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Global cardiac gene expression in left ventricles from 20 day-old and 60 day-old Efnb1 CMspe KO and WT male mice

ABSTRACT: Global cardiac gene expression in left ventricles from 20 day-old and 60 day-old Efnb1 CMspe KO and WT male mice

PROVIDER: PRJNA804106 | ENA |

REPOSITORIES: ENA

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Global cardiac gene expression in left ventricles from 20 day-old and 60 day-old Efnb1 CMspe KO and WT male mice

Project description:To identify a physiologic postanal transcriptomic program between postnatal day 20 and 60, we first analyzed the gene expression profile in 60 day-old ( young adult) wild-type mice (WT) and compared it to 20 day-old WT mice To identify the gene expression between postnatal day 20 and 60 under the strict dependence of cardiac ephrin-B1, we compared gene expression in 20 day-old and 60 day-old Efnb1 CMspe KO (a-MHC-Cre-/+ Efnb1 flox/flox or) to 20 day-old and 60 day-old WT mice

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Left-right transcriptomic differences in adult male mouse heart ventricles

Project description:Left and right heart ventricles of adult male mice were profiled to determine the differences in gene expression, control, coordination and signaling fabrics Two-sides (L= left, R = right) gene expression profiling experiment in adult mouse male (M) ventricles (V). 4 biological replicates: MVL1-4, MVR1-4.

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Proteomic analysis of left ventricles containing the obscurin R4344Q mutation linked to hypertrophic cardiomyopathy and myocardia containing obscurin lacking Immunoglobulin domains 58/59 (Ig58/59)

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2020-06-18 | PXD017314 | Pride

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Transcriptome profiling of left ventricles from systemic MIAT knockout mice

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RNA sequencing identifies differentially expressed genes in adult left ventricles following in utero caffeine exposure during embryonic day 6.5-9.5

Project description:Purpose: This study aims to identify the differentially expressed genes in adult left ventricles treated with caffeine during early embryogenesis. Methods: Pregnant CD-1 mice were treated with vehicle (normal saline) or 20 mg/kg caffeine via i.p. injection once daily during embryonic day (E) 6.5-9.5. Pups were born and raised to one year of age. Left ventricles from adult male mice were dissected and used for total RNA isolation with the RNeasy Plus Mini kit (Valencia, CA, USA). mRNA was isolated from total RNA using NEXTflex™ Poly(A) Beads (Bioo Scientific, Austin, TX, USA). Sequencing libraries were prepared with the NEBNext® mRNA Library Prep Master Mix Set for Illumina (NEB, Ipswich, MA, USA) and the NEBNext Multiplex Oligos for Illumina (NEB). Illumina-adapted libraries (n=3/treatment) were pooled at equal molar ratio and sequenced with one High Output 1x75 cycles run on a NextSeq500 sequencer (Illumina, San Diego, CA, USA). The fastq files generated from RNA-Seq were uploaded to the UF Research Computing Galaxy instance developed by the University of Florida. The data were cleaned with the following steps: removed sequencing artifacts, trimmed 5’ or 3’ ends with low scores, removed adaptor contamination, and filtered low quality reads by the FastQC program. The remaining high quality RNA-Seq reads were mapped to the mouse genome (mm10) with the Tophat2 tool. Counting of RNA-Seq reads were performed with HTSeq. Differential expression (DE) of genes between treatments was analyzed using R package EdgeR, with Ensembl Mus_GRCm38.79.gtf as the reference annotation. Genes with false discovery rate (FDR) less than 0.05 and absolute fold change greater than 1.5 were considered as significant. Results: DE analysis revealed that 85 genes were up-regulated, and 31 genes were down-regulated in the adult left ventricles treated with in utero caffeine.

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