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Transcriptome analysis of wildtype elmo1+/+ and homozygous elmo1-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 1]

ABSTRACT: Transcriptome analysis of wildtype elmo1+/+ and homozygous elmo1-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 1]

PROVIDER: PRJNA812404 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18211374.fastq.gz	Fastqsanger.gz
	SRR18211375.fastq.gz	Fastqsanger.gz
	SRR18211376.fastq.gz	Fastqsanger.gz
	SRR18211377.fastq.gz	Fastqsanger.gz
	SRR18211378.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of wildtype elmo1+/+ and homozygous elmo1-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 1]

Project description:Elmo1 is one member of the Elmo protein family. In our study we addressed the question if the functions of Elmo1, Elmo2 and Elmo3 are consistent or if they differ. With the CRISPR/Cas9 system we generated single knockout mutants of elmo1, elmo2 and elmo3 in the zebrafish. To assess the impact of the loss of one of the proteins on the transcriptome of a developing organism, we did RNA sequencing and transcriptome analysis with elmo1+/+ and elmo1-/-, elmo2+/+ and elmo2-/- and elmo3+/+ and elmo3-/- zebrafish larvae at 120 hours post fertilization. Here we provide the sequencing data of elmo1+/+ and elmo1-/-.

2022-07-25 | GSE197824 | GEO

Transcriptome analysis of wildtype elmo3+/+ and homozygous elmo3-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 3]

Project description:Elmo3 is one member of the Elmo protein family. In our study we addressed the question if the functions of Elmo1, Elmo2 and Elmo3 ware consistent or if they differ. With the CRISPR/Cas9 system we generated single knockout mutants of elmo1, elmo2 and elmo3 in the zebrafish. To assess the impact of the loss of one of the proteins on the transcriptome of a developing organism, we did RNA sequencing and transcriptome analysis with elmo1+/+ and elmo1-/-, elmo2+/+ and elmo2-/- and elmo3+/+ and elmo3-/- zebrafish larvae at 120 hours post fertilization. Here we provide the sequencing data of elmo3+/+ and elmo3-/-.

2022-07-25 | GSE197826 | GEO

Transcriptome analysis of wildtype elmo2+/+ and homozygous elmo2-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 2]

Project description:Elmo2 is one member of the Elmo protein family. In our study we addressed the question if the functions of Elmo1, Elmo2 and Elmo3 are consistent or if they differ. With the CRISPR/Cas9 system we generated single knockout mutants of elmo1, elmo2 and elmo3 in the zebrafish. To assess the impact of the loss of one of the proteins on the transcriptome of a developing organism, we did RNA sequencing and transcriptome analysis with elmo1+/+ and elmo1-/-, elmo2+/+ and elmo2-/- and elmo3+/+ and elmo3-/- zebrafish larvae at 120 hours post fertilization. Here we provide the sequencing data of elmo2+/+ and elmo2-/-.

2022-07-25 | GSE197825 | GEO

Transcriptome analysis of wildtype elmo3+/+ and homozygous elmo3-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 3]

Project description:Transcriptome analysis of wildtype elmo3+/+ and homozygous elmo3-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 3]

| PRJNA812402 | ENA

Transcriptome analysis of wildtype elmo2+/+ and homozygous elmo2-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 2]

Project description:Transcriptome analysis of wildtype elmo2+/+ and homozygous elmo2-/- knockout zebrafish larvae at 120 hpf through next generation RNA sequencing [dataset 2]

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Genome-wide chromatin accessibility and DNA methylation of wildtype zebrafish livers at 120 hpf

Project description:The goal of this study is genomic chromatin accessibility of 120 hpf zebrafish livers by ATAC-Seq. ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) and the DNA methylation profile using reduced representation bisulfite sequencing (RRBS).

2021-07-07 | GSE173792 | GEO

Transcriptome analysis of WT and homozygous elmo knockout zebrafish larvae at 120 hpf through next generation RNA sequencing

Project description:Transcriptome analysis of WT and homozygous elmo knockout zebrafish larvae at 120 hpf through next generation RNA sequencing

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Transcriptomic profiling of the liver from dnmt1 mutant zebrafish larvae compared to their phenotypically normal siblings at 120 hpf

Project description:In this dataset we performed RNA-seq on pools of livers dissected at 120 hpf from dnmt1(s904) mutants and phenotipically wild-type looking siblings.

2020-12-01 | GSE160726 | GEO

Transcriptomic profiling of whole larvae and the liver from dnmt1 mutant zebrafish larvae compared to their phenotypically normal siblings at 120 hpf

Project description:This SuperSeries is composed of the SubSeries listed below which has both RNAseq (from whole larvae and pools of dissected livers) and methylome profiling using reduced representation bisulfite sequencing (from whole larvae) at 120 hours post-fertilization (hpf).

2020-12-01 | GSE160728 | GEO

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Project description:The goal of this study is to compare gene expression levels in the livers of larval Tg(fabp10:nls-mcherry) exposed to 1 mM inorganic arsenic from 4-120 hpf to the unexposed siblings. Samples were collected from Tg(fabp10:nls-mcherry) zebrafish larvae that were derived from incrossed parents of the same strain. The background of transgenic lines were typically from mixed outcrosses of the transgenics to AB, TAB5, and TAB14 strains when regenerating the lines as the working stocks aged. All samples were collected at approximately 120 hpf - natural spawning at 8:30-9:00AM EST on day zero, samples were collected at 8-10AM EST on day 5.

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