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Next Generation Sequencing Facilitates Quantitative Analysis of C57BL/6J mice Incisor Transcriptomes at single cell level.

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of C57BL/6J mice Incisor Transcriptomes at single cell level.

PROVIDER: PRJNA645717 | ENA |

REPOSITORIES: ENA

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Next Generation Sequencing Facilitates Quantitative Analysis of C57BL/6J mice Incisor Transcriptomes at single cell level.

Project description:Purpose: Analysis the heterogeneity of the MSC population in the adult mouse incisor, using single cell RNA-sequence. Results: About 9,318 cells (~63,000 reads per cells) were successfully barcoded and their transcriptomes sequenced.

2020-07-13 | GSE154278 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of C57BL/6J mice.

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of C57BL/6J mice.

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Platelet proteomic analysis of exercising and standard-housed aged C57BL/6J mice

Project description:Platelets were isolated from standard-housed and exercising (4 days and 28 days) 18-month-old C57BL/6J mice and mass spectrometry performed. This analysis revealed differential proteomic signatures between platelets from exercsising and standard-housed mice.

2023-08-18 | PXD041701 | Pride

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Project description:Faecal microbiota composition across different C57BL/6J inbred mice generations

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C57BL/6J mice B and T cell LC-MSMS study

Project description:Proteome isolated from C57BL/6J mouse B and T cells are evluated for the presence of novel open reading frame products (nORFs). Translation products encoded by non canonical or novel open reading frame (ORF) genomic regions are generally considered too small to play any significant biological role, and dismissed as inconsequential. We conduct a systematic study of novel ORFs to gain new insights into normal biological and disease processes.

2021-09-09 | PXD022099 | Pride

RNA sequencing of C57BL/6J mice, heterozygous for knockout of Hnrnph1 gene, as well as C57BL/6J mice controls

Project description:Previous studies of congenic lines of C57BL/6J-DBA/2J mice compared to C57BL/6 mice revealed a 0.23 QTL for sensitivity to methamphetamine on chromosome 11, which contains two protein coding genes, Rufy1 and Hnrnph1. Subsequent transcription activator-like effector nucleases (TALENs)-mediated introduction of frameshift deletions in the first coding exon of one copy of Hnrnph1 of C57BL/6J mice, revealed comparable association to phenotype. Analysis of the transcriptome and splicesome between these Hnrnph1 heterozygous knockouts and C57BL/6J mice revealed genome-wide differentially expression and exon usage of more than 1000 genes in either.

2017-02-01 | GSE76929 | GEO

C57BL/6J tMCAO brain scRNAseq data

Project description:Single Cell RNA sequencing data from C57BL/6J mouse brain hemisphere after 24hours and 48hours after tMCAO surgery.

2022-05-25 | GSE197731 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of C57BL/6J mice.

Project description:Purpose: Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) is a method for mapping chromatin accessibility genome-wide. The goals of this study are to investigate chromatin accessibility of C57BL/6J mice through ATAC-seq. Results: ATAC-seq reads were aligned to the UCSC mm10 reference genome with BWA-MEM. ATAC-seq peaks were called through MACS2 . Peaks were annotated and known transcription factor binding motifs were further analyzed in the ATAC-seq peaks by HOMER.

2020-07-08 | GSE153993 | GEO

RNAseq analysis of two independent stains of C57BL/6J-Plat-/- mice and wild-type C57BL/6J.

Project description:The ability to generate defined null mutations in mice revolutionized the analysis of gene function in mammals. However, gene-deficient mice generated by using 129-derived embryonic stem (ES) cells may carry large segments of 129 DNA, even when extensively backcrossed to reference strains, such as C57BL/6J, and this may confound interpretation of experiments performed in these mice. Tissue plasminogen activator (tPA), encoded by the PLAT gene, is a fibrinolytic serine protease that is widely expressed in the brain. A large number of neurological abnormalities have been reported in tPA-deficient mice. The studies here compare genes differentially expressed in the brains of Plat-/- mice from two independent Plat-/- mouse derivations to wild-type C57BL/6J mice. One strain denoted “Old” was constructed in ES cells from a 129 mouse and backcrossed extensively to C57BL/6J, and one denoted “New” Plat-/- mouse was constructed using zinc finger nucleases directly in the C57BL/6J-Plat-/- mouse strain. We identify a significant set of genes that are differentially expressed in the brains of Old Plat-/- mice that preferentially cluster in the vicinity of Plat on chromosome 8, apparently linked to more than 20 Mbp of DNA flanking Plat being of 129 origin. No such clustering is seen in the New Plat-/- mice.

2016-12-16 | GSE76093 | GEO

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