{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"cDNA\", experiment.platform = \"BGISEQ\" and tissue_curation = \"Liver\"", "rows": [[65887, "SRR15667963", "SRX11964789", "SRS9973857", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train overfeed 6", "GSM5549117", null, "source name:liver|tissue:liver|training:trained|feed:overfeed|gender:male|strain:ABTL", "liver  train overfeed 6", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:overfeed|gender:male|strain:ABTL", "GSM5549117", "GSM5549117: liver  train overfeed 6; Danio rerio; RNA Seq", "GSM5549117", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549117", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L24B_1.fq.gz L24B_2.fq.gz", "fastq fastq", 4893222400.0, 48932224.0, "GSM5549117 r1", "0:100 1:100", "A:1299363606;C:1127714226;G:1149448002;T:1316696566;N:0", 100, 100, null, null, 1299363606, 1127714226, 1149448002, 1316696566, 0, "SRX11964789", "SRS9973857", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94811, null, 0.06102, null, 0.81306, null, 0.58353, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65888, "SRR15667962", "SRX11964788", "SRS9973856", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train overfeed 5", "GSM5549116", null, "source name:liver|tissue:liver|training:trained|feed:overfeed|gender:male|strain:ABTL", "liver  train overfeed 5", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:overfeed|gender:male|strain:ABTL", "GSM5549116", "GSM5549116: liver  train overfeed 5; Danio rerio; RNA Seq", "GSM5549116", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549116", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L23B_1.fq.gz L23B_2.fq.gz", "fastq fastq", 4864315800.0, 48643158.0, "GSM5549116 r1", "0:100 1:100", "A:1269157216;C:1139579077;G:1173873653;T:1281705854;N:0", 100, 100, null, null, 1269157216, 1139579077, 1173873653, 1281705854, 0, "SRX11964788", "SRS9973856", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94747, null, 0.0487, null, 0.81779, null, 0.56304, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65889, "SRR15667961", "SRX11964787", "SRS9973855", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train overfeed 4", "GSM5549115", null, "source name:liver|tissue:liver|training:trained|feed:overfeed|gender:male|strain:ABTL", "liver  train overfeed 4", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:overfeed|gender:male|strain:ABTL", "GSM5549115", "GSM5549115: liver  train overfeed 4; Danio rerio; RNA Seq", "GSM5549115", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549115", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L22B_1.fq.gz L22B_2.fq.gz", "fastq fastq", 4861767400.0, 48617674.0, "GSM5549115 r1", "0:100 1:100", "A:1272156595;C:1138672054;G:1163686667;T:1287252084;N:0", 100, 100, null, null, 1272156595, 1138672054, 1163686667, 1287252084, 0, "SRX11964787", "SRS9973855", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95316, null, 0.0514, null, 0.82008, null, 0.50642, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65890, "SRR15667960", "SRX11964786", "SRS9973854", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train overfeed 3", "GSM5549114", null, "source name:liver|tissue:liver|training:trained|feed:overfeed|gender:female|strain:ABTL", "liver  train overfeed 3", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:overfeed|gender:female|strain:ABTL", "GSM5549114", "GSM5549114: liver  train overfeed 3; Danio rerio; RNA Seq", "GSM5549114", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549114", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L21B_1.fq.gz L21B_2.fq.gz", "fastq fastq", 4830571800.0, 48305718.0, "GSM5549114 r1", "0:100 1:100", "A:1279428022;C:1123545637;G:1144703564;T:1282894577;N:0", 100, 100, null, null, 1279428022, 1123545637, 1144703564, 1282894577, 0, "SRX11964786", "SRS9973854", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95734, null, 0.02001, null, 0.8868, null, 0.12725, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65891, "SRR15667959", "SRX11964785", "SRS9973853", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train overfeed 2", "GSM5549113", null, "source name:liver|tissue:liver|training:trained|feed:overfeed|gender:female|strain:ABTL", "liver  train overfeed 2", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:overfeed|gender:female|strain:ABTL", "GSM5549113", "GSM5549113: liver  train overfeed 2; Danio rerio; RNA Seq", "GSM5549113", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549113", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L20B_1.fq.gz L20B_2.fq.gz", "fastq fastq", 4798900200.0, 47989002.0, "GSM5549113 r1", "0:100 1:100", "A:1264903507;C:1122454994;G:1142785530;T:1268756169;N:0", 100, 100, null, null, 1264903507, 1122454994, 1142785530, 1268756169, 0, "SRX11964785", "SRS9973853", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95953, null, 0.02579, null, 0.87251, null, 0.20039, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65892, "SRR15667958", "SRX11964784", "SRS9973852", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train overfeed 1", "GSM5549112", null, "source name:liver|tissue:liver|training:trained|feed:overfeed|gender:female|strain:ABTL", "liver  train overfeed 1", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:overfeed|gender:female|strain:ABTL", "GSM5549112", "GSM5549112: liver  train overfeed 1; Danio rerio; RNA Seq", "GSM5549112", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549112", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L19B_1.fq.gz L19B_2.fq.gz", "fastq fastq", 4834397800.0, 48343978.0, "GSM5549112 r1", "0:100 1:100", "A:1279393804;C:1125815329;G:1148443590;T:1280745077;N:0", 100, 100, null, null, 1279393804, 1125815329, 1148443590, 1280745077, 0, "SRX11964784", "SRS9973852", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95933, null, 0.02008, null, 0.89483, null, 0.14592, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65893, "SRR15667957", "SRX11964783", "SRS9973851", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train ctrl 6", "GSM5549111", null, "source name:liver|tissue:liver|training:trained|feed:ctrl|gender:male|strain:ABTL", "liver  train ctrl 6", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:ctrl|gender:male|strain:ABTL", "GSM5549111", "GSM5549111: liver  train ctrl 6; Danio rerio; RNA Seq", "GSM5549111", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549111", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L18B_1.fq.gz L18B_2.fq.gz", "fastq fastq", 4821948400.0, 48219484.0, "GSM5549111 r1", "0:100 1:100", "A:1291565962;C:1101325255;G:1121237816;T:1307819367;N:0", 100, 100, null, null, 1291565962, 1101325255, 1121237816, 1307819367, 0, "SRX11964783", "SRS9973851", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94729, null, 0.06306, null, 0.81207, null, 0.58228, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65894, "SRR15667956", "SRX11964782", "SRS9973850", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train ctrl 5", "GSM5549110", null, "source name:liver|tissue:liver|training:trained|feed:ctrl|gender:male|strain:ABTL", "liver  train ctrl 5", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:ctrl|gender:male|strain:ABTL", "GSM5549110", "GSM5549110: liver  train ctrl 5; Danio rerio; RNA Seq", "GSM5549110", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549110", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L17B_1.fq.gz L17B_2.fq.gz", "fastq fastq", 4803628200.0, 48036282.0, "GSM5549110 r1", "0:100 1:100", "A:1284799467;C:1098135007;G:1120469212;T:1300224514;N:0", 100, 100, null, null, 1284799467, 1098135007, 1120469212, 1300224514, 0, "SRX11964782", "SRS9973850", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.9496, null, 0.0625, null, 0.81456, null, 0.59107, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65895, "SRR15667955", "SRX11964781", "SRS9973849", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train ctrl 4", "GSM5549109", null, "source name:liver|tissue:liver|training:trained|feed:ctrl|gender:male|strain:ABTL", "liver  train ctrl 4", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:ctrl|gender:male|strain:ABTL", "GSM5549109", "GSM5549109: liver  train ctrl 4; Danio rerio; RNA Seq", "GSM5549109", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549109", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L16B_1.fq.gz L16B_2.fq.gz", "fastq fastq", 4810847400.0, 48108474.0, "GSM5549109 r1", "0:100 1:100", "A:1282522728;C:1105003262;G:1127602301;T:1295719109;N:0", 100, 100, null, null, 1282522728, 1105003262, 1127602301, 1295719109, 0, "SRX11964781", "SRS9973849", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94654, null, 0.05935, null, 0.81525, null, 0.55406, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65896, "SRR15667954", "SRX11964780", "SRS9973848", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train ctrl 3", "GSM5549108", null, "source name:liver|tissue:liver|training:trained|feed:ctrl|gender:female|strain:ABTL", "liver  train ctrl 3", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:ctrl|gender:female|strain:ABTL", "GSM5549108", "GSM5549108: liver  train ctrl 3; Danio rerio; RNA Seq", "GSM5549108", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549108", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L15B_1.fq.gz L15B_2.fq.gz", "fastq fastq", 4985037400.0, 49850374.0, "GSM5549108 r1", "0:100 1:100", "A:1350433123;C:1126555415;G:1149552334;T:1358496528;N:0", 100, 100, null, null, 1350433123, 1126555415, 1149552334, 1358496528, 0, "SRX11964780", "SRS9973848", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94223, null, 0.05241, null, 0.81753, null, 0.38734, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65897, "SRR15667953", "SRX11964779", "SRS9973847", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train ctrl 2", "GSM5549107", null, "source name:liver|tissue:liver|training:trained|feed:ctrl|gender:female|strain:ABTL", "liver  train ctrl 2", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:ctrl|gender:female|strain:ABTL", "GSM5549107", "GSM5549107: liver  train ctrl 2; Danio rerio; RNA Seq", "GSM5549107", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549107", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L14B_1.fq.gz L14B_2.fq.gz", "fastq fastq", 4804454800.0, 48044548.0, "GSM5549107 r1", "0:100 1:100", "A:1265573746;C:1124189778;G:1148662079;T:1266029197;N:0", 100, 100, null, null, 1265573746, 1124189778, 1148662079, 1266029197, 0, "SRX11964779", "SRS9973847", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95891, null, 0.02268, null, 0.88392, null, 0.17772, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65898, "SRR15667952", "SRX11964778", "SRS9973846", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  train ctrl 1", "GSM5549106", null, "source name:liver|tissue:liver|training:trained|feed:ctrl|gender:female|strain:ABTL", "liver  train ctrl 1", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:trained|feed:ctrl|gender:female|strain:ABTL", "GSM5549106", "GSM5549106: liver  train ctrl 1; Danio rerio; RNA Seq", "GSM5549106", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549106", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L13B_1.fq.gz L13B_2.fq.gz", "fastq fastq", 4822830200.0, 48228302.0, "GSM5549106 r1", "0:100 1:100", "A:1276481281;C:1123835516;G:1144873235;T:1277640168;N:0", 100, 100, null, null, 1276481281, 1123835516, 1144873235, 1277640168, 0, "SRX11964778", "SRS9973846", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.96141, null, 0.0197, null, 0.89388, null, 0.1349, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65899, "SRR15667951", "SRX11964777", "SRS9973845", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl overfeed 6", "GSM5549105", null, "source name:liver|tissue:liver|training:ctrl|feed:overfeed|gender:female|strain:ABTL", "liver  ctrl overfeed 6", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:overfeed|gender:female|strain:ABTL", "GSM5549105", "GSM5549105: liver  ctrl overfeed 6; Danio rerio; RNA Seq", "GSM5549105", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549105", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L9B_1.fq.gz L9B_2.fq.gz", "fastq fastq", 4818164600.0, 48181646.0, "GSM5549105 r1", "0:100 1:100", "A:1279585168;C:1117941633;G:1137085086;T:1283552713;N:0", 100, 100, null, null, 1279585168, 1117941633, 1137085086, 1283552713, 0, "SRX11964777", "SRS9973845", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95794, null, 0.0217, null, 0.8772, null, 0.13327, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65900, "SRR15667950", "SRX11964776", "SRS9973844", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl overfeed 5", "GSM5549104", null, "source name:liver|tissue:liver|training:ctrl|feed:overfeed|gender:female|strain:ABTL", "liver  ctrl overfeed 5", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:overfeed|gender:female|strain:ABTL", "GSM5549104", "GSM5549104: liver  ctrl overfeed 5; Danio rerio; RNA Seq", "GSM5549104", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549104", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L8B_1.fq.gz L8B_2.fq.gz", "fastq fastq", 4815366200.0, 48153662.0, "GSM5549104 r1", "0:100 1:100", "A:1274920749;C:1122213902;G:1140211257;T:1278020292;N:0", 100, 100, null, null, 1274920749, 1122213902, 1140211257, 1278020292, 0, "SRX11964776", "SRS9973844", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95864, null, 0.02123, null, 0.88805, null, 0.13863, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65901, "SRR15667949", "SRX11964775", "SRS9973843", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl overfeed 4", "GSM5549103", null, "source name:liver|tissue:liver|training:ctrl|feed:overfeed|gender:female|strain:ABTL", "liver  ctrl overfeed 4", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:overfeed|gender:female|strain:ABTL", "GSM5549103", "GSM5549103: liver  ctrl overfeed 4; Danio rerio; RNA Seq", "GSM5549103", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549103", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L7B_1.fq.gz L7B_2.fq.gz", "fastq fastq", 4806451200.0, 48064512.0, "GSM5549103 r1", "0:100 1:100", "A:1272428504;C:1119437887;G:1139899400;T:1274685409;N:0", 100, 100, null, null, 1272428504, 1119437887, 1139899400, 1274685409, 0, "SRX11964775", "SRS9973843", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.9605, null, 0.02337, null, 0.87625, null, 0.17173, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65902, "SRR15667948", "SRX11964774", "SRS9973842", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl overfeed 3", "GSM5549102", null, "source name:liver|tissue:liver|training:ctrl|feed:overfeed|gender:male|strain:ABTL", "liver  ctrl overfeed 3", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:overfeed|gender:male|strain:ABTL", "GSM5549102", "GSM5549102: liver  ctrl overfeed 3; Danio rerio; RNA Seq", "GSM5549102", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549102", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L12B_1.fq.gz L12B_2.fq.gz", "fastq fastq", 4808986200.0, 48089862.0, "GSM5549102 r1", "0:100 1:100", "A:1282711930;C:1106482446;G:1126540026;T:1293251798;N:0", 100, 100, null, null, 1282711930, 1106482446, 1126540026, 1293251798, 0, "SRX11964774", "SRS9973842", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95163, null, 0.05783, null, 0.80872, null, 0.56282, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65903, "SRR15667947", "SRX11964773", "SRS9973841", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl overfeed 2", "GSM5549101", null, "source name:liver|tissue:liver|training:ctrl|feed:overfeed|gender:male|strain:ABTL", "liver  ctrl overfeed 2", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:overfeed|gender:male|strain:ABTL", "GSM5549101", "GSM5549101: liver  ctrl overfeed 2; Danio rerio; RNA Seq", "GSM5549101", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549101", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L11B_1.fq.gz L11B_2.fq.gz", "fastq fastq", 4813626000.0, 48136260.0, "GSM5549101 r1", "0:100 1:100", "A:1280868095;C:1108012462;G:1126540954;T:1298204489;N:0", 100, 100, null, null, 1280868095, 1108012462, 1126540954, 1298204489, 0, "SRX11964773", "SRS9973841", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94831, null, 0.05349, null, 0.81513, null, 0.57243, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65904, "SRR15667946", "SRX11964772", "SRS9973840", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl overfeed 1", "GSM5549100", null, "source name:liver|tissue:liver|training:ctrl|feed:overfeed|gender:male|strain:ABTL", "liver  ctrl overfeed 1", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:overfeed|gender:male|strain:ABTL", "GSM5549100", "GSM5549100: liver  ctrl overfeed 1; Danio rerio; RNA Seq", "GSM5549100", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549100", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L10B_1.fq.gz L10B_2.fq.gz", "fastq fastq", 4810219200.0, 48102192.0, "GSM5549100 r1", "0:100 1:100", "A:1291986049;C:1097301072;G:1114733041;T:1306199038;N:0", 100, 100, null, null, 1291986049, 1097301072, 1114733041, 1306199038, 0, "SRX11964772", "SRS9973840", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.9477, null, 0.06719, null, 0.80762, null, 0.56967, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65905, "SRR15667945", "SRX11964771", "SRS9973839", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl ctrl 6", "GSM5549099", null, "source name:liver|tissue:liver|training:ctrl|feed:ctrl|gender:male|strain:ABTL", "liver  ctrl ctrl 6", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:ctrl|gender:male|strain:ABTL", "GSM5549099", "GSM5549099: liver  ctrl ctrl 6; Danio rerio; RNA Seq", "GSM5549099", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549099", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L6B_1.fq.gz L6B_2.fq.gz", "fastq fastq", 4800718000.0, 48007180.0, "GSM5549099 r1", "0:100 1:100", "A:1258342638;C:1122320482;G:1144931913;T:1275122967;N:0", 100, 100, null, null, 1258342638, 1122320482, 1144931913, 1275122967, 0, "SRX11964771", "SRS9973839", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.953, null, 0.05324, null, 0.81257, null, 0.58562, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65906, "SRR15667944", "SRX11964770", "SRS9973838", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl ctrl 5", "GSM5549098", null, "source name:liver|tissue:liver|training:ctrl|feed:ctrl|gender:male|strain:ABTL", "liver  ctrl ctrl 5", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:ctrl|gender:male|strain:ABTL", "GSM5549098", "GSM5549098: liver  ctrl ctrl 5; Danio rerio; RNA Seq", "GSM5549098", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549098", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L5B_1.fq.gz L5B_2.fq.gz", "fastq fastq", 4806088800.0, 48060888.0, "GSM5549098 r1", "0:100 1:100", "A:1271888694;C:1114093824;G:1133421540;T:1286684742;N:0", 100, 100, null, null, 1271888694, 1114093824, 1133421540, 1286684742, 0, "SRX11964770", "SRS9973838", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95001, null, 0.05792, null, 0.807, null, 0.56126, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65907, "SRR15667943", "SRX11964769", "SRS9973837", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl ctrl 4", "GSM5549097", null, "source name:liver|tissue:liver|training:ctrl|feed:ctrl|gender:male|strain:ABTL", "liver  ctrl ctrl 4", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:ctrl|gender:male|strain:ABTL", "GSM5549097", "GSM5549097: liver  ctrl ctrl 4; Danio rerio; RNA Seq", "GSM5549097", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549097", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L4B_1.fq.gz L4B_2.fq.gz", "fastq fastq", 4793658200.0, 47936582.0, "GSM5549097 r1", "0:100 1:100", "A:1278328591;C:1101882376;G:1120230481;T:1293216752;N:0", 100, 100, null, null, 1278328591, 1101882376, 1120230481, 1293216752, 0, "SRX11964769", "SRS9973837", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.94635, null, 0.06821, null, 0.77814, null, 0.57203, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65908, "SRR15667942", "SRX11964768", "SRS9973836", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl ctrl 3", "GSM5549096", null, "source name:liver|tissue:liver|training:ctrl|feed:ctrl|gender:female|strain:ABTL", "liver  ctrl ctrl 3", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:ctrl|gender:female|strain:ABTL", "GSM5549096", "GSM5549096: liver  ctrl ctrl 3; Danio rerio; RNA Seq", "GSM5549096", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549096", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L3B_1.fq.gz L3B_2.fq.gz", "fastq fastq", 4826663000.0, 48266630.0, "GSM5549096 r1", "0:100 1:100", "A:1279595092;C:1123953174;G:1141367365;T:1281747369;N:0", 100, 100, null, null, 1279595092, 1123953174, 1141367365, 1281747369, 0, "SRX11964768", "SRS9973836", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.9594, null, 0.02127, null, 0.88463, null, 0.12493, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65909, "SRR15667941", "SRX11964767", "SRS9973835", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl ctrl 2", "GSM5549095", null, "source name:liver|tissue:liver|training:ctrl|feed:ctrl|gender:female|strain:ABTL", "liver  ctrl ctrl 2", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:ctrl|gender:female|strain:ABTL", "GSM5549095", "GSM5549095: liver  ctrl ctrl 2; Danio rerio; RNA Seq", "GSM5549095", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549095", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L2B_1.fq.gz L2B_2.fq.gz", "fastq fastq", 4825604600.0, 48256046.0, "GSM5549095 r1", "0:100 1:100", "A:1280321186;C:1120511740;G:1138899889;T:1285871785;N:0", 100, 100, null, null, 1280321186, 1120511740, 1138899889, 1285871785, 0, "SRX11964767", "SRS9973835", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95896, null, 0.0192, null, 0.88899, null, 0.11515, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [65910, "SRR15667940", "SRX11964766", "SRS9973834", "SRP334698", "PRJNA758884", "Metabolic and transcriptional adaptations improve physical performance of zebrafish", "GSE183023", "Transcriptome Analysis", "Background: Obesity is a worldwide public health problem with increasing prevalence and affects 80% of diabetes mellitus type 2 cases. Zebrafish Danio rerio are an established model organism for studying obesity and diabetes including diabetic microvascular complications. We aimed to determine whether physical activity is an appropriate tool to examine training effects in zebrafish and to analyse metabolic and transcriptional processes in trained zebrafish. Methods: A 2  and 8 weeks experimental training phase protocol with adult zebrafish in a swim tunnel system was established. We examined zebrafish basic characteristics before and post training such as body weight  body length and maximum speed and considered overfeeding as an additional parameter in the 8 weeks training protocol. Ultimately  the effects of training and overfeeding on blood glucose  muscle core metabolism and liver gene expression using RNA Seq were investigated. Results: Zebrafish maximum speed was correlated with body length and was significantly increased post 2 weeks of training. Maximum swim speed further increased post 8 weeks of training in both the normalfed and the overfed groups  but training was found not to be sufficient in preventing weight gain in overfed fish. Metabolome and transcriptome profiling in trained fish exhibited increased blood glucose levels in the short term and upregulated energy supply pathways in the long term. Conclusion: Swim training is a valuable tool to study effects of physical activity in zebrafish  which is accompanied by metabolic and transcriptional adaptations. Overall design: total RNA sequencing was performed with 24 zebrafish liver samples ABTL strain  including 6 control fish  6 overfed fish  6 trained fish  6 trained and overfed fish", null, "pubmed:34679716", null, "liver  ctrl ctrl 1", "GSM5549094", null, "source name:liver|tissue:liver|training:ctrl|feed:ctrl|gender:female|strain:ABTL", "liver  ctrl ctrl 1", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Genome build: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "liver", "Fish of the overfeeding groups ctr overfeed and train overfeed were fed with 9 mL of living shrimps per fish spread over the morning 3 times 3 mL and 2 spoons of SDS 400 per tank in the postnoon. Fish of the training groups train ctrl and train overfeed were trained every other day from Monday to Friday alternating twice or thrice per week for 8 weeks 20 training sessions in total.", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "Zebrafish of the ABTL strain were reared and maintained at 28 \u00b0C and kept under 13 h light/11 h dark cycle in groups of 6 fish per tank.", "tissue:liver|training:ctrl|feed:ctrl|gender:female|strain:ABTL", "GSM5549094", "GSM5549094: liver  ctrl ctrl 1; Danio rerio; RNA Seq", "GSM5549094", null, "1", "Livers were removed and flash frozen on dry ice. RNA was isolated from liver samples using the RNeasy\u00ae Mini Kit from QIAGEN Hilden  Germany. RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", "GEO Accession:GSM5549094", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP334698", null, null, "L1B_1.fq.gz L1B_2.fq.gz", "fastq fastq", 4829756800.0, 48297568.0, "GSM5549094 r1", "0:100 1:100", "A:1282017434;C:1119791375;G:1138880812;T:1289067179;N:0", 100, 100, null, null, 1282017434, 1119791375, 1138880812, 1289067179, 0, "SRX11964766", "SRS9973834", "SRA1285419", "GEO", "ZMF, University Heidelberg", 1, 0.95838, null, 0.03146, null, 0.8479, null, 0.28451, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2021-08-30", "Juvenile", "Juvenile", "Liver", "Liver and Biliary System"], [70080, "SRR19445938", "SRX15499122", "SRS13214006", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2  /  6", "GSM6205029", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:KO", "Glo2  /  6", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:KO", "GSM6205029", "GSM6205029: Glo2  /  6; Danio rerio; RNA Seq", "GSM6205029 r1", "GSM6205029", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "12.1_1.fq.gz 12.1_2.fq.gz", "fastq fastq", 4163038200.0, 41630382.0, "GSM6205029 r1", "0:100 1:100", "A:1080428167;C:982538284;G:1004098821;T:1095972928;N:0", 100, 100, null, null, 1080428167, 982538284, 1004098821, 1095972928, 0, "SRX15499122", "SRS13214006", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95934, null, 0.04773, null, 0.80028, null, 0.52892, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70081, "SRR19445939", "SRX15499121", "SRS13214005", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2 +/+ 6", "GSM6205028", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:WT", "Glo2 +/+ 6", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:WT", "GSM6205028", "GSM6205028: Glo2 +/+ 6; Danio rerio; RNA Seq", "GSM6205028 r1", "GSM6205028", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "11.1_1.fq.gz 11.1_2.fq.gz", "fastq fastq", 4170292600.0, 41702926.0, "GSM6205028 r1", "0:100 1:100", "A:1081431596;C:983791100;G:1012532071;T:1092537833;N:0", 100, 100, null, null, 1081431596, 983791100, 1012532071, 1092537833, 0, "SRX15499121", "SRS13214005", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95587, null, 0.0499, null, 0.80805, null, 0.50421, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70082, "SRR19445940", "SRX15499120", "SRS13214004", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2  /  5", "GSM6205027", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:KO", "Glo2  /  5", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:KO", "GSM6205027", "GSM6205027: Glo2  /  5; Danio rerio; RNA Seq", "GSM6205027 r1", "GSM6205027", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "10.1_1.fq.gz 10.1_2.fq.gz", "fastq fastq", 4165964600.0, 41659646.0, "GSM6205027 r1", "0:100 1:100", "A:1087548367;C:975174787;G:1002623835;T:1100617611;N:0", 100, 100, null, null, 1087548367, 975174787, 1002623835, 1100617611, 0, "SRX15499120", "SRS13214004", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95351, null, 0.05573, null, 0.80229, null, 0.5231, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70083, "SRR19445941", "SRX15499119", "SRS13214003", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2 +/+ 5", "GSM6205026", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:WT", "Glo2 +/+ 5", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:WT", "GSM6205026", "GSM6205026: Glo2 +/+ 5; Danio rerio; RNA Seq", "GSM6205026 r1", "GSM6205026", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "9.1_1.fq.gz 9.1_2.fq.gz", "fastq fastq", 4161803400.0, 41618034.0, "GSM6205026 r1", "0:100 1:100", "A:1084378904;C:978685192;G:1004569873;T:1094169431;N:0", 100, 100, null, null, 1084378904, 978685192, 1004569873, 1094169431, 0, "SRX15499119", "SRS13214003", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95218, null, 0.04867, null, 0.80732, null, 0.52859, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70084, "SRR19445942", "SRX15499118", "SRS13214002", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2  /  4", "GSM6205025", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:KO", "Glo2  /  4", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:KO", "GSM6205025", "GSM6205025: Glo2  /  4; Danio rerio; RNA Seq", "GSM6205025 r1", "GSM6205025", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "8.1_1.fq.gz 8.1_2.fq.gz", "fastq fastq", 4152089400.0, 41520894.0, "GSM6205025 r1", "0:100 1:100", "A:1071439906;C:981252736;G:1021757559;T:1077639199;N:0", 100, 100, null, null, 1071439906, 981252736, 1021757559, 1077639199, 0, "SRX15499118", "SRS13214002", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.94509, null, 0.04233, null, 0.82031, null, 0.5193, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70085, "SRR19445943", "SRX15499117", "SRS13214001", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2 +/+ 4", "GSM6205024", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:WT", "Glo2 +/+ 4", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:WT", "GSM6205024", "GSM6205024: Glo2 +/+ 4; Danio rerio; RNA Seq", "GSM6205024 r1", "GSM6205024", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "7.1_1.fq.gz 7.1_2.fq.gz", "fastq fastq", 4164307200.0, 41643072.0, "GSM6205024 r1", "0:100 1:100", "A:1089101337;C:971144234;G:1001055993;T:1103005636;N:0", 100, 100, null, null, 1089101337, 971144234, 1001055993, 1103005636, 0, "SRX15499117", "SRS13214001", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95715, null, 0.05232, null, 0.8062, null, 0.52299, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70086, "SRR19445944", "SRX15499116", "SRS13214000", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2  /  3", "GSM6205023", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:KO", "Glo2  /  3", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:KO", "GSM6205023", "GSM6205023: Glo2  /  3; Danio rerio; RNA Seq", "GSM6205023 r1", "GSM6205023", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "6.1_1.fq.gz 6.1_2.fq.gz", "fastq fastq", 4160202200.0, 41602022.0, "GSM6205023 r1", "0:100 1:100", "A:1078397784;C:984320163;G:1006828922;T:1090655331;N:0", 100, 100, null, null, 1078397784, 984320163, 1006828922, 1090655331, 0, "SRX15499116", "SRS13214000", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95752, null, 0.04539, null, 0.8072, null, 0.5241, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70087, "SRR19445945", "SRX15499115", "SRS13213999", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2 +/+ 3", "GSM6205022", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:WT", "Glo2 +/+ 3", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:WT", "GSM6205022", "GSM6205022: Glo2 +/+ 3; Danio rerio; RNA Seq", "GSM6205022 r1", "GSM6205022", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "5.1_1.fq.gz 5.1_2.fq.gz", "fastq fastq", 4165235600.0, 41652356.0, "GSM6205022 r1", "0:100 1:100", "A:1072104475;C:989511105;G:1023359503;T:1080260517;N:0", 100, 100, null, null, 1072104475, 989511105, 1023359503, 1080260517, 0, "SRX15499115", "SRS13213999", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95194, null, 0.03798, null, 0.82087, null, 0.54781, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70088, "SRR19445946", "SRX15499114", "SRS13213998", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2  /  2", "GSM6205021", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:KO", "Glo2  /  2", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:KO", "GSM6205021", "GSM6205021: Glo2  /  2; Danio rerio; RNA Seq", "GSM6205021 r1", "GSM6205021", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "4.1_1.fq.gz 4.1_2.fq.gz", "fastq fastq", 4171018400.0, 41710184.0, "GSM6205021 r1", "0:100 1:100", "A:1073769040;C:990042636;G:1019695979;T:1087510745;N:0", 100, 100, null, null, 1073769040, 990042636, 1019695979, 1087510745, 0, "SRX15499114", "SRS13213998", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.95183, null, 0.04539, null, 0.81134, null, 0.51505, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70089, "SRR19445947", "SRX15499113", "SRS13213997", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2 +/+ 2", "GSM6205020", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:WT", "Glo2 +/+ 2", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:WT", "GSM6205020", "GSM6205020: Glo2 +/+ 2; Danio rerio; RNA Seq", "GSM6205020 r1", "GSM6205020", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "3.1_1.fq.gz 3.1_2.fq.gz", "fastq fastq", 4145841000.0, 41458410.0, "GSM6205020 r1", "0:100 1:100", "A:1051425067;C:998554505;G:1029593084;T:1066268344;N:0", 100, 100, null, null, 1051425067, 998554505, 1029593084, 1066268344, 0, "SRX15499113", "SRS13213997", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.96363, null, 0.03563, null, 0.81994, null, 0.49336, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70090, "SRR19445948", "SRX15499112", "SRS13213996", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2  /  1", "GSM6205019", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:KO", "Glo2  /  1", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:KO", "GSM6205019", "GSM6205019: Glo2  /  1; Danio rerio; RNA Seq", "GSM6205019 r1", "GSM6205019", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "2.1_1.fq.gz 2.1_2.fq.gz", "fastq fastq", 4147644400.0, 41476444.0, "GSM6205019 r1", "0:100 1:100", "A:1103014496;C:947498522;G:988532296;T:1108599086;N:0", 100, 100, null, null, 1103014496, 947498522, 988532296, 1108599086, 0, "SRX15499112", "SRS13213996", "SRA1428824", "ZMF, University Heidelberg", "ZMF, University Heidelberg", 1, 0.94203, null, 0.05616, null, 0.81268, null, 0.5326, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "Germany", "2022-05-30", "Undetermined", "Larval", "Liver", "Liver and Biliary System"], [70091, "SRR19445949", "SRX15499111", "SRS13213995", "SRP377632", "PRJNA843695", "Loss of Glo2 alters the glucose metabolism in zebrafish", "GSE205085", "Transcriptome Analysis", "Glyoxalase 2 is the second enzyme of the glyoxalase system  catalyzing the detoxification of methylglyoxal to D lactate via SD Lactoylglutathione. Recent studies have suggested Glo2 as a regulator of glycolysis  but the physiological functions of Glo2 in vivo and organ specific functions of the enzyme have not yet been evaluated. Therefore  a CRISPR/Cas9 knockout of glo2 in zebrafish was created and analyzed. Consistent with its function in methylglyoxal detoxification  SD Lactoylglutathione  but not methylglyoxal accumulated in glo2 /  larvae  with no change in longevity. Adult glo2 /  livers developed an impaired insulin signaling  indicated by a reduced hepatic P70 S6 kinase activation and reduced hepatic hexose concentration. In contrast  glo2 /  skeletal muscle remained functionally intact  compensating for the dysfunctional liver through increased glucose uptake  thereby maintaining euglycemia and preventing damage of the retina and kidney. In conclusion  the data identified Glo2 to fulfill similar but unique functions compared to Glo1 and established Glo2 as a novel target in diabetes research  regulating hepatic insulin signaling. Overall design: A CRISPR based knockout of Glyoxalase 2 was created in zebrafish. The development of the fish was analyzed  as well as organ specific glucose metabolism in skeletal muscle and liver. Imaging studies of Retina  kidney  liver and skeletal muscle were conducted. RNA sequencing was performed on adult liver tissue of glo2+/+ and glo2 /  fish by BGI in collaboration with the NGS Core facility in Mannheim  University of Heidelberg.", null, "pubmed:36535130", null, "Glo2 +/+ 1", "GSM6205018", null, "source name:Tgfli1:EGFP|tissue:whole liver|trained:no|genotype:WT", "Glo2 +/+ 1", "trimmed with trim galore version 0.6.4. Parameters:   length 26   phred33 Get raw counts with kallisto quant version 0.4.6. TPM abundance estimates  generated with kallisto quant 0.4.6 Assembly: GRCz11 Supplementary files format and content: TPM abundance estimates and raw counts generated with kallisto.", "Tgfli1:EGFP", null, "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "tissue:whole liver|trained:no|genotype:WT", "GSM6205018", "GSM6205018: Glo2 +/+ 1; Danio rerio; RNA Seq", "GSM6205018 r1", "GSM6205018", "1", "Total RNA was extracted using TRIzol method RNA libraries were prepared for sequencing using standard BGISeq 500 protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP377632", null, null, "1.1_1.fq.gz 1.1_2.fq.gz", "fastq fastq", 4155343800.0, 41553438.0, "GSM6205018 r1", "0:100 1:100", "A:1072547817;C:985284919;G:1008557411;T:1088953653;N:0", 100, 100, null, null, 1072547817, 985284919, 1008557411, 1088953653, 0, "SRX15499111", "SRS13213995", "SRA1428824", "ZMF, 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