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Cardiac Sex Differences in the Transcriptome of C57 Male and Female E9.5 Hearts

ABSTRACT: Cardiac Sex Differences in the Transcriptome of C57 Male and Female E9.5 Hearts

PROVIDER: PRJNA757427 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15598832_1.fastq.gz	Fastqsanger.gz
	SRR15598832_2.fastq.gz	Fastqsanger.gz
	SRR15598833_1.fastq.gz	Fastqsanger.gz
	SRR15598833_2.fastq.gz	Fastqsanger.gz
	SRR15598834_1.fastq.gz	Fastqsanger.gz

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Cardiac Sex Differences in the Transcriptome of C57 Male and Female E9.5 Hearts

Project description:Purpose: The goals of this study are to compare E9.5 male and female C57 mouse embryonic hearts transcriptome profiling (RNA-seq) to conclude cardiac sex differences at the mRNA level. Methods: mRNA profiles of E9.5 male and female C57 mouse embryonic hearts were generated by deep sequencing, n=4 for each sex, using Illumina HiSeq2500. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Results: Using an optimized data analysis workflow, we mapped about 30 million sequence reads per sample to the mouse genome (build mm10) and identified 16,460 transcripts in the mouse hearts.

2021-08-25 | GSE182690 | GEO

Cardiac Sex Differences in the Transcriptome of C57 Male and Female Adult Hearts

Project description:Purpose: The goals of this study are to compare adult male and female C57 mouse hearts transcriptome profiling (RNA-seq) to conclude cardiac sex differences at the mRNA level. Methods: mRNA profiles of adult male and female C57 mouse hearts were generated by deep sequencing, n=4 for each sex, using Illumina HiSeq2500. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Results: Using an optimized data analysis workflow, we mapped about 50 million sequence reads per sample to the mouse genome (build mm10) and identified 16,160 transcripts in the mouse hearts.

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Cardiac Sex Differences in the Transcriptome of C57 Male and Female Adult Hearts

Project description:Cardiac Sex Differences in the Transcriptome of C57 Male and Female Adult Hearts

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Transcriptome of E9.5 WT and Smyd1-KO mouse hearts

Project description:Purpose: The goal of this study is to identify the differential cardiac transcriptome profiling between WT and Smyd1 null (Smyd1-KO) hearts at E9.5 using RNA-seq. Methods: mRNA profiles of E9.5 WT and Smyd1-KO mouse hearts were generated by deep sequencing, n=3 for each genotype, using Illumina HiSeq2500. The sequence reads were aligned to the mm10 reference genome using STAR via the bcbio-nextgen RNA-sequencing pipeline. Differential gene expression was determined by DEseq2. Results: 1756 genes were differentially expressed between WT and Smyd1-KO hearts [adjusted P value <0.05, |log2(Fold Change)| > 0.5], with 1130 upregulated and 626 downregulated in E9.5 Smyd1-KO hearts.

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Project description:Purpose: The goal of this study is to identify the differential cardiac chromatin accessibility between WT and Smyd1 null (Smyd1-KO) hearts at E9.5 using ATAC-seq. Methods: Four hearts at E9.5 were pooled per genotype per replicate, and were then dissociated into single cells. 40,000 viable cells were taken for were lysed to isolate nuclei, which were treated with Tn5 transposase (Nextera DNA Sample Prep Kit, Illumina) to isolate DNA. Fragmented DNA was then amplified using bar-coded PCR primers and libraries were seuqenced. Results: 25851 differential peaks (2-fold change) were identified between E9.5 WT and Smyd1-KO hearts.

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RNAseq analysis on e9.5 mutant mouse hearts

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Project description:We report RNAseq analysis on RNA from e9.5 hearts of Asb2 mutant and Asb2.Flna double mutants with controls. The goal of this study is to identify Asb2 downstream targets in the heart as well as targets that are corrected in the Asb2.Flna double mutant vs the Asb2 singe mutants.

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Gene expression in E9.5 hearts comparing wt with Arid3b-null embryos

Project description:We have analysed and compared mRNA expression between wt embryos and embryos deficient for Arid3b in E9.5 hearts, with the aim of identifying differentially expressed genes that could give us a clue to the functions of Arid3b during development. Hearts were dissected from E9.5 embryos (including the heart tube and the pharyngeal mesoderm and endoderm located beneath). Four wild-type and four mutant embryos were collected and pooled for each of the microarray triplicates.

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Gene expression in E9.5 hearts comparing wt with Arid3b-null embryos

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