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However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. 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However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. 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However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A11", "GSM3964279", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A11", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964279", "GSM3964279: Adipose KO A11; Danio rerio; RNA Seq", "GSM3964279", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. 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However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A10", "GSM3964278", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A10", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964278", "GSM3964278: Adipose KO A10; Danio rerio; RNA Seq", "GSM3964278", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964278", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A10_S69_R1_001.fastq KO-A10_S69_R2_001.fastq", "fastq fastq", 6250335404.0, 41467476.0, "GSM3964278 r1", "0:75.40 1:75.33", "A:1623367800;C:1484173582;G:1452734282;T:1680039881;N:10019859", 75, 75, null, null, 1623367800, 1484173582, 1452734282, 1680039881, 10019859, "SRX6492149", "SRS5140745", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93288, 0.93316, 0.07513, 0.07471, 0.63863, 0.63926, 0.49527, 0.4986, 76, 75, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53262, "SRR9735188", "SRX6492148", "SRS5140744", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A9", "GSM3964277", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A9", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964277", "GSM3964277: Adipose KO A9; Danio rerio; RNA Seq", "GSM3964277", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964277", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A9_S68_R1_001.fastq KO-A9_S68_R2_001.fastq", "fastq fastq", 5146879384.0, 34123155.0, "GSM3964277 r1", "0:75.44 1:75.40", "A:1308295304;C:1251385303;G:1224804381;T:1356968336;N:5426060", 75, 75, null, null, 1308295304, 1251385303, 1224804381, 1356968336, 5426060, "SRX6492148", "SRS5140744", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93651, 0.93824, 0.02355, 0.02291, 0.72841, 0.73024, 0.47075, 0.46919, 76, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53263, "SRR9735187", "SRX6492147", "SRS5140743", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A8", "GSM3964276", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A8", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964276", "GSM3964276: Adipose KO A8; Danio rerio; RNA Seq", "GSM3964276", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964276", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A8_S67_R1_001.fastq KO-A8_S67_R2_001.fastq", "fastq fastq", 6451988817.0, 42793124.0, "GSM3964276 r1", "0:75.42 1:75.35", "A:1683086295;C:1528898615;G:1498099595;T:1733026886;N:8877426", 75, 75, null, null, 1683086295, 1528898615, 1498099595, 1733026886, 8877426, "SRX6492147", "SRS5140743", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93365, 0.93498, 0.07705, 0.0772, 0.64305, 0.64695, 0.48242, 0.49262, 76, 74, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53264, "SRR9735186", "SRX6492146", "SRS5140742", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A7", "GSM3964275", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A7", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964275", "GSM3964275: Adipose KO A7; Danio rerio; RNA Seq", "GSM3964275", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964275", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A7_S66_R1_001.fastq KO-A7_S66_R2_001.fastq", "fastq fastq", 5216519024.0, 34658426.0, "GSM3964275 r1", "0:75.29 1:75.22", "A:1355357386;C:1236474760;G:1213941961;T:1396130960;N:14613957", 75, 75, null, null, 1355357386, 1236474760, 1213941961, 1396130960, 14613957, "SRX6492146", "SRS5140742", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93221, 0.93203, 0.08221, 0.08139, 0.63678, 0.63958, 0.48897, 0.49047, 76, 75, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53265, "SRR9735185", "SRX6492145", "SRS5140741", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A6", "GSM3964274", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A6", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964274", "GSM3964274: Adipose KO A6; Danio rerio; RNA Seq", "GSM3964274", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964274", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A6_S60_R1_001.fastq KO-A6_S60_R2_001.fastq", "fastq fastq", 5029559020.0, 33338985.0, "GSM3964274 r1", "0:75.47 1:75.39", "A:1315693469;C:1191236029;G:1161411700;T:1356918715;N:4299107", 75, 75, null, null, 1315693469, 1191236029, 1161411700, 1356918715, 4299107, "SRX6492145", "SRS5140741", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93307, 0.93431, 0.0803, 0.07962, 0.63556, 0.63842, 0.48626, 0.48677, 75, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53266, "SRR9735184", "SRX6492144", "SRS5140740", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A5", "GSM3964273", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A5", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964273", "GSM3964273: Adipose KO A5; Danio rerio; RNA Seq", "GSM3964273", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964273", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A5_S59_R1_001.fastq KO-A5_S59_R2_001.fastq", "fastq fastq", 4248040067.0, 28185659.0, "GSM3964273 r1", "0:75.40 1:75.32", "A:1109513588;C:1005952629;G:981560840;T:1144059315;N:6953695", 75, 75, null, null, 1109513588, 1005952629, 981560840, 1144059315, 6953695, "SRX6492144", "SRS5140740", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93233, 0.9341, 0.07965, 0.07934, 0.64145, 0.64331, 0.4856, 0.4902, 75, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53267, "SRR9735183", "SRX6492143", "SRS5140739", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A4", "GSM3964272", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A4", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964272", "GSM3964272: Adipose KO A4; Danio rerio; RNA Seq", "GSM3964272", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964272", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A4_S58_R1_001.fastq KO-A4_S58_R2_001.fastq", "fastq fastq", 6392993509.0, 42397316.0, "GSM3964272 r1", "0:75.43 1:75.36", "A:1675757830;C:1504320009;G:1478667713;T:1726331052;N:7916905", 75, 75, null, null, 1675757830, 1504320009, 1478667713, 1726331052, 7916905, "SRX6492143", "SRS5140739", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93219, 0.93293, 0.07772, 0.07734, 0.63782, 0.64193, 0.4886, 0.49125, 75, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53268, "SRR9735182", "SRX6492142", "SRS5140738", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A3", "GSM3964271", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A3", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964271", "GSM3964271: Adipose KO A3; Danio rerio; RNA Seq", "GSM3964271", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964271", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A3_S57_R1_001.fastq KO-A3_S57_R2_001.fastq", "fastq fastq", 6746800381.0, 44738574.0, "GSM3964271 r1", "0:75.43 1:75.37", "A:1761609432;C:1594754083;G:1559830166;T:1823605880;N:7000820", 75, 75, null, null, 1761609432, 1594754083, 1559830166, 1823605880, 7000820, "SRX6492142", "SRS5140738", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93115, 0.9313, 0.07704, 0.07567, 0.63767, 0.63844, 0.49601, 0.5018, 75, 74, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53269, "SRR9735181", "SRX6492141", "SRS5140737", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A2", "GSM3964270", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A2", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964270", "GSM3964270: Adipose KO A2; Danio rerio; RNA Seq", "GSM3964270", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964270", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A2_S56_R1_001.fastq KO-A2_S56_R2_001.fastq", "fastq fastq", 5178912160.0, 34352174.0, "GSM3964270 r1", "0:75.42 1:75.34", "A:1355500844;C:1221527452;G:1199707224;T:1395740755;N:6435885", 75, 75, null, null, 1355500844, 1221527452, 1199707224, 1395740755, 6435885, "SRX6492141", "SRS5140737", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93426, 0.93454, 0.07738, 0.07682, 0.64212, 0.6464, 0.48878, 0.49331, 73, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53270, "SRR9735180", "SRX6492140", "SRS5140736", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose KO A1", "GSM3964269", null, "source name:Adipose|genotype:ASC 1 KO|age:6 month|tissue:Adipose", "Adipose KO A1", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:ASC 1 KO|age:6 month|tissue:Adipose", "GSM3964269", "GSM3964269: Adipose KO A1; Danio rerio; RNA Seq", "GSM3964269", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964269", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "KO-A1_S55_R1_001.fastq KO-A1_S55_R2_001.fastq", "fastq fastq", 5542839857.0, 36746361.0, "GSM3964269 r1", "0:75.44 1:75.40", "A:1446459244;C:1311682387;G:1288685673;T:1491071107;N:4941446", 75, 75, null, null, 1446459244, 1311682387, 1288685673, 1491071107, 4941446, "SRX6492140", "SRS5140736", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93776, 0.93895, 0.04491, 0.04446, 0.67675, 0.67872, 0.41719, 0.42005, 76, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53271, "SRR9735179", "SRX6492139", "SRS5140735", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A11", "GSM3964268", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A11", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964268", "GSM3964268: Adipose WT A11; Danio rerio; RNA Seq", "GSM3964268", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964268", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A11_S65_R1_001.fastq WT-A11_S65_R2_001.fastq", "fastq fastq", 5857223474.0, 38844475.0, "GSM3964268 r1", "0:75.43 1:75.36", "A:1521095503;C:1393796570;G:1358405170;T:1576525007;N:7401224", 75, 75, null, null, 1521095503, 1393796570, 1358405170, 1576525007, 7401224, "SRX6492139", "SRS5140735", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.9333, 0.93417, 0.07614, 0.07626, 0.64076, 0.64325, 0.49571, 0.49874, 76, 75, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53272, "SRR9735178", "SRX6492138", "SRS5140734", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A10", "GSM3964267", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A10", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964267", "GSM3964267: Adipose WT A10; Danio rerio; RNA Seq", "GSM3964267", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964267", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A10_S64_R1_001.fastq WT-A10_S64_R2_001.fastq", "fastq fastq", 5309702286.0, 35198072.0, "GSM3964267 r1", "0:75.46 1:75.39", "A:1388459753;C:1253922327;G:1230145617;T:1432366497;N:4808092", 75, 75, null, null, 1388459753, 1253922327, 1230145617, 1432366497, 4808092, "SRX6492138", "SRS5140734", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.9317, 0.93346, 0.08434, 0.0851, 0.63984, 0.64425, 0.48934, 0.49315, 76, 75, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53273, "SRR9735177", "SRX6492137", "SRS5140733", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A9", "GSM3964266", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A9", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964266", "GSM3964266: Adipose WT A9; Danio rerio; RNA Seq", "GSM3964266", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964266", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A9_S63_R1_001.fastq WT-A9_S63_R2_001.fastq", "fastq fastq", 4236242483.0, 28084714.0, "GSM3964266 r1", "0:75.45 1:75.38", "A:1109376701;C:1000854007;G:974810548;T:1146740655;N:4460572", 75, 75, null, null, 1109376701, 1000854007, 974810548, 1146740655, 4460572, "SRX6492137", "SRS5140733", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.9309, 0.93204, 0.08077, 0.0797, 0.63591, 0.63696, 0.48176, 0.4882, 75, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53274, "SRR9735176", "SRX6492136", "SRS5140732", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A8", "GSM3964265", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A8", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964265", "GSM3964265: Adipose WT A8; Danio rerio; RNA Seq", "GSM3964265", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964265", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A8_S62_R1_001.fastq WT-A8_S62_R2_001.fastq", "fastq fastq", 4940494520.0, 32753328.0, "GSM3964265 r1", "0:75.46 1:75.38", "A:1295977907;C:1165807642;G:1138647407;T:1335314520;N:4747044", 75, 75, null, null, 1295977907, 1165807642, 1138647407, 1335314520, 4747044, "SRX6492136", "SRS5140732", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93086, 0.93278, 0.08264, 0.08266, 0.63577, 0.6383, 0.49385, 0.48993, 76, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53275, "SRR9735175", "SRX6492135", "SRS5140731", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A7", "GSM3964264", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A7", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964264", "GSM3964264: Adipose WT A7; Danio rerio; RNA Seq", "GSM3964264", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964264", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A7_S61_R1_001.fastq WT-A7_S61_R2_001.fastq", "fastq fastq", 5512616919.0, 36544990.0, "GSM3964264 r1", "0:75.45 1:75.39", "A:1452114567;C:1290637600;G:1266464795;T:1497383449;N:6016508", 75, 75, null, null, 1452114567, 1290637600, 1266464795, 1497383449, 6016508, "SRX6492135", "SRS5140731", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93121, 0.93118, 0.09277, 0.09194, 0.62591, 0.63023, 0.49799, 0.50579, 76, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53276, "SRR9735174", "SRX6492134", "SRS5140730", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A6", "GSM3964263", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A6", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964263", "GSM3964263: Adipose WT A6; Danio rerio; RNA Seq", "GSM3964263", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964263", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A6_S54_R1_001.fastq WT-A6_S54_R2_001.fastq", "fastq fastq", 5724404718.0, 37976322.0, "GSM3964263 r1", "0:75.40 1:75.34", "A:1494251238;C:1350286944;G:1328643993;T:1541931890;N:9290653", 75, 75, null, null, 1494251238, 1350286944, 1328643993, 1541931890, 9290653, "SRX6492134", "SRS5140730", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93006, 0.93284, 0.08404, 0.08457, 0.63471, 0.63851, 0.49167, 0.49936, 76, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53277, "SRR9735173", "SRX6492133", "SRS5140729", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A5", "GSM3964262", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A5", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964262", "GSM3964262: Adipose WT A5; Danio rerio; RNA Seq", "GSM3964262", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964262", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A5_S53_R1_001.fastq WT-A5_S53_R2_001.fastq", "fastq fastq", 4659158769.0, 30909376.0, "GSM3964262 r1", "0:75.40 1:75.33", "A:1221375603;C:1098925945;G:1074577334;T:1257075301;N:7204586", 75, 75, null, null, 1221375603, 1098925945, 1074577334, 1257075301, 7204586, "SRX6492133", "SRS5140729", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.93225, 0.93214, 0.08272, 0.082, 0.63617, 0.63993, 0.49384, 0.49616, 74, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53278, "SRR9735172", "SRX6492132", "SRS5140728", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A4", "GSM3964261", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A4", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964261", "GSM3964261: Adipose WT A4; Danio rerio; RNA Seq", "GSM3964261", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964261", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A4_S52_R1_001.fastq WT-A4_S52_R2_001.fastq", "fastq fastq", 7788950127.0, 51651988.0, "GSM3964261 r1", "0:75.43 1:75.36", "A:2051073731;C:1826674351;G:1787914965;T:2114738619;N:8548461", 75, 75, null, null, 2051073731, 1826674351, 1787914965, 2114738619, 8548461, "SRX6492132", "SRS5140728", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.92964, 0.92925, 0.09108, 0.09118, 0.63287, 0.63721, 0.48738, 0.49099, 76, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53279, "SRR9735171", "SRX6492131", "SRS5140727", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A3", "GSM3964260", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A3", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964260", "GSM3964260: Adipose WT A3; Danio rerio; RNA Seq", "GSM3964260", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964260", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A3_S51_R1_001.fastq WT-A3_S51_R2_001.fastq", "fastq fastq", 5588378020.0, 37052916.0, "GSM3964260 r1", "0:75.45 1:75.37", "A:1469832305;C:1313012667;G:1286542723;T:1514017333;N:4972992", 75, 75, null, null, 1469832305, 1313012667, 1286542723, 1514017333, 4972992, "SRX6492131", "SRS5140727", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.92914, 0.92954, 0.08888, 0.08846, 0.6336, 0.63573, 0.48669, 0.49048, 75, 75, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53280, "SRR9735170", "SRX6492130", "SRS5140726", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A2", "GSM3964259", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A2", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964259", "GSM3964259: Adipose WT A2; Danio rerio; RNA Seq", "GSM3964259", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964259", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A2_S50_R1_001.fastq WT-A2_S50_R2_001.fastq", "fastq fastq", 5155694538.0, 34195331.0, "GSM3964259 r1", "0:75.42 1:75.35", "A:1348612302;C:1218323703;G:1189107260;T:1393758155;N:5893118", 75, 75, null, null, 1348612302, 1218323703, 1189107260, 1393758155, 5893118, "SRX6492130", "SRS5140726", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.92918, 0.92952, 0.08351, 0.08186, 0.62832, 0.63027, 0.48677, 0.49178, 75, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [53281, "SRR9735169", "SRX6492129", "SRS5140725", "SRP216059", "PRJNA556239", "Adipocyte serine uptake curbs ROS generation and visceral adiposity [Zebrafish]", "GSE134733", "Transcriptome Analysis", "Obesity and visceral adiposity in particular increases the risk of common metabolic diseases including type 2 diabetes cardiovascular disease and several forms of cancer. However the molecular mechanisms responsible for regional fat storage remain poorly characterized preventing therapeutic innovation. We here applied a systematic genome wide screen and translational approach and discovered a novel role for the adipocyte expressed neutral amino acid transporter SLC7A10/ASC 1 in the regulation of visceral adiposity. Among 65 genes showing both adipose depot dependent and fat loss dependent expression 27 genes further showed significant correlations with waist to hip WHR ratio adjusted for BMI. Among these ASC 1 was expressed at the highest level in isolated visceral adipocytes. Further we found decreased ASC 1 mRNA in visceral and not subcutaneous adipose tissue in carriers of the KLF14 type 2 diabetes risk allele compared to the protective allele. By profiling amino acid fluxes during adipocyte differentiation in vitro we found that ASC 1 inhibition by a selective inhibitor decreased adipocyte uptake particularly of serine in mature adipocytes. Interestingly radiometric amino acid uptake assays showed ASC 1 dependent uptake of the serine D enantiomere. Using primary human and murine adipocyte models we uncovered marked effects of inhibiting ASC 1 on mitochondrial respiratory capacity within hours and lipid accumulation within days. Finally Asc 1 knockout KO zebrafish had increased body weight and adipocyte enlargement upon eight week overfeeding compared to wild type WT fish. RNA sequencing data from zebrafish adipose tissue showed up regulation of genes involved in fatty acid and lipid metabolism in the ASC 1 KOs consistent with the increased lipid accumulation in the inhibitor treated cell models. Additionally duox an enzyme involved in ROS generation showed higher expression in the KOs compared to the WTs. Importantly we confirmed increased reactive oxygen species ROS generation within minutes and within hours when inhibiting ASC 1 in our in vitro cell models. Our study points to increased ROS generation and reduced mitochondrial respiratory capacity as central early mechanisms in development of visceral adiposity and a role for adipocyte D serine transport via ASC 1 in these processes. Enhancing ASC 1 expression and/or activity in adipocytes likely through primary effects on one carbon metabolism and redox balance is a promising therapeutic strategy for reducing visceral adiposity and related diseases. Overall design: Total RNA Seq of Zebrafish adipose tissue were sequenced on the Illumina HiSeq4000 platform", "parent bioproject:PRJNA557596", null, null, "Adipose WT A1", "GSM3964258", null, "source name:Adipose|genotype:WT|age:6 month|tissue:Adipose", "Adipose WT A1", "Illumina Casava v1.8 Reads were aligned to the Zebrafish reference genome GRCz10 using HiSat Version 2.05 with options \u201chisat2 align s wrapper basic 0 p 140\u201d Aligned reads were then put into featureCounts Version 1.5.2 with options \u201cfeatureCounts T 64 p t exon g gene id\u201d Differential expression analysis was performed via DESeq2 Version 1.14.1 Genome build: GRCz10 Supplementary files format and content: tab delimited text files include DESeq2 normalised counts for each Sample ...", "Adipose", "Individuals were overfed for a period of 2 month on GEMMA Micro 500 Skretting USA 3 times per day and given 3 drops of freshly hatched Artemia once per day.", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "Zebrafish were housed in 3 litre tanks for a period of 4 month and subsequently housed for a further 2 month in 1.5 litre tanks with 3 individuals per tank.", "genotype:WT|age:6 month|tissue:Adipose", "GSM3964258", "GSM3964258: Adipose WT A1; Danio rerio; RNA Seq", "GSM3964258", null, "1", "Tissue biopsies from three fish in each tank were pooled together snap frozen and processed for kit based extraction of RNA using the RNeasy kit QIAGEN and quality checked via spectrophotometer. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3964258", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP216059", null, null, "WT-A1_S49_R1_001.fastq WT-A1_S49_R2_001.fastq", "fastq fastq", 4250306891.0, 28182505.0, "GSM3964258 r1", "0:75.44 1:75.37", "A:1119067057;C:999399803;G:974466658;T:1152728469;N:4644904", 75, 75, null, null, 1119067057, 999399803, 974466658, 1152728469, 4644904, "SRX6492129", "SRS5140725", "SRA925242", "GEO", "Hormone Laboratory, Clinical Institute, University of Bergen", 2, 0.92921, 0.93037, 0.08377, 0.08425, 0.63727, 0.64122, 0.48849, 0.49306, 75, 76, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Norway", "2019-07-23", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [66302, "SRR16292398", "SRX12571558", "SRS10528531", "SRP340859", "PRJNA770361", "Transcriptome analysis of scd5 homologous deficiency zebrafish", "PRJNA770361", "Other", "Detection of expression changes in zebrafish visceral adipose and subcutaneous adipose tissue transcriptome under homologous deficiency of scd5 and dietary supplement of w3 PUFA.", null, null, null, null, "scd5+DE SAT", null, "strain:scd5 / |isolate:dietary supplement of DHA and EPA|dev stage:4mpf|sex:male|tissue:Subcutaneous adipose tissue|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of scd5 / Danio rario with diet of PUFA: adult male SAT", "scd5 3 M", "scd5 3 M", "RNA seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina San Diego CA using 5g of total RNA. Shortly messenger RNA was isolated according to polyA selection method by oligodT beads and then fragmented by fragmentation buffer firstly. Secondly double stranded cDNA was synthesized using a SuperScript double stranded cDNA synthesis kit Invitrogen CA with random hexamer primers Illumina. Then the synthesized cDNA was subjected to end repair phosphorylation and A base addition according to Illuminas library construction protocol. Libraries were size selected for cDNA target fragments of 200300 bp on 2% Low Range Ultra Agarose followed by PCR amplified using Phusion DNA polymerase NEB for 15 PCR cycles. post quantified by TBS380 paired end RNA seq sequencing library was sequenced with the Illumina HiSeq 4000 2 150bp read length.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP340859", null, null, "scd3_M.R1.fastq.gz scd3_M.R2.fastq.gz", "fastq fastq", 6745182684.0, 22335042.0, "scd3 M.R1.fastq.gz", "0:151 1:151", "A:1765346125;C:1595704052;G:1623853268;T:1760176500;N:102739", 151, 151, null, null, 1765346125, 1595704052, 1623853268, 1760176500, 102739, "SRX12571558", "SRS10528531", null, null, "Children's Hospital of Fudan University", 2, 0.93913, 0.93015, 0.06513, 0.06469, 0.63631, 0.63824, 0.48153, 0.48017, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "China", "2021-10-11", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [66303, "SRR16292399", "SRX12571557", "SRS10528530", "SRP340859", "PRJNA770361", "Transcriptome analysis of scd5 homologous deficiency zebrafish", "PRJNA770361", "Other", "Detection of expression changes in zebrafish visceral adipose and subcutaneous adipose tissue transcriptome under homologous deficiency of scd5 and dietary supplement of w3 PUFA.", null, null, null, null, "scd5 SAT", null, "strain:scd5 / |dev stage:4mpf|sex:male|tissue:Subcutaneous adipose tissue|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of scd5 / Danio rario: adult male SAT", "scd5 0 M", "scd5 0 M", "RNA seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina San Diego CA using 5g of total RNA. Shortly messenger RNA was isolated according to polyA selection method by oligodT beads and then fragmented by fragmentation buffer firstly. Secondly double stranded cDNA was synthesized using a SuperScript double stranded cDNA synthesis kit Invitrogen CA with random hexamer primers Illumina. Then the synthesized cDNA was subjected to end repair phosphorylation and A base addition according to Illuminas library construction protocol. Libraries were size selected for cDNA target fragments of 200300 bp on 2% Low Range Ultra Agarose followed by PCR amplified using Phusion DNA polymerase NEB for 15 PCR cycles. post quantified by TBS380 paired end RNA seq sequencing library was sequenced with the Illumina HiSeq 4000 2 150bp read length.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP340859", null, null, "scd0_M.R1.fastq.gz scd0_M.R2.fastq.gz", "fastq fastq", 6609239196.0, 21884898.0, "scd0 M.R1.fastq.gz", "0:151 1:151", "A:1727886993;C:1565529312;G:1593133073;T:1722589181;N:100637", 151, 151, null, null, 1727886993, 1565529312, 1593133073, 1722589181, 100637, "SRX12571557", "SRS10528530", null, null, "Children's Hospital of Fudan University", 2, 0.93103, 0.92201, 0.05665, 0.05579, 0.63731, 0.63875, 0.47603, 0.48482, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "China", "2021-10-11", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [66304, "SRR16292400", "SRX12571556", "SRS10528529", "SRP340859", "PRJNA770361", "Transcriptome analysis of scd5 homologous deficiency zebrafish", "PRJNA770361", "Other", "Detection of expression changes in zebrafish visceral adipose and subcutaneous adipose tissue transcriptome under homologous deficiency of scd5 and dietary supplement of w3 PUFA.", null, null, null, null, "ab SAT", null, "strain:ab|dev stage:4mpf|sex:male|tissue:Subcutaneous adipose tissue|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rario: adult male SAT", "ab0 M", "ab0 M", "RNA seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina San Diego CA using 5g of total RNA. Shortly messenger RNA was isolated according to polyA selection method by oligodT beads and then fragmented by fragmentation buffer firstly. Secondly double stranded cDNA was synthesized using a SuperScript double stranded cDNA synthesis kit Invitrogen CA with random hexamer primers Illumina. Then the synthesized cDNA was subjected to end repair phosphorylation and A base addition according to Illuminas library construction protocol. Libraries were size selected for cDNA target fragments of 200300 bp on 2% Low Range Ultra Agarose followed by PCR amplified using Phusion DNA polymerase NEB for 15 PCR cycles. post quantified by TBS380 paired end RNA seq sequencing library was sequenced with the Illumina HiSeq 4000 2 150bp read length.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP340859", null, null, "ab0_M.R1.fastq.gz ab0_M.R2.fastq.gz", "fastq fastq", 6414355576.0, 21239588.0, "ab0 M.R1.fastq.gz", "0:151 1:151", "A:1686199414;C:1513903010;G:1536678772;T:1677477213;N:97167", 151, 151, null, null, 1686199414, 1513903010, 1536678772, 1677477213, 97167, "SRX12571556", "SRS10528529", null, null, "Children's Hospital of Fudan University", 2, 0.94035, 0.93293, 0.0647, 0.06386, 0.6323, 0.63341, 0.48645, 0.48681, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "China", "2021-10-11", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [66305, "SRR16292401", "SRX12571555", "SRS10528528", "SRP340859", "PRJNA770361", "Transcriptome analysis of scd5 homologous deficiency zebrafish", "PRJNA770361", "Other", "Detection of expression changes in zebrafish visceral adipose and subcutaneous adipose tissue transcriptome under homologous deficiency of scd5 and dietary supplement of w3 PUFA.", null, null, null, null, "scd5+DE VAT", null, "strain:scd5 / |isolate:dietary supplement of DHA and EPA|dev stage:4mpf|sex:male|tissue:visceral adipose tissue|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of scd5 / Danio rario with diet of PUFA: adult male VAT", "scd5 3 L", "scd5 3 L", "RNA seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina San Diego CA using 5g of total RNA. Shortly messenger RNA was isolated according to polyA selection method by oligodT beads and then fragmented by fragmentation buffer firstly. Secondly double stranded cDNA was synthesized using a SuperScript double stranded cDNA synthesis kit Invitrogen CA with random hexamer primers Illumina. Then the synthesized cDNA was subjected to end repair phosphorylation and A base addition according to Illuminas library construction protocol. Libraries were size selected for cDNA target fragments of 200300 bp on 2% Low Range Ultra Agarose followed by PCR amplified using Phusion DNA polymerase NEB for 15 PCR cycles. post quantified by TBS380 paired end RNA seq sequencing library was sequenced with the Illumina HiSeq 4000 2 150bp read length.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP340859", null, null, "scd3_L.R1.fastq.gz scd3_L.R2.fastq.gz", "fastq fastq", 6489926244.0, 21489822.0, "scd3 L.R1.fastq.gz", "0:151 1:151", "A:1673067907;C:1553308451;G:1582201247;T:1681249645;N:98994", 151, 151, null, null, 1673067907, 1553308451, 1582201247, 1681249645, 98994, "SRX12571555", "SRS10528528", null, null, "Children's Hospital of Fudan University", 2, 0.94228, 0.93373, 0.02579, 0.02582, 0.71047, 0.71173, 0.50387, 0.50723, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "China", "2021-10-11", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [66306, "SRR16292402", "SRX12571554", "SRS10528527", "SRP340859", "PRJNA770361", "Transcriptome analysis of scd5 homologous deficiency zebrafish", "PRJNA770361", "Other", "Detection of expression changes in zebrafish visceral adipose and subcutaneous adipose tissue transcriptome under homologous deficiency of scd5 and dietary supplement of w3 PUFA.", null, null, null, null, "scd5 VAT", null, "strain:scd5 / |dev stage:4mpf|sex:male|tissue:visceral adipose tissue|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of scd5 / Danio rario: adult male VAT", "scd5 0 L", "scd5 0 L", "RNA seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina San Diego CA using 5g of total RNA. Shortly messenger RNA was isolated according to polyA selection method by oligodT beads and then fragmented by fragmentation buffer firstly. Secondly double stranded cDNA was synthesized using a SuperScript double stranded cDNA synthesis kit Invitrogen CA with random hexamer primers Illumina. Then the synthesized cDNA was subjected to end repair phosphorylation and A base addition according to Illuminas library construction protocol. Libraries were size selected for cDNA target fragments of 200300 bp on 2% Low Range Ultra Agarose followed by PCR amplified using Phusion DNA polymerase NEB for 15 PCR cycles. post quantified by TBS380 paired end RNA seq sequencing library was sequenced with the Illumina HiSeq 4000 2 150bp read length.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP340859", null, null, "scd0_L.R1.fastq.gz scd0_L.R2.fastq.gz", "fastq fastq", 6940147542.0, 22980621.0, "scd0 L.R1.fastq.gz", "0:151 1:151", "A:1777349154;C:1663070037;G:1697971696;T:1801650476;N:106179", 151, 151, null, null, 1777349154, 1663070037, 1697971696, 1801650476, 106179, "SRX12571554", "SRS10528527", null, null, "Children's Hospital of Fudan University", 2, 0.94273, 0.93332, 0.03159, 0.03113, 0.76753, 0.76887, 0.56506, 0.56717, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "China", "2021-10-11", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [66307, "SRR16292403", "SRX12571553", "SRS10528526", "SRP340859", "PRJNA770361", "Transcriptome analysis of scd5 homologous deficiency zebrafish", "PRJNA770361", "Other", "Detection of expression changes in zebrafish visceral adipose and subcutaneous adipose tissue transcriptome under homologous deficiency of scd5 and dietary supplement of w3 PUFA.", null, null, null, null, "ab VAT", null, "strain:ab|dev stage:4mpf|sex:male|tissue:visceral adipose tissue|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rario: adult male VAT", "ab0 L", "ab0 L", "RNA seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina San Diego CA using 5g of total RNA. Shortly messenger RNA was isolated according to polyA selection method by oligodT beads and then fragmented by fragmentation buffer firstly. Secondly double stranded cDNA was synthesized using a SuperScript double stranded cDNA synthesis kit Invitrogen CA with random hexamer primers Illumina. Then the synthesized cDNA was subjected to end repair phosphorylation and A base addition according to Illuminas library construction protocol. Libraries were size selected for cDNA target fragments of 200300 bp on 2% Low Range Ultra Agarose followed by PCR amplified using Phusion DNA polymerase NEB for 15 PCR cycles. post quantified by TBS380 paired end RNA seq sequencing library was sequenced with the Illumina HiSeq 4000 2 150bp read length.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP340859", null, null, "ab0_L.R1.fastq.gz ab0_L.R2.fastq.gz", "fastq fastq", 7008737782.0, 23207741.0, "ab0 L.R1.fastq.gz", "0:151 1:151", "A:1798749961;C:1683894187;G:1713651140;T:1812336087;N:106407", 151, 151, null, null, 1798749961, 1683894187, 1713651140, 1812336087, 106407, "SRX12571553", "SRS10528526", null, null, "Children's Hospital of Fudan University", 2, 0.94465, 0.9362, 0.02302, 0.02266, 0.7119, 0.71238, 0.47109, 0.4709, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "China", "2021-10-11", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [70104, "SRR19548855", "SRX15600909", "SRS13301859", "SRP378691", "PRJNA846095", "Transcriptomic evolution across bilaterian tissues", "GSE205498", "Other", "We investigate tissue transcriptomic evolution across bilaterian animals by analyzing RNA seq data from eight different tissues across twenty species. Overall design: Characterization of ancestral and novel tissue gene expression patterns throughout bilaterian evolution.", null, "pubmed:35801824;pubmed:38622362;pubmed:39933573", null, "RNA seq of adult Danio rerio adipose tissue [Dre Adipose a]", "GSM6213744", null, "source name:Adult adipose tissue|tissue:Adipose|genome build:danRer10|gtf:danRer10 GTF enriched from Ensembl v80", "RNA seq of adult Danio rerio adipose tissue [Dre Adipose a]", "Estimated counts and TPMs were computed by Kallisto v0.44.0 Supplementary files format and content: Tab delimited file with length effective length estimated counts and transcript per million TPM for all species protein coding genes in the relative GTF", "Adult adipose tissue", null, "Rneasy plus Mini Kit Qiagen polyA selected stranded RNA seq; RNA libraries were prepared for sequencing using standard Illumina protocols", null, "tissue:Adipose|genome build:danRer10|gtf:danRer10 GTF enriched from Ensembl v80", "GSM6213744", "GSM6213744: RNA seq of adult Danio rerio adipose tissue [Dre Adipose a]; Danio rerio; RNA Seq", "GSM6213744 r1", "GSM6213744", "1", "Rneasy plus Mini Kit Qiagen polyA selected stranded RNA seq; RNA libraries were prepared for sequencing using standard Illumina protocols", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP378691", null, null, "Dre_Adipose_a_R1-125.fq.gz Dre_Adipose_a_R2-125.fq.gz", "fastq fastq", 19085464750.0, 76341859.0, "GSM6213744 r1", "0:125 1:125", "A:4736764645;C:4749222175;G:4787002077;T:4805028216;N:7447637", 125, 125, null, null, 4736764645, 4749222175, 4787002077, 4805028216, 7447637, "SRX15600909", "SRS13301859", "SRA1432871", "CRG", "CRG", 2, 0.97251, 0.97417, 0.02687, 0.02652, 0.72823, 0.72987, 0.55308, 0.53025, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2022-06-05", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [74641, "SRR26902472", "SRX22596599", "SRS19602930", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "cold eAT epicardial fat 6", "GSM7912825", null, "source name:adipose tissue|tissue:adipose tissue|cell line:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "cold eAT epicardial fat 6", "RNA seq data were processed and analyzed using pseudo mapping to the zebrafish transcriptome GRCz11 Ensembl and unique transcript counts were performed using Kallisto v0.46.1. Transcript level counts were summarized into gene counts using Tximport v1.22.0 and genes with over 10 counts were maintained. Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.34.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for cold treated eAT and control temperature epicardial adipocytes", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|cell line:epicardial fat|Sex:female", "GSM7912825", "GSM7912825: cold eAT epicardial fat 6; Danio rerio; RNA Seq", "GSM7912825 r1", "GSM7912825", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "18_EAT_3_S61_L003_R1_001.fastq.gz 18_EAT_3_S61_L003_R2_001.fastq.gz", "fastq fastq", 36579991200.0, 182899956.0, "GSM7912825 r1", "0:100 1:100", "A:8145461331;C:10304868211;G:10196177152;T:7931483805;N:2000701", 100, 100, null, null, 8145461331, 10304868211, 10196177152, 7931483805, 2000701, "SRX22596599", "SRS19602930", "SRA1755255", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.95229, 0.89455, 0.06603, 0.06146, 0.9347, 0.94028, 0.89248, 0.89618, 100, 100, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-11-21", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74642, "SRR26902473", "SRX22596598", "SRS19602928", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "cold eAT epicardial fat 5", "GSM7912824", null, "source name:adipose tissue|tissue:adipose tissue|cell line:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "cold eAT epicardial fat 5", "RNA seq data were processed and analyzed using pseudo mapping to the zebrafish transcriptome GRCz11 Ensembl and unique transcript counts were performed using Kallisto v0.46.1. Transcript level counts were summarized into gene counts using Tximport v1.22.0 and genes with over 10 counts were maintained. Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.34.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for cold treated eAT and control temperature epicardial adipocytes", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|cell line:epicardial fat|Sex:female", "GSM7912824", "GSM7912824: cold eAT epicardial fat 5; Danio rerio; RNA Seq", "GSM7912824 r1", "GSM7912824", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "18_EAT_2_S60_L003_R1_001.fastq.gz 18_EAT_2_S60_L003_R2_001.fastq.gz", "fastq fastq", 44027178200.0, 220135891.0, "GSM7912824 r1", "0:100 1:100", "A:9589007843;C:12544005309;G:12515602341;T:9376136142;N:2426565", 100, 100, null, null, 9589007843, 12544005309, 12515602341, 9376136142, 2426565, "SRX22596598", "SRS19602928", "SRA1755255", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.93679, 0.87737, 0.08679, 0.08125, 0.9151, 0.92263, 0.87011, 0.8743, 100, 100, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-11-21", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74643, "SRR26902474", "SRX22596597", "SRS19602929", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "cold eAT epicardial fat 4", "GSM7912823", null, "source name:adipose tissue|tissue:adipose tissue|cell line:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "cold eAT epicardial fat 4", "RNA seq data were processed and analyzed using pseudo mapping to the zebrafish transcriptome GRCz11 Ensembl and unique transcript counts were performed using Kallisto v0.46.1. Transcript level counts were summarized into gene counts using Tximport v1.22.0 and genes with over 10 counts were maintained. Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.34.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for cold treated eAT and control temperature epicardial adipocytes", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|cell line:epicardial fat|Sex:female", "GSM7912823", "GSM7912823: cold eAT epicardial fat 4; Danio rerio; RNA Seq", "GSM7912823 r1", "GSM7912823", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "18_EAT_1_S59_L003_R1_001.fastq.gz 18_EAT_1_S59_L003_R2_001.fastq.gz", "fastq fastq", 41270229600.0, 206351148.0, "GSM7912823 r1", "0:100 1:100", "A:9105294909;C:11691383796;G:11565493480;T:8905831583;N:2225832", 100, 100, null, null, 9105294909, 11691383796, 11565493480, 8905831583, 2225832, "SRX22596597", "SRS19602929", "SRA1755255", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.93662, 0.87723, 0.0769, 0.07242, 0.91952, 0.92579, 0.88027, 0.89176, 100, 100, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-11-21", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74644, "SRR26902475", "SRX22596596", "SRS19602927", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "control eAT epicardial fat 3", "GSM7912822", null, "source name:adipose tissue|tissue:adipose tissue|cell line:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "control eAT epicardial fat 3", "RNA seq data were processed and analyzed using pseudo mapping to the zebrafish transcriptome GRCz11 Ensembl and unique transcript counts were performed using Kallisto v0.46.1. Transcript level counts were summarized into gene counts using Tximport v1.22.0 and genes with over 10 counts were maintained. Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.34.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for cold treated eAT and control temperature epicardial adipocytes", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|cell line:epicardial fat|Sex:female", "GSM7912822", "GSM7912822: control eAT epicardial fat 3; Danio rerio; RNA Seq", "GSM7912822 r1", "GSM7912822", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "27_EAT_3_S58_L003_R1_001.fastq.gz 27_EAT_3_S58_L003_R2_001.fastq.gz", "fastq fastq", 43010873200.0, 215054366.0, "GSM7912822 r1", "0:100 1:100", "A:10273902176;C:11407089868;G:11344047061;T:9983469034;N:2365061", 100, 100, null, null, 10273902176, 11407089868, 11344047061, 9983469034, 2365061, "SRX22596596", "SRS19602927", "SRA1755255", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.95205, 0.89769, 0.06386, 0.06145, 0.92947, 0.93549, 0.90926, 0.91366, 100, 100, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-11-21", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74645, "SRR26902476", "SRX22596595", "SRS19602926", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "control eAT epicardial fat 2", "GSM7912821", null, "source name:adipose tissue|tissue:adipose tissue|cell line:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "control eAT epicardial fat 2", "RNA seq data were processed and analyzed using pseudo mapping to the zebrafish transcriptome GRCz11 Ensembl and unique transcript counts were performed using Kallisto v0.46.1. Transcript level counts were summarized into gene counts using Tximport v1.22.0 and genes with over 10 counts were maintained. Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.34.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for cold treated eAT and control temperature epicardial adipocytes", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|cell line:epicardial fat|Sex:female", "GSM7912821", "GSM7912821: control eAT epicardial fat 2; Danio rerio; RNA Seq", "GSM7912821 r1", "GSM7912821", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "27_EAT_2_S57_L003_R2_001.fastq.gz 27_EAT_2_S57_L003_R1_001.fastq.gz", "fastq fastq", 38133432200.0, 190667161.0, "GSM7912821 r1", "0:100 1:100", "A:9220777607;C:9949450800;G:9982624020;T:8978518929;N:2060844", 100, 100, null, null, 9220777607, 9949450800, 9982624020, 8978518929, 2060844, "SRX22596595", "SRS19602926", "SRA1755255", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.96342, 0.9072, 0.06324, 0.06041, 0.92717, 0.93318, 0.91146, 0.90224, 100, 100, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-11-21", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74646, "SRR26902477", "SRX22596594", "SRS19602925", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "control eAT epicardial fat 1", "GSM7912820", null, "source name:adipose tissue|tissue:adipose tissue|cell line:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "control eAT epicardial fat 1", "RNA seq data were processed and analyzed using pseudo mapping to the zebrafish transcriptome GRCz11 Ensembl and unique transcript counts were performed using Kallisto v0.46.1. Transcript level counts were summarized into gene counts using Tximport v1.22.0 and genes with over 10 counts were maintained. Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.34.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for cold treated eAT and control temperature epicardial adipocytes", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|cell line:epicardial fat|Sex:female", "GSM7912820", "GSM7912820: control eAT epicardial fat 1; Danio rerio; RNA Seq", "GSM7912820 r1", "GSM7912820", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "27_EAT_1_S56_L003_R1_001.fastq.gz 27_EAT_1_S56_L003_R2_001.fastq.gz", "fastq fastq", 39974303600.0, 199871518.0, "GSM7912820 r1", "0:100 1:100", "A:10036716123;C:10114630248;G:10121937185;T:9698802482;N:2217562", 100, 100, null, null, 10036716123, 10114630248, 10121937185, 9698802482, 2217562, "SRX22596594", "SRS19602925", "SRA1755255", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.95488, 0.8982, 0.04392, 0.04158, 0.94663, 0.95128, 0.93292, 0.93141, 100, 100, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-11-21", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74647, "SRR23908258", "SRX19719740", "SRS17086856", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "vAT visceral fat 3", "GSM7104994", null, "source name:adipose tissue|tissue:adipose tissue|tissue subtype:Viscerlal fat|Sex:female|geo loc name:missing|collection date:missing", "vAT visceral fat 3", "RNA seq data were processed and analyzed using the PiGx RNAseq pipeline version 0.0.19 The raw reads were mapped to the zebrafish genome using STAR aligner version 2.7.3a Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.32.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for eAT and vAT", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|tissue subtype:Viscerlal fat|Sex:female", "GSM7104994", "GSM7104994: vAT visceral fat 3; Danio rerio; RNA Seq", "GSM7104994 r1", "GSM7104994", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "vAT3_L001_R1.fastq.gz vAT3_L001_R2.fastq.gz", "fastq fastq", 10565948148.0, 52306674.0, "GSM7104994 r1", "0:101 1:101", "A:1907534975;C:3416174946;G:3360188823;T:1877111445;N:4937959", 101, 101, null, null, 1907534975, 3416174946, 3360188823, 1877111445, 4937959, "SRX19719740", "SRS17086856", "SRA1606837", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.95152, 0.88467, 0.18636, 0.18241, 0.93221, 0.93835, 0.76503, 0.78028, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-03-19", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74648, "SRR23908259", "SRX19719739", "SRS17086855", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "vAT visceral fat 2", "GSM7104993", null, "source name:adipose tissue|tissue:adipose tissue|tissue subtype:Viscerlal fat|Sex:female|geo loc name:missing|collection date:missing", "vAT visceral fat 2", "RNA seq data were processed and analyzed using the PiGx RNAseq pipeline version 0.0.19 The raw reads were mapped to the zebrafish genome using STAR aligner version 2.7.3a Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.32.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for eAT and vAT", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|tissue subtype:Viscerlal fat|Sex:female", "GSM7104993", "GSM7104993: vAT visceral fat 2; Danio rerio; RNA Seq", "GSM7104993 r1", "GSM7104993", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "vAT2_L001_R1.fastq.gz vAT2_L001_R2.fastq.gz", "fastq fastq", 9570642032.0, 47379416.0, "GSM7104993 r1", "0:101 1:101", "A:1723773940;C:3093746894;G:3053200070;T:1695451865;N:4469263", 101, 101, null, null, 1723773940, 3093746894, 3053200070, 1695451865, 4469263, "SRX19719739", "SRS17086855", "SRA1606837", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.93262, 0.87031, 0.18134, 0.17953, 0.95345, 0.95775, 0.75307, 0.78294, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-03-19", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74649, "SRR23908260", "SRX19719738", "SRS17086854", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "vAT visceral fat 1", "GSM7104992", null, "source name:adipose tissue|tissue:adipose tissue|tissue subtype:Viscerlal fat|Sex:female|geo loc name:missing|collection date:missing", "vAT visceral fat 1", "RNA seq data were processed and analyzed using the PiGx RNAseq pipeline version 0.0.19 The raw reads were mapped to the zebrafish genome using STAR aligner version 2.7.3a Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.32.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for eAT and vAT", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|tissue subtype:Viscerlal fat|Sex:female", "GSM7104992", "GSM7104992: vAT visceral fat 1; Danio rerio; RNA Seq", "GSM7104992 r1", "GSM7104992", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "vAT1_L001_R1.fastq.gz vAT1_L001_R2.fastq.gz", "fastq fastq", 8935423338.0, 44234769.0, "GSM7104992 r1", "0:101 1:101", "A:1612234838;C:2880684382;G:2851082026;T:1587227700;N:4194392", 101, 101, null, null, 1612234838, 2880684382, 2851082026, 1587227700, 4194392, "SRX19719738", "SRS17086854", "SRA1606837", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.92901, 0.87214, 0.18482, 0.18116, 0.95272, 0.957, 0.76369, 0.77972, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-03-19", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74650, "SRR23908261", "SRX19719737", "SRS17086853", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "eAT epicardial fat 3", "GSM7104991", null, "source name:adipose tissue|tissue:adipose tissue|tissue subtype:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "eAT epicardial fat 3", "RNA seq data were processed and analyzed using the PiGx RNAseq pipeline version 0.0.19 The raw reads were mapped to the zebrafish genome using STAR aligner version 2.7.3a Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.32.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for eAT and vAT", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|tissue subtype:epicardial fat|Sex:female", "GSM7104991", "GSM7104991: eAT epicardial fat 3; Danio rerio; RNA Seq", "GSM7104991 r1", "GSM7104991", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "eAT3_L001_R1.fastq.gz eAT3_L001_R2.fastq.gz", "fastq fastq", 9377159968.0, 46421584.0, "GSM7104991 r1", "0:101 1:101", "A:2098439200;C:2609083252;G:2593459500;T:2071786259;N:4391757", 101, 101, null, null, 2098439200, 2609083252, 2593459500, 2071786259, 4391757, "SRX19719737", "SRS17086853", "SRA1606837", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.93545, 0.8537, 0.11651, 0.10971, 0.87468, 0.88605, 0.81242, 0.83864, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-03-19", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74651, "SRR23908262", "SRX19719736", "SRS17086852", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "eAT epicardial fat 2", "GSM7104990", null, "source name:adipose tissue|tissue:adipose tissue|tissue subtype:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "eAT epicardial fat 2", "RNA seq data were processed and analyzed using the PiGx RNAseq pipeline version 0.0.19 The raw reads were mapped to the zebrafish genome using STAR aligner version 2.7.3a Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.32.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for eAT and vAT", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|tissue subtype:epicardial fat|Sex:female", "GSM7104990", "GSM7104990: eAT epicardial fat 2; Danio rerio; RNA Seq", "GSM7104990 r1", "GSM7104990", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "eAT2_L001_R1.fastq.gz eAT2_L001_R2.fastq.gz", "fastq fastq", 9217906400.0, 45633200.0, "GSM7104990 r1", "0:101 1:101", "A:2095369950;C:2541400234;G:2516772463;T:2060018641;N:4345112", 101, 101, null, null, 2095369950, 2541400234, 2516772463, 2060018641, 4345112, "SRX19719736", "SRS17086852", "SRA1606837", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.94554, 0.86763, 0.10304, 0.0988, 0.89079, 0.90035, 0.84365, 0.84363, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-03-19", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [74652, "SRR23908263", "SRX19719735", "SRS17086851", "SRP428087", "PRJNA946307", "The zebrafish heart harbors a thermogenic beige fat depot analog of human epicardial adipose tissue", "GSE227670", "Other", "The main goal of this study was to examine the presence and specific transcriptomic profile of epicardial adipose tissue eAT in zebrafish. We assessed how cold treatment affects the epicardial adipose tissue. Additional we provided some key differences between human mouse and zebrafish epicardial adipose tissue. Overall design: We compared the transcriptomes of zebrafish eAT epicardial adipose tissue and vAT visceral adipose tissue using RNA sequencing RNA Seq from adult female zebrafish. Adult zebrafish were acclimated from 27\u00b0C control temperature to 18\u00b0C by gradual reduction of tank water at the rate of 1 \u00b0C/h with an external water chiller. Cold acclimated fish were maintained at 18\u00b11\u00b0C for 24h while control fish were maintained at 27\u00b11\u00b0C. Hearts were isolated to harvest eAT for RNA sequencing", null, "pubmed:38507414", null, "eAT epicardial fat 1", "GSM7104989", null, "source name:adipose tissue|tissue:adipose tissue|tissue subtype:epicardial fat|Sex:female|geo loc name:missing|collection date:missing", "eAT epicardial fat 1", "RNA seq data were processed and analyzed using the PiGx RNAseq pipeline version 0.0.19 The raw reads were mapped to the zebrafish genome using STAR aligner version 2.7.3a Read count normalization and downstream analysis of differential gene expression was carried out using DESeq2 R package version 1.32.0 Assembly: GRCz11 Supplementary files format and content: Tab separated values of DESeq2 normalized counts for eAT and vAT", "adipose tissue", null, "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "tissue:adipose tissue|tissue subtype:epicardial fat|Sex:female", "GSM7104989", "GSM7104989: eAT epicardial fat 1; Danio rerio; RNA Seq", "GSM7104989 r1", "GSM7104989", "1", "Adipocytes were collected for RNA extraction. Total RNA was prepared using TRIzol Life Technologies 15596026 Libraries were prepared using SMARTer Stranded Total RNA Seq Kit v3 TaKaRa 634487 following manufacturer's protocols.", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP428087", null, "loader:fastq load.py", "eAT1_L001_R1.fastq.gz eAT1_L001_R2.fastq.gz", "fastq fastq", 13621771828.0, 67434514.0, "GSM7104989 r1", "0:101 1:101", "A:3232962486;C:3590754208;G:3575836334;T:3215920897;N:6297903", 101, 101, null, null, 3232962486, 3590754208, 3575836334, 3215920897, 6297903, "SRX19719735", "SRS17086851", "SRA1606837", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", "AG Sawamiphak, Max-Delbr\u00fcck-Centrum f\u00fcr Molekulare Medizin", 2, 0.90965, 0.81819, 0.20716, 0.17706, 0.84386, 0.85742, 0.76749, 0.76572, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "unknown", "unknown", null, "Germany", "2023-03-19", "Undetermined", "Adult", "Adipose Tissue", "Adipose Tissue"], [77253, "SRR25432801", "SRX21167056", "SRS18428841", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue 4% HCD diet Fish 4", "H 5 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:4% high cholesterol diet|Replicate:Fish 4|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue 4% HCD diet Fish 4", "H 5 Adipose", "H 5 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "H_5_Adipose_S13_L001_R1_001.fastq.gz H_5_Adipose_S13_L002_R1_001.fastq.gz H_5_Adipose_S13_L003_R1_001.fastq.gz H_5_Adipose_S13_L004_R1_001.fastq.gz", "fastq fastq fastq fastq", 2451969450.0, 32692926.0, "H 5 Adipose S13 L001 R1 001.fastq.gz", "0:75", "A:594449440;C:603429442;G:613467936;T:640525800;N:96832", 75, null, null, null, 594449440, 603429442, 613467936, 640525800, 96832, "SRX21167056", "SRS18428841", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.9497, null, 0.02663, null, 0.75132, null, 0.50461, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77254, "SRR25432802", "SRX21167055", "SRS18428838", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue 4% HCD diet Fish 3", "H 4 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:4% high cholesterol diet|Replicate:Fish 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue 4% HCD diet Fish 3", "H 4 Adipose", "H 4 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "H_4_Adipose_S12_L004_R1_001.fastq.gz H_4_Adipose_S12_L003_R1_001.fastq.gz H_4_Adipose_S12_L002_R1_001.fastq.gz H_4_Adipose_S12_L001_R1_001.fastq.gz", "fastq fastq fastq fastq", 2726199375.0, 36349325.0, "H 4 Adipose S12 L001 R1 001.fastq.gz", "0:75", "A:656159453;C:668829553;G:683259767;T:717842852;N:107750", 75, null, null, null, 656159453, 668829553, 683259767, 717842852, 107750, "SRX21167055", "SRS18428838", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.94692, null, 0.01408, null, 0.76406, null, 0.46793, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77255, "SRR25432803", "SRX21167054", "SRS18428839", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue 4% HCD diet Fish 2", "H 3 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:4% high cholesterol diet|Replicate:Fish 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue 4% HCD diet Fish 2", "H 3 Adipose", "H 3 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "H_3_Adipose_S10_L001_R1_001.fastq.gz H_3_Adipose_S10_L002_R1_001.fastq.gz H_3_Adipose_S10_L003_R1_001.fastq.gz H_3_Adipose_S10_L004_R1_001.fastq.gz", "fastq fastq fastq fastq", 2688606825.0, 35848091.0, "H 3 Adipose S10 L001 R1 001.fastq.gz", "0:75", "A:660810190;C:640144473;G:665399868;T:722147848;N:104446", 75, null, null, null, 660810190, 640144473, 665399868, 722147848, 104446, "SRX21167054", "SRS18428839", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.9536, null, 0.03224, null, 0.73361, null, 0.45126, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77256, "SRR25432804", "SRX21167053", "SRS18428840", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue 4% HCD diet Fish 1", "H 2 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:4% high cholesterol diet|Replicate:Fish 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue 4% HCD diet Fish 1", "H 2 Adipose", "H 2 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "H_2_Adipose_S9_L004_R1_001.fastq.gz H_2_Adipose_S9_L003_R1_001.fastq.gz H_2_Adipose_S9_L002_R1_001.fastq.gz H_2_Adipose_S9_L001_R1_001.fastq.gz", "fastq fastq fastq fastq", 2498108625.0, 33308115.0, "H 2 Adipose S9 L001 R1 001.fastq.gz", "0:75", "A:636972494;C:580511829;G:604198966;T:676328320;N:97016", 75, null, null, null, 636972494, 580511829, 604198966, 676328320, 97016, "SRX21167053", "SRS18428840", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.94491, null, 0.06922, null, 0.75726, null, 0.5635, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77257, "SRR25432805", "SRX21167052", "SRS18428837", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue Control diet Fish 4", "C 5 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:Control diet|Replicate:Fish 4|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue Control diet Fish 4", "C 5 Adipose", "C 5 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "C_5_Adipose_S7_L001_R1_001.fastq.gz C_5_Adipose_S7_L002_R1_001.fastq.gz C_5_Adipose_S7_L003_R1_001.fastq.gz C_5_Adipose_S7_L004_R1_001.fastq.gz", "fastq fastq fastq fastq", 2563785525.0, 34183807.0, "C 5 Adipose S7 L001 R1 001.fastq.gz", "0:75", "A:637947469;C:605870631;G:628121912;T:691743073;N:102440", 75, null, null, null, 637947469, 605870631, 628121912, 691743073, 102440, "SRX21167052", "SRS18428837", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.96664, null, 0.02865, null, 0.834, null, 0.27971, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77258, "SRR25432806", "SRX21167051", "SRS18428836", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue Control diet Fish 3", "C 4 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:Control diet|Replicate:Fish 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue Control diet Fish 3", "C 4 Adipose", "C 4 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "C_4_Adipose_S4_L004_R1_001.fastq.gz C_4_Adipose_S4_L003_R1_001.fastq.gz C_4_Adipose_S4_L002_R1_001.fastq.gz C_4_Adipose_S4_L001_R1_001.fastq.gz", "fastq fastq fastq fastq", 3511623000.0, 46821640.0, "C 4 Adipose S4 L001 R1 001.fastq.gz", "0:75", "A:856293655;C:770266027;G:990546207;T:894381906;N:135205", 75, null, null, null, 856293655, 770266027, 990546207, 894381906, 135205, "SRX21167051", "SRS18428836", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.94775, null, 0.0628, null, 0.7667, null, 0.53126, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77259, "SRR25432807", "SRX21167050", "SRS18429003", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue Control diet Fish 2", "C 3 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:Control diet|Replicate:Fish 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue Control diet Fish 2", "C 3 Adipose", "C 3 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. Library was prepared using TruSeq Stranded mRNA Library Prep Kit Illumina San Diego USA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "SINGLE", "ILLUMINA", "Illumina MiSeq", null, "SRP451621", null, null, "C_3_Adipose_S3_L001_R1_001.fastq.gz C_3_Adipose_S3_L002_R1_001.fastq.gz C_3_Adipose_S3_L003_R1_001.fastq.gz C_3_Adipose_S3_L004_R1_001.fastq.gz", "fastq fastq fastq fastq", 2209388625.0, 29458515.0, "C 3 Adipose S3 L001 R1 001.fastq.gz", "0:75", "A:547516154;C:527046595;G:550708343;T:584030443;N:87090", 75, null, null, null, 547516154, 527046595, 550708343, 584030443, 87090, "SRX21167050", "SRS18429003", "SRA1681062", "Carnegie Insitution for Science|Embryology", "Carnegie Insitution for Science", 1, 0.94878, null, 0.05665, null, 0.77384, null, 0.53783, null, 75, null, "B", null, "usable mapping rate", "illumina", "miseq", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2023-07-26", "Adult", "Adult", "Adipose Tissue", "Adipose Tissue"], [77260, "SRR25432808", "SRX21167049", "SRS18428835", "SRP451621", "PRJNA998935", "A new cholesterol diet protocol for zebrafish reveals hypercholesterolemia and fasting associated hepatic steatosis", "PRJNA998935", "Other", "Zebrafish are an ideal model organism to study lipid metabolism and to elucidate the molecular underpinnings of human lipid associated disorders. In this study we provide a protocol to assay the impact of a high cholesterol diet HCD on lipid deposition and lipoprotein regulation. Fish fed HCD developed hypercholesterolemia as indicated by significantly elevated ApoB containing lipoproteins ApoB LP and increased plasma levels of cholesterol and cholesterol esters CE. Feeding of the HCD was also associated with a fatty liver phenotype presented as severe hepatic steatosis in zebrafish larvae post feeding the diet for 8 days followed by fasting for 24 hours. Additionally 30 percent of all adult female fish were observed to develop hepatic steatosis post feeding HCD for 2 weeks followed by 3 days of fasting. The HCD feeding paradigm produced elevated levels of liver triacylglycerol TG free cholesterol and CE compared to fish fed the control diet. The doubling of liver TG was striking because our HCD was only supplemented with cholesterol. The accumulated TG in the liver was not likely due to increase de novo lipogenesis or inhibited beta oxidation since we identified no differentially expressed genes in these pathways between the livers of fish fed the HCD and the control diets. However fasted HCD fish had significantly increased expression of the lipogenesis gene fasn in adipose tissue and higher free fatty acids FFA in plasma. This suggested that elevated dietary cholesterol resulted in lipid accumulation in adipocytes which supplied more FFA during fasting promoting hepatic steatosis. In conclusion our HCD zebrafish protocol represents an effective and reliable approach for studying the temporal characteristics of the physiological and biochemical responses to high levels of dietary cholesterol and provides insights into the mechanisms that may underlie fatty liver disease.", null, null, null, "Adipose tissue Control diet Fish 1", "C 1 Adipose", null, "strain:AB|age:Adult|collection date:2022 11 18|geo loc name:USA: Baltimore|sex:female|tissue:Adipose|treatment:Control diet|Replicate:Fish 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Adipose tissue Control diet Fish 1", "C 1 Adipose", "C 1 Adipose", "Total RNA was extracted using Direct zol RNA Microprep Kits R2061 Zymo Research Irvine CA USA. 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