273690404;N:105963", 150, 150, null, null, 303601399, 108395743, 153892840, 273690404, 105963, "SRX8707744", "SRS6984331", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00012, 0.00018, 0.00011, 0.00017, 1.0, 1.0, null, null, 151, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60288, "SRR12194954", "SRX8707744", "SRS6984331", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B9", "GSM4666890", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666890", "GSM4666890: adult whole brain B9; Danio rerio; Bisulfite Seq", "GSM4666890", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666890", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "PAIRED", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P5-1_S13_L004_R1_001.fastq.gz P5-1_S13_L004_R2_001.fastq.gz", "fastq fastq", 872412889.0, 2892296.0, "GSM4666890 r4", "0:150.89 1:150.74", "A:312195512;C:111967601;G:168316892;T:279843866;N:89018", 150, 150, null, null, 312195512, 111967601, 168316892, 279843866, 89018, "SRX8707744", "SRS6984331", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 2, 0.00021, 0.00034, 0.00018, 0.00033, 0.99995, 1.0, 0.0, null, 151, 151, "T", "T", "mates < 9% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60289, "SRR12194947", "SRX8707743", "SRS6984330", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B8", "GSM4666889", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666889", "GSM4666889: adult whole brain B8; Danio rerio; Bisulfite Seq", "GSM4666889", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666889", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-6_S21_L001_R1_001.fastq.gz", "fastq", 417626188.0, 2629267.0, "GSM4666889 r1", "0:158.84 1:0", "A:125329533;C:27957391;G:102415231;T:161892676;N:31357", 158, 0, null, null, 125329533, 27957391, 102415231, 161892676, 31357, "SRX8707743", "SRS6984330", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00015, null, 0.99997, null, 1.0, null, 158, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60290, "SRR12194948", "SRX8707743", "SRS6984330", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B8", "GSM4666889", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666889", "GSM4666889: adult whole brain B8; Danio rerio; Bisulfite Seq", "GSM4666889", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666889", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-6_S21_L002_R1_001.fastq.gz", "fastq", 415442115.0, 2616087.0, "GSM4666889 r2", "0:158.80 1:0", "A:122606292;C:27299099;G:106611577;T:158894919;N:30228", 158, 0, null, null, 122606292, 27299099, 106611577, 158894919, 30228, "SRX8707743", "SRS6984330", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 8e-05, null, 7e-05, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60291, "SRR12194949", "SRX8707743", "SRS6984330", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B8", "GSM4666889", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666889", "GSM4666889: adult whole brain B8; Danio rerio; Bisulfite Seq", "GSM4666889", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666889", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-6_S21_L003_R1_001.fastq.gz", "fastq", 406171247.0, 2557027.0, "GSM4666889 r3", "0:158.85 1:0", "A:122039816;C:27029008;G:99485556;T:157596787;N:20080", 158, 0, null, null, 122039816, 27029008, 99485556, 157596787, 20080, "SRX8707743", "SRS6984330", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00019, null, 0.00015, null, 0.99993, null, 0.5, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60292, "SRR12194950", "SRX8707743", "SRS6984330", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B8", "GSM4666889", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666889", "GSM4666889: adult whole brain B8; Danio rerio; Bisulfite Seq", "GSM4666889", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666889", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-6_S21_L004_R1_001.fastq.gz", "fastq", 403012952.0, 2537671.0, "GSM4666889 r4", "0:158.81 1:0", "A:119320681;C:26563373;G:102739543;T:154371029;N:18326", 158, 0, null, null, 119320681, 26563373, 102739543, 154371029, 18326, "SRX8707743", "SRS6984330", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00015, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60293, "SRR12194943", "SRX8707742", "SRS6984329", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B7", "GSM4666888", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B7", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666888", "GSM4666888: adult whole brain B7; Danio rerio; Bisulfite Seq", "GSM4666888", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666888", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-5_S20_L001_R1_001.fastq.gz", "fastq", 453584090.0, 2854818.0, "GSM4666888 r1", "0:158.88 1:0", "A:134523251;C:27892399;G:113216536;T:177918076;N:33828", 158, 0, null, null, 134523251, 27892399, 113216536, 177918076, 33828, "SRX8707742", "SRS6984329", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00014, null, 0.00012, null, 0.99997, null, 0.0, null, 156, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60294, "SRR12194944", "SRX8707742", "SRS6984329", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B7", "GSM4666888", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B7", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666888", "GSM4666888: adult whole brain B7; Danio rerio; Bisulfite Seq", "GSM4666888", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666888", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-5_S20_L002_R1_001.fastq.gz", "fastq", 448807947.0, 2824868.0, "GSM4666888 r2", "0:158.88 1:0", "A:130879549;C:27153648;G:117060555;T:173683407;N:30788", 158, 0, null, null, 130879549, 27153648, 117060555, 173683407, 30788, "SRX8707742", "SRS6984329", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00024, null, 0.00021, null, 0.99995, null, 0.5, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60295, "SRR12194945", "SRX8707742", "SRS6984329", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B7", "GSM4666888", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B7", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666888", "GSM4666888: adult whole brain B7; Danio rerio; Bisulfite Seq", "GSM4666888", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666888", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-5_S20_L003_R1_001.fastq.gz", "fastq", 441209232.0, 2776904.0, "GSM4666888 r3", "0:158.89 1:0", "A:130998380;C:26957645;G:109964778;T:173264823;N:23606", 158, 0, null, null, 130998380, 26957645, 109964778, 173264823, 23606, "SRX8707742", "SRS6984329", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 0.00011, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60296, "SRR12194946", "SRX8707742", "SRS6984329", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B7", "GSM4666888", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B7", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666888", "GSM4666888: adult whole brain B7; Danio rerio; Bisulfite Seq", "GSM4666888", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666888", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-5_S20_L004_R1_001.fastq.gz", "fastq", 436356072.0, 2746435.0, "GSM4666888 r4", "0:158.88 1:0", "A:127599502;C:26472498;G:112912306;T:169350791;N:20975", 158, 0, null, null, 127599502, 26472498, 112912306, 169350791, 20975, "SRX8707742", "SRS6984329", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00019, null, 0.00018, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60297, "SRR12194939", "SRX8707741", "SRS6984328", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B6", "GSM4666887", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B6", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666887", "GSM4666887: adult whole brain B6; Danio rerio; Bisulfite Seq", "GSM4666887", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666887", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-4_S19_L001_R1_001.fastq.gz", "fastq", 459581878.0, 2892480.0, "GSM4666887 r1", "0:158.89 1:0", "A:136418528;C:26773883;G:120246272;T:176109118;N:34077", 158, 0, null, null, 136418528, 26773883, 120246272, 176109118, 34077, "SRX8707741", "SRS6984328", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00018, null, 0.00016, null, 0.99997, null, 0.0, null, 158, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60298, "SRR12194940", "SRX8707741", "SRS6984328", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B6", "GSM4666887", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B6", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666887", "GSM4666887: adult whole brain B6; Danio rerio; Bisulfite Seq", "GSM4666887", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666887", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-4_S19_L002_R1_001.fastq.gz", "fastq", 454682038.0, 2861730.0, "GSM4666887 r2", "0:158.88 1:0", "A:132773130;C:26007993;G:124098378;T:171770508;N:32029", 158, 0, null, null, 132773130, 26007993, 124098378, 171770508, 32029, "SRX8707741", "SRS6984328", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00019, null, 0.00015, null, 0.99993, null, 0.33333, null, 151, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60299, "SRR12194941", "SRX8707741", "SRS6984328", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B6", "GSM4666887", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B6", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666887", "GSM4666887: adult whole brain B6; Danio rerio; Bisulfite Seq", "GSM4666887", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666887", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-4_S19_L003_R1_001.fastq.gz", "fastq", 441949571.0, 2781476.0, "GSM4666887 r3", "0:158.89 1:0", "A:131402848;C:25700491;G:115149715;T:169675287;N:21230", 158, 0, null, null, 131402848, 25700491, 115149715, 169675287, 21230, "SRX8707741", "SRS6984328", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 6e-05, null, 5e-05, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60300, "SRR12194942", "SRX8707741", "SRS6984328", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B6", "GSM4666887", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B6", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666887", "GSM4666887: adult whole brain B6; Danio rerio; Bisulfite Seq", "GSM4666887", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666887", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-4_S19_L004_R1_001.fastq.gz", "fastq", 436607676.0, 2747936.0, "GSM4666887 r4", "0:158.89 1:0", "A:127862911;C:25195779;G:117992550;T:165538093;N:18343", 158, 0, null, null, 127862911, 25195779, 117992550, 165538093, 18343, "SRX8707741", "SRS6984328", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00015, null, 0.00013, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60301, "SRR12194935", "SRX8707740", "SRS6984327", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B5", "GSM4666886", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B5", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666886", "GSM4666886: adult whole brain B5; Danio rerio; Bisulfite Seq", "GSM4666886", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666886", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-3_S18_L001_R1_001.fastq.gz", "fastq", 302829362.0, 1906514.0, "GSM4666886 r1", "0:158.84 1:0", "A:89694994;C:19460989;G:76993935;T:116656111;N:23333", 158, 0, null, null, 89694994, 19460989, 76993935, 116656111, 23333, "SRX8707740", "SRS6984327", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00022, null, 0.00021, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60302, "SRR12194936", "SRX8707740", "SRS6984327", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B5", "GSM4666886", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B5", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666886", "GSM4666886: adult whole brain B5; Danio rerio; Bisulfite Seq", "GSM4666886", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666886", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-3_S18_L002_R1_001.fastq.gz", "fastq", 299893208.0, 1888319.0, "GSM4666886 r2", "0:158.81 1:0", "A:87157111;C:18870988;G:80083677;T:113760899;N:20533", 158, 0, null, null, 87157111, 18870988, 80083677, 113760899, 20533, "SRX8707740", "SRS6984327", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0003, null, 0.00028, null, 0.99997, null, 1.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60303, "SRR12194937", "SRX8707740", "SRS6984327", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B5", "GSM4666886", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B5", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666886", "GSM4666886: adult whole brain B5; Danio rerio; Bisulfite Seq", "GSM4666886", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666886", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-3_S18_L003_R1_001.fastq.gz", "fastq", 294808074.0, 1855987.0, "GSM4666886 r3", "0:158.84 1:0", "A:87400489;C:18832328;G:74835505;T:113724113;N:15639", 158, 0, null, null, 87400489, 18832328, 74835505, 113724113, 15639, "SRX8707740", "SRS6984327", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00013, null, 0.00012, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60304, "SRR12194938", "SRX8707740", "SRS6984327", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B5", "GSM4666886", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:male", "adult whole brain B5", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:M", "GSM4666886", "GSM4666886: adult whole brain B5; Danio rerio; Bisulfite Seq", "GSM4666886", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666886", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-3_S18_L004_R1_001.fastq.gz", "fastq", 290930278.0, 1831782.0, "GSM4666886 r4", "0:158.82 1:0", "A:84789368;C:18396243;G:77012622;T:110719520;N:12525", 158, 0, null, null, 84789368, 18396243, 77012622, 110719520, 12525, "SRX8707740", "SRS6984327", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00024, null, 0.0002, null, 0.99995, null, 0.33333, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60305, "SRR12194931", "SRX8707739", "SRS6984326", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B4", "GSM4666885", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B4", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666885", "GSM4666885: adult whole brain B4; Danio rerio; Bisulfite Seq", "GSM4666885", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666885", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-2_S17_L001_R1_001.fastq.gz", "fastq", 375215607.0, 2361864.0, "GSM4666885 r1", "0:158.86 1:0", "A:112024323;C:24781235;G:92436169;T:145945302;N:28578", 158, 0, null, null, 112024323, 24781235, 92436169, 145945302, 28578, "SRX8707739", "SRS6984326", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00013, null, 0.0001, null, 0.99995, null, 0.5, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60306, "SRR12194932", "SRX8707739", "SRS6984326", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B4", "GSM4666885", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B4", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666885", "GSM4666885: adult whole brain B4; Danio rerio; Bisulfite Seq", "GSM4666885", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666885", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-2_S17_L002_R1_001.fastq.gz", "fastq", 370428283.0, 2331824.0, "GSM4666885 r2", "0:158.86 1:0", "A:108805681;C:24009319;G:95364944;T:142223301;N:25038", 158, 0, null, null, 108805681, 24009319, 95364944, 142223301, 25038, "SRX8707739", "SRS6984326", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00015, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60307, "SRR12194933", "SRX8707739", "SRS6984326", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B4", "GSM4666885", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B4", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666885", "GSM4666885: adult whole brain B4; Danio rerio; Bisulfite Seq", "GSM4666885", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666885", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-2_S17_L003_R1_001.fastq.gz", "fastq", 364134844.0, 2292107.0, "GSM4666885 r3", "0:158.86 1:0", "A:108842586;C:23917958;G:89584932;T:141770665;N:18703", 158, 0, null, null, 108842586, 23917958, 89584932, 141770665, 18703, "SRX8707739", "SRS6984326", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00014, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60308, "SRR12194934", "SRX8707739", "SRS6984326", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B4", "GSM4666885", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B4", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666885", "GSM4666885: adult whole brain B4; Danio rerio; Bisulfite Seq", "GSM4666885", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666885", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-2_S17_L004_R1_001.fastq.gz", "fastq", 359261298.0, 2261503.0, "GSM4666885 r4", "0:158.86 1:0", "A:105806137;C:23327442;G:91805038;T:138304777;N:17904", 158, 0, null, null, 105806137, 23327442, 91805038, 138304777, 17904, "SRX8707739", "SRS6984326", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00021, null, 0.00019, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60309, "SRR12194927", "SRX8707738", "SRS6984325", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B3", "GSM4666884", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B3", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666884", "GSM4666884: adult whole brain B3; Danio rerio; Bisulfite Seq", "GSM4666884", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666884", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-1_S16_L001_R1_001.fastq.gz", "fastq", 519733754.0, 3271474.0, "GSM4666884 r1", "0:158.87 1:0", "A:155037427;C:33300575;G:128899352;T:202457471;N:38929", 158, 0, null, null, 155037427, 33300575, 128899352, 202457471, 38929, "SRX8707738", "SRS6984325", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00012, null, 0.99995, null, 0.33333, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60310, "SRR12194928", "SRX8707738", "SRS6984325", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B3", "GSM4666884", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B3", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666884", "GSM4666884: adult whole brain B3; Danio rerio; Bisulfite Seq", "GSM4666884", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666884", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-1_S16_L002_R1_001.fastq.gz", "fastq", 514851816.0, 3240814.0, "GSM4666884 r2", "0:158.86 1:0", "A:151014256;C:32338266;G:133641006;T:197823476;N:34812", 158, 0, null, null, 151014256, 32338266, 133641006, 197823476, 34812, "SRX8707738", "SRS6984325", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00015, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60311, "SRR12194929", "SRX8707738", "SRS6984325", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B3", "GSM4666884", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B3", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666884", "GSM4666884: adult whole brain B3; Danio rerio; Bisulfite Seq", "GSM4666884", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666884", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-1_S16_L003_R1_001.fastq.gz", "fastq", 505305764.0, 3180622.0, "GSM4666884 r3", "0:158.87 1:0", "A:150924986;C:32216951;G:125139306;T:196997199;N:27322", 158, 0, null, null, 150924986, 32216951, 125139306, 196997199, 27322, "SRX8707738", "SRS6984325", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00019, null, 0.00017, null, 0.99997, null, 1.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60312, "SRR12194930", "SRX8707738", "SRS6984325", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B3", "GSM4666884", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B3", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666884", "GSM4666884: adult whole brain B3; Danio rerio; Bisulfite Seq", "GSM4666884", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666884", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P4-1_S16_L004_R1_001.fastq.gz", "fastq", 500262064.0, 3148948.0, "GSM4666884 r4", "0:158.87 1:0", "A:147195579;C:31493012;G:128890060;T:192659641;N:23772", 158, 0, null, null, 147195579, 31493012, 128890060, 192659641, 23772, "SRX8707738", "SRS6984325", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0001, null, 9e-05, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60313, "SRR12194923", "SRX8707737", "SRS6984324", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B2", "GSM4666883", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B2", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666883", "GSM4666883: adult whole brain B2; Danio rerio; Bisulfite Seq", "GSM4666883", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666883", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-6_S15_L001_R1_001.fastq.gz", "fastq", 517956360.0, 3260092.0, "GSM4666883 r1", "0:158.88 1:0", "A:150448706;C:32858153;G:137976678;T:196634454;N:38369", 158, 0, null, null, 150448706, 32858153, 137976678, 196634454, 38369, "SRX8707737", "SRS6984324", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00015, null, 0.00014, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60314, "SRR12194924", "SRX8707737", "SRS6984324", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B2", "GSM4666883", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B2", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666883", "GSM4666883: adult whole brain B2; Danio rerio; Bisulfite Seq", "GSM4666883", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666883", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-6_S15_L002_R1_001.fastq.gz", "fastq", 509673976.0, 3208134.0, "GSM4666883 r2", "0:158.87 1:0", "A:145524541;C:31734648;G:141519088;T:190860914;N:34785", 158, 0, null, null, 145524541, 31734648, 141519088, 190860914, 34785, "SRX8707737", "SRS6984324", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00019, null, 0.00017, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60315, "SRR12194925", "SRX8707737", "SRS6984324", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B2", "GSM4666883", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B2", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666883", "GSM4666883: adult whole brain B2; Danio rerio; Bisulfite Seq", "GSM4666883", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666883", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-6_S15_L003_R1_001.fastq.gz", "fastq", 503140482.0, 3166780.0, "GSM4666883 r3", "0:158.88 1:0", "A:146286862;C:31831570;G:133486316;T:191509945;N:25789", 158, 0, null, null, 146286862, 31831570, 133486316, 191509945, 25789, "SRX8707737", "SRS6984324", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00015, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60316, "SRR12194926", "SRX8707737", "SRS6984324", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B2", "GSM4666883", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B2", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666883", "GSM4666883: adult whole brain B2; Danio rerio; Bisulfite Seq", "GSM4666883", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666883", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-6_S15_L004_R1_001.fastq.gz", "fastq", 493961726.0, 3109154.0, "GSM4666883 r4", "0:158.87 1:0", "A:141543659;C:30970461;G:135682865;T:185742190;N:22551", 158, 0, null, null, 141543659, 30970461, 135682865, 185742190, 22551, "SRX8707737", "SRS6984324", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00018, null, 0.00017, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60317, "SRR12194919", "SRX8707736", "SRS6984322", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B1", "GSM4666882", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B1", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666882", "GSM4666882: adult whole brain B1; Danio rerio; Bisulfite Seq", "GSM4666882", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666882", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-5_S14_L001_R1_001.fastq.gz", "fastq", 644565105.0, 4057680.0, "GSM4666882 r1", "0:158.85 1:0", "A:189377017;C:44153618;G:160972875;T:250013345;N:48250", 158, 0, null, null, 189377017, 44153618, 160972875, 250013345, 48250, "SRX8707736", "SRS6984322", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00011, null, 0.0001, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60318, "SRR12194920", "SRX8707736", "SRS6984322", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B1", "GSM4666882", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B1", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666882", "GSM4666882: adult whole brain B1; Danio rerio; Bisulfite Seq", "GSM4666882", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666882", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-5_S14_L002_R1_001.fastq.gz", "fastq", 638463567.0, 4019714.0, "GSM4666882 r2", "0:158.83 1:0", "A:184509132;C:42923906;G:166717116;T:244267791;N:45622", 158, 0, null, null, 184509132, 42923906, 166717116, 244267791, 45622, "SRX8707736", "SRS6984322", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00014, null, 0.00012, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60319, "SRR12194921", "SRX8707736", "SRS6984322", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B1", "GSM4666882", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B1", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666882", "GSM4666882: adult whole brain B1; Danio rerio; Bisulfite Seq", "GSM4666882", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666882", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-5_S14_L003_R1_001.fastq.gz", "fastq", 626116922.0, 3941475.0, "GSM4666882 r3", "0:158.85 1:0", "A:184234800;C:42706665;G:156104866;T:243035941;N:34650", 158, 0, null, null, 184234800, 42706665, 156104866, 243035941, 34650, "SRX8707736", "SRS6984322", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0002, null, 0.00018, null, 0.99997, null, 1.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60320, "SRR12194922", "SRX8707736", "SRS6984322", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain B1", "GSM4666882", null, "tissue:adult whole brain|strain:AB line|generation:F1|Sex:female", "adult whole brain B1", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F1|Sex:F", "GSM4666882", "GSM4666882: adult whole brain B1; Danio rerio; Bisulfite Seq", "GSM4666882", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666882", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P3-5_S14_L004_R1_001.fastq.gz", "fastq", 619633878.0, 3900997.0, "GSM4666882 r4", "0:158.84 1:0", "A:179600621;C:41804166;G:160698591;T:237500321;N:30179", 158, 0, null, null, 179600621, 41804166, 160698591, 237500321, 30179, "SRX8707736", "SRS6984322", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00012, null, 0.99993, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60321, "SRR12194915", "SRX8707735", "SRS6984323", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C16", "GSM4666881", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666881", "GSM4666881: adult whole brain C16; Danio rerio; Bisulfite Seq", "GSM4666881", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666881", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-6_S33_L001_R1_001.fastq.gz", "fastq", 293820485.0, 1849388.0, "GSM4666881 r1", "0:158.87 1:0", "A:86678903;C:19266888;G:74424764;T:113427237;N:22693", 158, 0, null, null, 86678903, 19266888, 74424764, 113427237, 22693, "SRX8707735", "SRS6984323", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00015, null, 0.00012, null, 0.99995, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60322, "SRR12194916", "SRX8707735", "SRS6984323", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C16", "GSM4666881", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666881", "GSM4666881: adult whole brain C16; Danio rerio; Bisulfite Seq", "GSM4666881", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666881", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-6_S33_L002_R1_001.fastq.gz", "fastq", 290054720.0, 1825735.0, "GSM4666881 r2", "0:158.87 1:0", "A:84128360;C:18660250;G:76750691;T:110494636;N:20783", 158, 0, null, null, 84128360, 18660250, 76750691, 110494636, 20783, "SRX8707735", "SRS6984323", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00015, null, 0.99997, null, 1.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60323, "SRR12194917", "SRX8707735", "SRS6984323", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C16", "GSM4666881", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666881", "GSM4666881: adult whole brain C16; Danio rerio; Bisulfite Seq", "GSM4666881", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666881", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-6_S33_L003_R1_001.fastq.gz", "fastq", 285222008.0, 1795272.0, "GSM4666881 r3", "0:158.87 1:0", "A:84271091;C:18587085;G:72126787;T:110222855;N:14190", 158, 0, null, null, 84271091, 18587085, 72126787, 110222855, 14190, "SRX8707735", "SRS6984323", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00014, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60324, "SRR12194918", "SRX8707735", "SRS6984323", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C16", "GSM4666881", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C16", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666881", "GSM4666881: adult whole brain C16; Danio rerio; Bisulfite Seq", "GSM4666881", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666881", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-6_S33_L004_R1_001.fastq.gz", "fastq", 281043981.0, 1769013.0, "GSM4666881 r4", "0:158.87 1:0", "A:81695659;C:18172870;G:73847131;T:107315179;N:13142", 158, 0, null, null, 81695659, 18172870, 73847131, 107315179, 13142, "SRX8707735", "SRS6984323", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00021, null, 0.00018, null, 0.99995, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60325, "SRR12194911", "SRX8707734", "SRS6984321", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C15", "GSM4666880", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C15", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666880", "GSM4666880: adult whole brain C15; Danio rerio; Bisulfite Seq", "GSM4666880", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666880", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-5_S32_L001_R1_001.fastq.gz", "fastq", 407927114.0, 2567613.0, "GSM4666880 r1", "0:158.87 1:0", "A:121216665;C:26341281;G:102882256;T:157456714;N:30198", 158, 0, null, null, 121216665, 26341281, 102882256, 157456714, 30198, "SRX8707734", "SRS6984321", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0002, null, 0.00018, null, 0.99997, null, 1.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60326, "SRR12194912", "SRX8707734", "SRS6984321", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C15", "GSM4666880", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C15", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666880", "GSM4666880: adult whole brain C15; Danio rerio; Bisulfite Seq", "GSM4666880", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666880", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-5_S32_L002_R1_001.fastq.gz", "fastq", 402652470.0, 2534477.0, "GSM4666880 r2", "0:158.87 1:0", "A:117634138;C:25467360;G:106127698;T:153394332;N:28942", 158, 0, null, null, 117634138, 25467360, 106127698, 153394332, 28942, "SRX8707734", "SRS6984321", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00014, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60327, "SRR12194913", "SRX8707734", "SRS6984321", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C15", "GSM4666880", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C15", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666880", "GSM4666880: adult whole brain C15; Danio rerio; Bisulfite Seq", "GSM4666880", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666880", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-5_S32_L003_R1_001.fastq.gz", "fastq", 397486480.0, 2501849.0, "GSM4666880 r3", "0:158.88 1:0", "A:118276499;C:25546701;G:100107393;T:153534109;N:21778", 158, 0, null, null, 118276499, 25546701, 100107393, 153534109, 21778, "SRX8707734", "SRS6984321", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00014, null, 0.00013, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60328, "SRR12194914", "SRX8707734", "SRS6984321", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C15", "GSM4666880", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C15", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666880", "GSM4666880: adult whole brain C15; Danio rerio; Bisulfite Seq", "GSM4666880", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666880", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-5_S32_L004_R1_001.fastq.gz", "fastq", 392040128.0, 2467658.0, "GSM4666880 r4", "0:158.87 1:0", "A:114883310;C:24890978;G:102581367;T:149666668;N:17805", 158, 0, null, null, 114883310, 24890978, 102581367, 149666668, 17805, "SRX8707734", "SRS6984321", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 0.00011, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60329, "SRR12194907", "SRX8707733", "SRS6984320", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C14", "GSM4666879", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C14", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666879", "GSM4666879: adult whole brain C14; Danio rerio; Bisulfite Seq", "GSM4666879", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666879", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-4_S31_L001_R1_001.fastq.gz", "fastq", 353064855.0, 2222156.0, "GSM4666879 r1", "0:158.88 1:0", "A:104513530;C:22147087;G:91009846;T:135368042;N:26350", 158, 0, null, null, 104513530, 22147087, 91009846, 135368042, 26350, "SRX8707733", "SRS6984320", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00029, null, 0.00025, null, 0.99995, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60330, "SRR12194908", "SRX8707733", "SRS6984320", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C14", "GSM4666879", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C14", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666879", "GSM4666879: adult whole brain C14; Danio rerio; Bisulfite Seq", "GSM4666879", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666879", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-4_S31_L002_R1_001.fastq.gz", "fastq", 351276576.0, 2210926.0, "GSM4666879 r2", "0:158.88 1:0", "A:102282891;C:21642108;G:94394894;T:132930782;N:25901", 158, 0, null, null, 102282891, 21642108, 94394894, 132930782, 25901, "SRX8707733", "SRS6984320", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0002, null, 0.00015, null, 0.99993, null, 0.25, null, 155, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60331, "SRR12194909", "SRX8707733", "SRS6984320", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C14", "GSM4666879", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C14", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666879", "GSM4666879: adult whole brain C14; Danio rerio; Bisulfite Seq", "GSM4666879", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666879", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-4_S31_L003_R1_001.fastq.gz", "fastq", 343212925.0, 2160132.0, "GSM4666879 r3", "0:158.89 1:0", "A:101732957;C:21417428;G:88158805;T:131886359;N:17376", 158, 0, null, null, 101732957, 21417428, 88158805, 131886359, 17376, "SRX8707733", "SRS6984320", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00025, null, 0.00023, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60332, "SRR12194910", "SRX8707733", "SRS6984320", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C14", "GSM4666879", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C14", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666879", "GSM4666879: adult whole brain C14; Danio rerio; Bisulfite Seq", "GSM4666879", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666879", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-4_S31_L004_R1_001.fastq.gz", "fastq", 341256657.0, 2147834.0, "GSM4666879 r4", "0:158.88 1:0", "A:99646106;C:21129955;G:90846599;T:129617419;N:16578", 158, 0, null, null, 99646106, 21129955, 90846599, 129617419, 16578, "SRX8707733", "SRS6984320", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00014, null, 0.00013, null, 1.0, null, null, null, 158, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60333, "SRR12194903", "SRX8707732", "SRS6984319", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C13", "GSM4666878", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666878", "GSM4666878: adult whole brain C13; Danio rerio; Bisulfite Seq", "GSM4666878", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666878", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-3_S30_L001_R1_001.fastq.gz", "fastq", 485597617.0, 3056533.0, "GSM4666878 r1", "0:158.87 1:0", "A:143980404;C:30580061;G:119295036;T:191704763;N:37353", 158, 0, null, null, 143980404, 30580061, 119295036, 191704763, 37353, "SRX8707732", "SRS6984319", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0002, null, 0.00018, null, 0.99995, null, 0.5, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60334, "SRR12194904", "SRX8707732", "SRS6984319", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C13", "GSM4666878", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666878", "GSM4666878: adult whole brain C13; Danio rerio; Bisulfite Seq", "GSM4666878", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666878", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-3_S30_L002_R1_001.fastq.gz", "fastq", 469628995.0, 2956090.0, "GSM4666878 r2", "0:158.87 1:0", "A:137163280;C:28944601;G:120359197;T:183126393;N:35524", 158, 0, null, null, 137163280, 28944601, 120359197, 183126393, 35524, "SRX8707732", "SRS6984319", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00018, null, 0.00017, null, 1.0, null, null, null, 157, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60335, "SRR12194905", "SRX8707732", "SRS6984319", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C13", "GSM4666878", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666878", "GSM4666878: adult whole brain C13; Danio rerio; Bisulfite Seq", "GSM4666878", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666878", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-3_S30_L003_R1_001.fastq.gz", "fastq", 472950780.0, 2976902.0, "GSM4666878 r3", "0:158.87 1:0", "A:140414817;C:29605788;G:116008980;T:186896397;N:24798", 158, 0, null, null, 140414817, 29605788, 116008980, 186896397, 24798, "SRX8707732", "SRS6984319", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00022, null, 0.0002, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60336, "SRR12194906", "SRX8707732", "SRS6984319", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C13", "GSM4666878", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C13", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666878", "GSM4666878: adult whole brain C13; Danio rerio; Bisulfite Seq", "GSM4666878", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666878", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-3_S30_L004_R1_001.fastq.gz", "fastq", 456803955.0, 2875316.0, "GSM4666878 r4", "0:158.87 1:0", "A:133760578;C:28259216;G:116392120;T:178370154;N:21887", 158, 0, null, null, 133760578, 28259216, 116392120, 178370154, 21887, "SRX8707732", "SRS6984319", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00016, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60337, "SRR12194899", "SRX8707731", "SRS6984318", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C12", "GSM4666877", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666877", "GSM4666877: adult whole brain C12; Danio rerio; Bisulfite Seq", "GSM4666877", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666877", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-2_S29_L001_R1_001.fastq.gz", "fastq", 445534772.0, 2804465.0, "GSM4666877 r1", "0:158.87 1:0", "A:133612781;C:27522254;G:109353006;T:175012186;N:34545", 158, 0, null, null, 133612781, 27522254, 109353006, 175012186, 34545, "SRX8707731", "SRS6984318", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00019, null, 0.00016, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60338, "SRR12194900", "SRX8707731", "SRS6984318", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C12", "GSM4666877", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666877", "GSM4666877: adult whole brain C12; Danio rerio; Bisulfite Seq", "GSM4666877", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666877", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-2_S29_L002_R1_001.fastq.gz", "fastq", 441745440.0, 2780874.0, "GSM4666877 r2", "0:158.85 1:0", "A:130252837;C:26720888;G:113550957;T:171188873;N:31885", 158, 0, null, null, 130252837, 26720888, 113550957, 171188873, 31885, "SRX8707731", "SRS6984318", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 8e-05, null, 0.99995, null, 0.75, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60339, "SRR12194901", "SRX8707731", "SRS6984318", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C12", "GSM4666877", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666877", "GSM4666877: adult whole brain C12; Danio rerio; Bisulfite Seq", "GSM4666877", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666877", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-2_S29_L003_R1_001.fastq.gz", "fastq", 433881978.0, 2731058.0, "GSM4666877 r3", "0:158.87 1:0", "A:130303289;C:26665502;G:106372691;T:170516024;N:24472", 158, 0, null, null, 130303289, 26665502, 106372691, 170516024, 24472, "SRX8707731", "SRS6984318", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 9e-05, null, 8e-05, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60340, "SRR12194902", "SRX8707731", "SRS6984318", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C12", "GSM4666877", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C12", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666877", "GSM4666877: adult whole brain C12; Danio rerio; Bisulfite Seq", "GSM4666877", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666877", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-2_S29_L004_R1_001.fastq.gz", "fastq", 430083625.0, 2707299.0, "GSM4666877 r4", "0:158.86 1:0", "A:127216281;C:26070400;G:109807729;T:166969346;N:19869", 158, 0, null, null, 127216281, 26070400, 109807729, 166969346, 19869, "SRX8707731", "SRS6984318", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00014, null, 0.00013, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60341, "SRR12194895", "SRX8707730", "SRS6984317", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C11", "GSM4666876", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666876", "GSM4666876: adult whole brain C11; Danio rerio; Bisulfite Seq", "GSM4666876", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666876", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-1_S28_L001_R1_001.fastq.gz", "fastq", 390763441.0, 2459521.0, "GSM4666876 r1", "0:158.88 1:0", "A:115878018;C:24466254;G:101456635;T:148931279;N:31255", 158, 0, null, null, 115878018, 24466254, 101456635, 148931279, 31255, "SRX8707730", "SRS6984317", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00011, null, 9e-05, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60342, "SRR12194896", "SRX8707730", "SRS6984317", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C11", "GSM4666876", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666876", "GSM4666876: adult whole brain C11; Danio rerio; Bisulfite Seq", "GSM4666876", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666876", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-1_S28_L002_R1_001.fastq.gz", "fastq", 386653820.0, 2433806.0, "GSM4666876 r2", "0:158.87 1:0", "A:112748519;C:23827291;G:104589609;T:145459942;N:28459", 158, 0, null, null, 112748519, 23827291, 104589609, 145459942, 28459, "SRX8707730", "SRS6984317", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 0.0001, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60343, "SRR12194897", "SRX8707730", "SRS6984317", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C11", "GSM4666876", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666876", "GSM4666876: adult whole brain C11; Danio rerio; Bisulfite Seq", "GSM4666876", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666876", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-1_S28_L003_R1_001.fastq.gz", "fastq", 380317441.0, 2393754.0, "GSM4666876 r3", "0:158.88 1:0", "A:112915106;C:23708822;G:98403695;T:145269293;N:20525", 158, 0, null, null, 112915106, 23708822, 98403695, 145269293, 20525, "SRX8707730", "SRS6984317", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00011, null, 9e-05, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60344, "SRR12194898", "SRX8707730", "SRS6984317", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C11", "GSM4666876", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C11", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666876", "GSM4666876: adult whole brain C11; Danio rerio; Bisulfite Seq", "GSM4666876", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666876", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P8-1_S28_L004_R1_001.fastq.gz", "fastq", 375571793.0, 2363988.0, "GSM4666876 r4", "0:158.87 1:0", "A:109850893;C:23315154;G:100624445;T:141764059;N:17242", 158, 0, null, null, 109850893, 23315154, 100624445, 141764059, 17242, "SRX8707730", "SRS6984317", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.0001, null, 8e-05, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60345, "SRR12194891", "SRX8707729", "SRS6984316", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C10", "GSM4666875", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666875", "GSM4666875: adult whole brain C10; Danio rerio; Bisulfite Seq", "GSM4666875", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666875", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-6_S27_L001_R1_001.fastq.gz", "fastq", 447741142.0, 2818422.0, "GSM4666875 r1", "0:158.86 1:0", "A:132227648;C:28721642;G:111605477;T:175150599;N:35776", 158, 0, null, null, 132227648, 28721642, 111605477, 175150599, 35776, "SRX8707729", "SRS6984316", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 0.00011, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60346, "SRR12194892", "SRX8707729", "SRS6984316", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C10", "GSM4666875", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666875", "GSM4666875: adult whole brain C10; Danio rerio; Bisulfite Seq", "GSM4666875", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666875", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-6_S27_L002_R1_001.fastq.gz", "fastq", 440729494.0, 2774364.0, "GSM4666875 r2", "0:158.86 1:0", "A:128001555;C:27669098;G:114912549;T:170114952;N:31340", 158, 0, null, null, 128001555, 27669098, 114912549, 170114952, 31340, "SRX8707729", "SRS6984316", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00016, null, 0.00014, null, 0.99995, null, 0.0, null, 158, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60347, "SRR12194893", "SRX8707729", "SRS6984316", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C10", "GSM4666875", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666875", "GSM4666875: adult whole brain C10; Danio rerio; Bisulfite Seq", "GSM4666875", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666875", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-6_S27_L003_R1_001.fastq.gz", "fastq", 435566573.0, 2741716.0, "GSM4666875 r3", "0:158.87 1:0", "A:128746294;C:27829922;G:108424722;T:170542086;N:23549", 158, 0, null, null, 128746294, 27829922, 108424722, 170542086, 23549, "SRX8707729", "SRS6984316", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00011, null, 0.0001, null, 1.0, null, null, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60348, "SRR12194894", "SRX8707729", "SRS6984316", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C10", "GSM4666875", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C10", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666875", "GSM4666875: adult whole brain C10; Danio rerio; Bisulfite Seq", "GSM4666875", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666875", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-6_S27_L004_R1_001.fastq.gz", "fastq", 427498288.0, 2691000.0, "GSM4666875 r4", "0:158.86 1:0", "A:124522617;C:26924291;G:110757433;T:165273747;N:20200", 158, 0, null, null, 124522617, 26924291, 110757433, 165273747, 20200, "SRX8707729", "SRS6984316", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00011, null, 0.0001, null, 1.0, null, null, null, 158, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60349, "SRR12194887", "SRX8707728", "SRS6984315", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C9", "GSM4666874", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666874", "GSM4666874: adult whole brain C9; Danio rerio; Bisulfite Seq", "GSM4666874", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666874", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-5_S26_L001_R1_001.fastq.gz", "fastq", 349783641.0, 2201717.0, "GSM4666874 r1", "0:158.87 1:0", "A:102701594;C:22632391;G:88063333;T:136359733;N:26590", 158, 0, null, null, 102701594, 22632391, 88063333, 136359733, 26590, "SRX8707728", "SRS6984315", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 9e-05, null, 0.99993, null, 0.33333, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60350, "SRR12194888", "SRX8707728", "SRS6984315", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C9", "GSM4666874", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666874", "GSM4666874: adult whole brain C9; Danio rerio; Bisulfite Seq", "GSM4666874", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666874", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-5_S26_L002_R1_001.fastq.gz", "fastq", 344622908.0, 2169270.0, "GSM4666874 r2", "0:158.87 1:0", "A:99438832;C:21808331;G:90870468;T:132481551;N:23726", 158, 0, null, null, 99438832, 21808331, 90870468, 132481551, 23726, "SRX8707728", "SRS6984315", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00015, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60351, "SRR12194889", "SRX8707728", "SRS6984315", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C9", "GSM4666874", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666874", "GSM4666874: adult whole brain C9; Danio rerio; Bisulfite Seq", "GSM4666874", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666874", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-5_S26_L003_R1_001.fastq.gz", "fastq", 341160840.0, 2147418.0, "GSM4666874 r3", "0:158.87 1:0", "A:100266987;C:21990788;G:85828984;T:133055843;N:18238", 158, 0, null, null, 100266987, 21990788, 85828984, 133055843, 18238, "SRX8707728", "SRS6984315", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00013, null, 0.00011, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60352, "SRR12194890", "SRX8707728", "SRS6984315", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C9", "GSM4666874", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:female", "adult whole brain C9", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:F", "GSM4666874", "GSM4666874: adult whole brain C9; Danio rerio; Bisulfite Seq", "GSM4666874", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666874", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-5_S26_L004_R1_001.fastq.gz", "fastq", 334749648.0, 2107096.0, "GSM4666874 r4", "0:158.87 1:0", "A:96876210;C:21224218;G:87738246;T:128896105;N:14869", 158, 0, null, null, 96876210, 21224218, 87738246, 128896105, 14869, "SRX8707728", "SRS6984315", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00012, null, 0.0001, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60353, "SRR12194883", "SRX8707727", "SRS6984314", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C8", "GSM4666873", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666873", "GSM4666873: adult whole brain C8; Danio rerio; Bisulfite Seq", "GSM4666873", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666873", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-4_S25_L001_R1_001.fastq.gz", "fastq", 367179684.0, 2310944.0, "GSM4666873 r1", "0:158.89 1:0", "A:108387100;C:22533917;G:95615269;T:140615389;N:28009", 158, 0, null, null, 108387100, 22533917, 95615269, 140615389, 28009, "SRX8707727", "SRS6984314", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00017, null, 0.00015, null, 0.99997, null, 0.0, null, 159, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60354, "SRR12194884", "SRX8707727", "SRS6984314", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C8", "GSM4666873", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666873", "GSM4666873: adult whole brain C8; Danio rerio; Bisulfite Seq", "GSM4666873", null, "1", "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", "GEO Accession:GSM4666873", "Bisulfite-Seq", "TRANSCRIPTOMIC", "Reduced Representation", "SINGLE", "ILLUMINA", "NextSeq 550", null, "SRP271280", null, null, "P7-4_S25_L002_R1_001.fastq.gz", "fastq", 363113715.0, 2285411.0, "GSM4666873 r2", "0:158.88 1:0", "A:105466521;C:21922644;G:98373713;T:137324677;N:26160", 158, 0, null, null, 105466521, 21922644, 98373713, 137324677, 26160, "SRX8707727", "SRS6984314", "SRA1097340", "GEO", "UMR MARBEC, INRAE", 1, 0.00013, null, 9e-05, null, 0.99993, null, 0.33333, null, 157, null, "T", null, "under 1.2% mapping rate", "illumina", "nextseq", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "France", "2020-07-10", "Adult", "Adult", "Brain", "Nervous System"], [60355, "SRR12194885", "SRX8707727", "SRS6984314", "SRP271280", "PRJNA645421", "Epigenomic RRBS analyses in brains of exposed F0 zebrafish and their unexposed F1 and F2 offspring post early life exposure to permethrin 10 microg/L", "GSE154206", "Other", "In the present study zebrafish were exposed to permethrin during early life and F1 and F2 generations were bred unexposed. Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C8", "GSM4666873", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". 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Permethrin exposed F0 fish showed a hypoactive phenotype at maturity whereas males from the F1 and F2 generations showed a decrease in anxiety like behavior. We performed transcriptomic analyses on whole brains GSE154020 and here we further performed RRBS analyses to identify whether there was any stable change in DNA methylation that could be linked to the effects observed at other levels of organization. Due to technical issues during sequencing we had to perform a correction on the raw data CombaT in order to remove a batch effect flow cell. We made sure that this did not create any false positive differentially methylated region. Processed files available are the results from methyl calling before batch correctionwith a min coverage >= 5 per C. A matrix of corrected data is available as supplementary file. Overall design: Reduced representative bisulfite sequencing was performed on males and females from the F0 F1 and F2 generations 4 replicates treatment 4 replicates control for each sex and each generation. Except only 3 treated male F0", null, "pubmed:33752003", null, "adult whole brain C8", "GSM4666873", null, "tissue:adult whole brain|strain:AB line|generation:F2|Sex:male", "adult whole brain C8", "Adaptor trimming with TrimGalore! Galaxy version 0.4.3.1 Alignment to GRCz11 with Bismark Galaxy version 0.22.1; optimizing alignement with \"L 0 0.6\". Rk due to batch effects described below PE sequences were analyzed as SE. methyl calling using Bismark extractor cov >= 5 processed data files batch correction using ComBat see supplementary data corrected matrix.csv identification of DMRs using Methylkit R v1.12; 300 bp tiles with at least 4 C included and >=10% differential methylation Genome build: DanRer11 Supplementary files format and content: methyl call cov >= 5 from bismark methyl extractor. *.tabular files before correction and corrected matrix.csv post correction", "adult whole brain", null, "Fish were euthanized brains were dissected and flash frozen in liquid nitrogen and DNA was extracted using TriPrep extraction kit Macherey Nagel. 300 ng of DNA per sample were sent to the Environmental Epigenetics facility of IHPE University of Perpignan France for pair ended or single ended RRBS", null, "strain:AB line|generation:F2|Sex:M", "GSM4666873", "GSM4666873: adult whole brain C8; Danio rerio; Bisulfite Seq", "GSM4666873", 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